Query 045400
Match_columns 313
No_of_seqs 234 out of 1435
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 12:52:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045400.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045400hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0048 Transcription factor, 100.0 7.5E-34 1.6E-38 261.9 10.7 112 14-125 4-115 (238)
2 PLN03091 hypothetical protein; 100.0 3.4E-33 7.3E-38 271.4 13.1 111 14-124 9-119 (459)
3 PLN03212 Transcription repress 100.0 2.1E-33 4.6E-38 256.1 10.9 111 13-123 19-129 (249)
4 KOG0050 mRNA splicing protein 99.8 6.3E-22 1.4E-26 194.6 2.2 162 16-181 4-165 (617)
5 KOG0049 Transcription factor, 99.8 5.4E-19 1.2E-23 177.6 6.5 102 13-115 354-456 (939)
6 KOG0049 Transcription factor, 99.7 1.8E-18 3.9E-23 173.9 4.3 113 11-123 245-412 (939)
7 PF13921 Myb_DNA-bind_6: Myb-l 99.7 5.1E-17 1.1E-21 118.7 3.4 60 22-83 1-60 (60)
8 COG5147 REB1 Myb superfamily p 99.6 2.3E-16 5E-21 158.2 4.5 108 14-122 15-122 (512)
9 KOG0051 RNA polymerase I termi 99.4 8.2E-14 1.8E-18 141.3 5.1 101 18-121 383-511 (607)
10 PF00249 Myb_DNA-binding: Myb- 99.4 3.1E-14 6.7E-19 99.8 1.0 48 19-66 1-48 (48)
11 PF00249 Myb_DNA-binding: Myb- 99.3 7.4E-13 1.6E-17 92.8 4.1 46 72-117 1-48 (48)
12 PLN03212 Transcription repress 99.1 2.2E-11 4.7E-16 112.1 3.6 68 49-124 10-79 (249)
13 smart00717 SANT SANT SWI3, AD 99.1 6E-11 1.3E-15 81.1 4.7 47 72-118 1-48 (49)
14 PLN03091 hypothetical protein; 99.1 6.5E-12 1.4E-16 123.3 -0.6 64 4-69 51-115 (459)
15 PF13921 Myb_DNA-bind_6: Myb-l 99.1 2.7E-11 5.9E-16 88.3 2.7 45 75-119 1-45 (60)
16 smart00717 SANT SANT SWI3, AD 99.1 3.7E-11 8.1E-16 82.1 2.4 48 19-67 1-48 (49)
17 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 4.4E-10 9.6E-15 75.6 4.9 43 74-116 1-44 (45)
18 KOG0048 Transcription factor, 99.0 1.5E-10 3.2E-15 107.1 2.2 108 68-190 5-114 (238)
19 cd00167 SANT 'SWI3, ADA2, N-Co 98.9 3.6E-10 7.7E-15 76.1 2.1 45 21-66 1-45 (45)
20 KOG0051 RNA polymerase I termi 98.8 4.7E-09 1E-13 107.1 6.1 102 17-120 306-431 (607)
21 COG5147 REB1 Myb superfamily p 98.3 3.6E-07 7.9E-12 92.5 3.5 112 4-118 56-168 (512)
22 TIGR01557 myb_SHAQKYF myb-like 98.0 1.6E-05 3.5E-10 58.0 5.1 48 71-118 2-55 (57)
23 TIGR01557 myb_SHAQKYF myb-like 97.9 7E-06 1.5E-10 59.9 2.7 49 18-66 2-54 (57)
24 KOG0457 Histone acetyltransfer 97.6 2.1E-05 4.5E-10 77.7 1.2 51 16-67 69-119 (438)
25 KOG0050 mRNA splicing protein 97.4 0.00011 2.4E-09 74.0 3.8 59 70-128 5-64 (617)
26 PF13325 MCRS_N: N-terminal re 97.4 0.00026 5.7E-09 63.9 5.8 99 21-121 1-130 (199)
27 KOG0457 Histone acetyltransfer 97.2 0.00037 8E-09 69.0 4.9 49 70-118 70-119 (438)
28 TIGR02894 DNA_bind_RsfA transc 97.1 0.00086 1.9E-08 58.5 5.0 52 71-123 3-61 (161)
29 COG5259 RSC8 RSC chromatin rem 97.0 0.00026 5.7E-09 70.5 1.1 46 18-65 278-323 (531)
30 KOG1279 Chromatin remodeling f 96.9 0.0005 1.1E-08 70.1 2.2 48 16-65 250-297 (506)
31 COG5259 RSC8 RSC chromatin rem 96.8 0.0011 2.4E-08 66.3 3.6 44 73-116 280-323 (531)
32 KOG1279 Chromatin remodeling f 96.7 0.0019 4.2E-08 65.8 4.7 46 71-116 252-297 (506)
33 PF13837 Myb_DNA-bind_4: Myb/S 96.6 0.0014 3E-08 50.9 2.6 49 72-120 1-67 (90)
34 PF08914 Myb_DNA-bind_2: Rap1 96.5 0.0037 8E-08 46.8 3.8 50 72-121 2-61 (65)
35 PF08914 Myb_DNA-bind_2: Rap1 96.4 0.00092 2E-08 50.1 0.4 52 19-70 2-61 (65)
36 PLN03142 Probable chromatin-re 96.3 0.017 3.7E-07 63.8 9.5 102 21-123 826-990 (1033)
37 TIGR02894 DNA_bind_RsfA transc 96.0 0.0011 2.4E-08 57.9 -1.1 50 17-68 2-57 (161)
38 PRK13923 putative spore coat p 95.9 0.0078 1.7E-07 53.2 3.8 52 70-122 3-61 (170)
39 PF13837 Myb_DNA-bind_4: Myb/S 95.7 0.0028 6E-08 49.1 0.0 47 20-66 2-64 (90)
40 PF13873 Myb_DNA-bind_5: Myb/S 95.1 0.038 8.2E-07 41.9 4.6 49 72-120 2-72 (78)
41 COG5114 Histone acetyltransfer 95.1 0.0072 1.6E-07 58.0 0.5 47 20-67 64-110 (432)
42 COG5114 Histone acetyltransfer 94.8 0.024 5.3E-07 54.5 3.3 46 73-118 64-110 (432)
43 PF13873 Myb_DNA-bind_5: Myb/S 94.8 0.007 1.5E-07 46.0 -0.3 49 18-66 1-69 (78)
44 PRK13923 putative spore coat p 94.4 0.0096 2.1E-07 52.6 -0.5 50 16-67 2-57 (170)
45 KOG2656 DNA methyltransferase 93.7 0.14 2.9E-06 50.7 5.9 80 41-121 75-185 (445)
46 PF09111 SLIDE: SLIDE; InterP 92.7 0.16 3.5E-06 42.4 4.2 51 69-119 46-112 (118)
47 COG5118 BDP1 Transcription ini 91.8 0.2 4.4E-06 49.3 4.2 46 73-118 366-411 (507)
48 KOG4282 Transcription factor G 89.7 0.53 1.2E-05 45.7 5.1 51 72-122 54-118 (345)
49 PF12776 Myb_DNA-bind_3: Myb/S 89.3 0.71 1.5E-05 35.9 4.7 46 74-119 1-64 (96)
50 PF11626 Rap1_C: TRF2-interact 88.9 0.18 3.8E-06 39.6 0.9 29 15-46 43-79 (87)
51 KOG1194 Predicted DNA-binding 88.5 1.2 2.6E-05 45.0 6.6 49 71-119 186-234 (534)
52 KOG4167 Predicted DNA-binding 86.8 0.3 6.4E-06 51.8 1.3 44 19-64 619-662 (907)
53 PF08281 Sigma70_r4_2: Sigma-7 85.6 1.4 3E-05 30.7 3.8 41 77-118 12-52 (54)
54 COG5118 BDP1 Transcription ini 84.3 0.67 1.5E-05 45.8 2.3 47 16-64 362-408 (507)
55 KOG4282 Transcription factor G 82.4 0.59 1.3E-05 45.4 1.1 47 19-65 54-112 (345)
56 PF09111 SLIDE: SLIDE; InterP 80.0 0.82 1.8E-05 38.2 1.0 49 15-63 45-107 (118)
57 smart00595 MADF subfamily of S 79.1 3.4 7.3E-05 31.7 4.2 29 94-123 30-58 (89)
58 PF13404 HTH_AsnC-type: AsnC-t 78.0 3.2 6.9E-05 28.2 3.3 38 78-116 3-41 (42)
59 PF12776 Myb_DNA-bind_3: Myb/S 75.9 1.5 3.3E-05 34.0 1.4 44 21-64 1-60 (96)
60 PRK11179 DNA-binding transcrip 71.0 6.1 0.00013 33.8 4.1 45 77-122 8-53 (153)
61 KOG4167 Predicted DNA-binding 69.2 6.7 0.00014 42.0 4.6 45 73-117 620-664 (907)
62 KOG4329 DNA-binding protein [G 68.7 27 0.00059 34.7 8.3 46 73-118 278-324 (445)
63 PF11035 SnAPC_2_like: Small n 67.9 16 0.00036 35.5 6.6 50 71-120 20-73 (344)
64 KOG2656 DNA methyltransferase 67.5 3.5 7.7E-05 41.0 2.1 49 18-67 129-182 (445)
65 PF07750 GcrA: GcrA cell cycle 67.5 4.4 9.5E-05 35.6 2.5 41 74-115 2-42 (162)
66 KOG4468 Polycomb-group transcr 67.1 8.5 0.00018 40.4 4.7 49 18-67 87-144 (782)
67 PF04545 Sigma70_r4: Sigma-70, 65.3 9.9 0.00021 26.0 3.5 41 78-119 7-47 (50)
68 PRK11169 leucine-responsive tr 63.2 8.8 0.00019 33.2 3.6 44 77-121 13-57 (164)
69 PF09905 DUF2132: Uncharacteri 63.0 2.5 5.5E-05 31.5 0.1 44 27-83 12-62 (64)
70 PF13325 MCRS_N: N-terminal re 61.5 14 0.00031 33.6 4.7 47 74-121 1-50 (199)
71 KOG4468 Polycomb-group transcr 60.8 13 0.00028 39.1 4.7 49 71-119 87-145 (782)
72 KOG2009 Transcription initiati 60.8 11 0.00023 39.6 4.2 46 70-115 407-452 (584)
73 TIGR02985 Sig70_bacteroi1 RNA 58.7 16 0.00036 30.0 4.4 39 79-118 117-155 (161)
74 PF04504 DUF573: Protein of un 57.5 20 0.00043 28.7 4.5 49 73-121 5-66 (98)
75 PF13404 HTH_AsnC-type: AsnC-t 57.4 4.1 8.8E-05 27.6 0.3 38 25-64 3-40 (42)
76 PF11626 Rap1_C: TRF2-interact 56.8 10 0.00022 29.5 2.6 17 68-84 43-59 (87)
77 KOG3841 TEF-1 and related tran 53.4 51 0.0011 33.0 7.2 79 17-127 74-152 (455)
78 KOG1194 Predicted DNA-binding 50.1 9.9 0.00022 38.7 1.9 48 15-64 183-230 (534)
79 cd08319 Death_RAIDD Death doma 49.7 17 0.00038 28.3 2.8 29 80-109 2-30 (83)
80 PF10545 MADF_DNA_bdg: Alcohol 48.8 22 0.00048 26.2 3.3 32 93-124 28-60 (85)
81 PRK09652 RNA polymerase sigma 48.6 41 0.00088 28.3 5.3 36 83-119 136-171 (182)
82 KOG0384 Chromodomain-helicase 48.2 17 0.00036 41.3 3.4 75 18-99 1132-1207(1373)
83 KOG4329 DNA-binding protein [G 47.9 15 0.00032 36.6 2.6 57 8-65 266-322 (445)
84 KOG2009 Transcription initiati 47.0 16 0.00035 38.3 2.9 50 13-64 403-452 (584)
85 PRK11179 DNA-binding transcrip 45.7 9.6 0.00021 32.6 0.9 46 24-71 8-53 (153)
86 TIGR02937 sigma70-ECF RNA poly 45.6 38 0.00082 27.0 4.4 38 81-119 116-153 (158)
87 PF01388 ARID: ARID/BRIGHT DNA 44.9 39 0.00084 26.0 4.2 38 82-119 40-90 (92)
88 cd06171 Sigma70_r4 Sigma70, re 43.0 47 0.001 21.5 3.9 37 79-116 14-50 (55)
89 PRK11169 leucine-responsive tr 42.9 9 0.0002 33.2 0.3 47 24-72 13-59 (164)
90 smart00501 BRIGHT BRIGHT, ARID 42.8 42 0.0009 26.1 4.1 38 82-119 36-86 (93)
91 smart00344 HTH_ASNC helix_turn 42.1 43 0.00093 26.3 4.1 43 78-121 3-46 (108)
92 PRK11924 RNA polymerase sigma 41.5 57 0.0012 27.3 5.1 33 86-119 136-168 (179)
93 PF07638 Sigma70_ECF: ECF sigm 41.1 50 0.0011 28.9 4.8 39 78-117 138-176 (185)
94 cd08803 Death_ank3 Death domai 38.4 37 0.0008 26.5 3.1 30 80-110 4-33 (84)
95 PRK04217 hypothetical protein; 36.9 70 0.0015 26.4 4.6 43 75-119 43-85 (110)
96 PF04504 DUF573: Protein of un 36.3 38 0.00082 27.1 2.9 19 19-37 4-22 (98)
97 PRK09643 RNA polymerase sigma 35.8 82 0.0018 27.5 5.3 37 81-118 140-176 (192)
98 PLN03162 golden-2 like transcr 34.8 1.3E+02 0.0029 30.1 6.9 47 72-118 237-288 (526)
99 cd08317 Death_ank Death domain 34.6 34 0.00074 26.3 2.4 30 80-110 4-33 (84)
100 PF11035 SnAPC_2_like: Small n 34.1 1.4E+02 0.003 29.4 6.7 89 16-118 18-127 (344)
101 PRK09641 RNA polymerase sigma 33.9 60 0.0013 27.7 4.1 32 86-118 147-178 (187)
102 PRK09047 RNA polymerase factor 32.7 1.1E+02 0.0024 25.3 5.5 34 85-119 116-149 (161)
103 PTZ00470 glycoside hydrolase f 32.6 39 0.00085 35.1 3.1 13 246-258 44-56 (522)
104 PRK12529 RNA polymerase sigma 32.2 89 0.0019 26.8 4.9 37 84-121 136-172 (178)
105 TIGR02954 Sig70_famx3 RNA poly 31.3 71 0.0015 26.9 4.1 30 89-119 133-162 (169)
106 PF09420 Nop16: Ribosome bioge 31.0 50 0.0011 28.8 3.1 48 17-65 112-162 (164)
107 PRK12530 RNA polymerase sigma 30.7 1.2E+02 0.0026 26.4 5.5 29 89-118 148-176 (189)
108 PF02954 HTH_8: Bacterial regu 30.7 67 0.0015 21.3 3.0 35 79-114 6-40 (42)
109 PRK12515 RNA polymerase sigma 30.4 1.2E+02 0.0025 26.2 5.4 31 88-119 144-174 (189)
110 PRK09642 RNA polymerase sigma 30.4 1.2E+02 0.0025 25.3 5.2 32 86-118 117-148 (160)
111 cd08804 Death_ank2 Death domai 30.4 50 0.0011 25.6 2.7 31 80-111 4-34 (84)
112 PRK09648 RNA polymerase sigma 29.9 1E+02 0.0022 26.5 4.9 35 84-119 148-182 (189)
113 TIGR02939 RpoE_Sigma70 RNA pol 29.9 80 0.0017 26.9 4.2 29 90-119 153-181 (190)
114 cd08318 Death_NMPP84 Death dom 29.8 53 0.0012 25.5 2.7 27 83-110 10-36 (86)
115 TIGR02943 Sig70_famx1 RNA poly 29.3 1.3E+02 0.0028 26.1 5.5 37 82-119 138-174 (188)
116 PRK09413 IS2 repressor TnpA; R 29.2 1.1E+02 0.0023 25.1 4.6 82 17-103 8-118 (121)
117 PRK12523 RNA polymerase sigma 28.9 90 0.002 26.5 4.3 38 81-119 125-162 (172)
118 cd08311 Death_p75NR Death doma 28.8 39 0.00085 25.9 1.8 33 77-111 2-34 (77)
119 PRK09645 RNA polymerase sigma 28.7 1.1E+02 0.0025 25.7 4.9 34 85-119 128-161 (173)
120 PRK09637 RNA polymerase sigma 28.7 1.2E+02 0.0027 26.1 5.2 36 83-119 114-149 (181)
121 PRK12512 RNA polymerase sigma 28.6 1.1E+02 0.0024 26.1 4.8 34 85-119 141-174 (184)
122 COG1522 Lrp Transcriptional re 28.5 93 0.002 25.8 4.3 45 77-122 7-52 (154)
123 PF13936 HTH_38: Helix-turn-he 28.4 37 0.0008 22.9 1.4 36 74-111 4-39 (44)
124 PRK11923 algU RNA polymerase s 28.0 1.2E+02 0.0026 26.1 5.0 29 90-119 153-181 (193)
125 TIGR02948 SigW_bacill RNA poly 27.2 1.1E+02 0.0024 26.0 4.6 28 90-118 151-178 (187)
126 cd08805 Death_ank1 Death domai 27.0 60 0.0013 25.4 2.6 27 80-107 4-30 (84)
127 PRK12531 RNA polymerase sigma 27.0 1.4E+02 0.003 26.0 5.2 29 89-118 155-183 (194)
128 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 26.8 88 0.0019 22.2 3.1 34 78-112 7-40 (50)
129 cd08777 Death_RIP1 Death Domai 25.9 60 0.0013 25.3 2.4 30 81-111 3-32 (86)
130 PRK12524 RNA polymerase sigma 25.6 1.1E+02 0.0023 26.8 4.2 34 84-118 145-178 (196)
131 TIGR02999 Sig-70_X6 RNA polyme 25.0 1.2E+02 0.0025 25.9 4.3 29 89-118 148-176 (183)
132 PRK12532 RNA polymerase sigma 24.3 1.7E+02 0.0037 25.3 5.3 30 88-118 149-178 (195)
133 PRK09649 RNA polymerase sigma 24.2 1.3E+02 0.0028 26.1 4.5 29 89-118 144-172 (185)
134 PRK12527 RNA polymerase sigma 24.2 1.9E+02 0.0041 24.0 5.4 35 84-119 114-148 (159)
135 PF07555 NAGidase: beta-N-acet 23.8 1.5E+02 0.0033 28.7 5.2 68 19-101 9-80 (306)
136 PRK12516 RNA polymerase sigma 23.7 1.8E+02 0.0038 25.3 5.3 37 81-118 122-158 (187)
137 PRK00118 putative DNA-binding 23.5 1.7E+02 0.0036 23.9 4.6 41 77-118 19-59 (104)
138 COG2197 CitB Response regulato 23.5 1E+02 0.0023 27.6 3.9 43 74-119 148-190 (211)
139 cd08779 Death_PIDD Death Domai 23.3 76 0.0017 24.6 2.6 32 81-113 3-37 (86)
140 PF07750 GcrA: GcrA cell cycle 23.2 42 0.00092 29.4 1.2 32 21-55 2-33 (162)
141 smart00005 DEATH DEATH domain, 23.1 69 0.0015 24.1 2.3 29 80-109 5-34 (88)
142 TIGR02952 Sig70_famx2 RNA poly 23.1 1.3E+02 0.0028 25.1 4.2 28 90-118 137-164 (170)
143 PRK06759 RNA polymerase factor 23.0 1.4E+02 0.0029 24.6 4.2 28 90-118 121-148 (154)
144 PRK12528 RNA polymerase sigma 22.9 1.4E+02 0.003 24.9 4.3 31 86-117 124-154 (161)
145 TIGR02950 SigM_subfam RNA poly 22.6 47 0.001 27.4 1.3 27 91-118 121-147 (154)
146 PF09420 Nop16: Ribosome bioge 22.4 1.6E+02 0.0035 25.6 4.7 46 71-116 113-162 (164)
147 PRK12514 RNA polymerase sigma 22.3 1.3E+02 0.0029 25.5 4.2 28 90-118 144-171 (179)
148 COG4628 Uncharacterized conser 22.1 63 0.0014 27.0 1.9 45 27-84 21-72 (136)
149 PRK12520 RNA polymerase sigma 22.1 2.3E+02 0.0051 24.3 5.7 30 89-119 145-174 (191)
150 PRK05602 RNA polymerase sigma 21.7 1.9E+02 0.004 24.8 5.0 29 89-118 142-170 (186)
151 PRK12542 RNA polymerase sigma 21.7 1.4E+02 0.0031 25.5 4.3 30 88-118 135-164 (185)
152 PRK12547 RNA polymerase sigma 21.5 1.5E+02 0.0033 24.9 4.3 34 84-118 121-154 (164)
153 KOG3554 Histone deacetylase co 21.5 1.7E+02 0.0038 30.2 5.2 44 72-115 285-329 (693)
154 PRK09651 RNA polymerase sigma 21.3 1.4E+02 0.003 25.4 4.1 29 90-119 134-162 (172)
155 PRK12536 RNA polymerase sigma 20.9 1.9E+02 0.0041 24.7 4.9 33 85-118 139-171 (181)
156 TIGR02983 SigE-fam_strep RNA p 20.9 1.5E+02 0.0032 24.7 4.1 40 79-119 114-153 (162)
157 PRK10100 DNA-binding transcrip 20.9 1.3E+02 0.0029 27.1 4.0 44 74-120 155-198 (216)
158 PRK13919 putative RNA polymera 20.6 1.9E+02 0.0042 24.6 4.8 28 91-119 151-178 (186)
159 smart00344 HTH_ASNC helix_turn 20.5 50 0.0011 25.9 1.0 43 25-69 3-45 (108)
160 TIGR02984 Sig-70_plancto1 RNA 20.4 1.8E+02 0.004 24.6 4.6 34 85-119 150-183 (189)
161 PRK09647 RNA polymerase sigma 20.1 2.3E+02 0.005 25.1 5.3 29 90-119 153-181 (203)
162 PRK15411 rcsA colanic acid cap 20.1 1.5E+02 0.0032 26.4 4.1 44 74-120 137-180 (207)
No 1
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=7.5e-34 Score=261.88 Aligned_cols=112 Identities=55% Similarity=0.944 Sum_probs=107.4
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCCccCcccCHHHHHHHHHHHHHhCCc
Q 045400 14 KPKHRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPGLKRGVFNMQEEETILTLHRLLGNK 93 (313)
Q Consensus 14 kp~~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkk~~WT~EED~~Ll~lv~~~G~~ 93 (313)
++.+.||+||+|||++|+++|++||+.+|..||+.+|++|++++||.||.+||+|.++++.||+|||++|+++|..+|++
T Consensus 4 k~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNr 83 (238)
T KOG0048|consen 4 NPELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNR 83 (238)
T ss_pred CccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcH
Confidence 45567899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcccCCCCCHHHHHHHHHHHHHHHHHHHH
Q 045400 94 WSQIAQHLPGRTDNEIKNYWHSHLKKKLAKLE 125 (313)
Q Consensus 94 W~~Ia~~l~gRT~~q~knrw~~llkk~l~~~~ 125 (313)
|+.||++|||||+++||++|+..+++++.+..
T Consensus 84 Ws~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 84 WSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 99999999999999999999999998887654
No 2
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=3.4e-33 Score=271.40 Aligned_cols=111 Identities=69% Similarity=1.182 Sum_probs=106.6
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCCccCcccCHHHHHHHHHHHHHhCCc
Q 045400 14 KPKHRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPGLKRGVFNMQEEETILTLHRLLGNK 93 (313)
Q Consensus 14 kp~~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkk~~WT~EED~~Ll~lv~~~G~~ 93 (313)
|++++||+||+|||++|+++|.+||..+|..||..++++|+++|||+||.++|+|.+++++||+|||++|++++++||.+
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnK 88 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcc
Confidence 47899999999999999999999999999999999877999999999999999999999999999999999999999999
Q ss_pred hhhhcccCCCCCHHHHHHHHHHHHHHHHHHH
Q 045400 94 WSQIAQHLPGRTDNEIKNYWHSHLKKKLAKL 124 (313)
Q Consensus 94 W~~Ia~~l~gRT~~q~knrw~~llkk~l~~~ 124 (313)
|+.||++|+|||+++||+||+.+++++++..
T Consensus 89 WskIAk~LPGRTDnqIKNRWnslLKKklr~~ 119 (459)
T PLN03091 89 WSQIAAQLPGRTDNEIKNLWNSCLKKKLRQR 119 (459)
T ss_pred hHHHHHhcCCCCHHHHHHHHHHHHHHHHHHc
Confidence 9999999999999999999999999887654
No 3
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=2.1e-33 Score=256.11 Aligned_cols=111 Identities=57% Similarity=1.054 Sum_probs=106.5
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCCccCcccCHHHHHHHHHHHHHhCC
Q 045400 13 PKPKHRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPGLKRGVFNMQEEETILTLHRLLGN 92 (313)
Q Consensus 13 ~kp~~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkk~~WT~EED~~Ll~lv~~~G~ 92 (313)
.|+.++|++||+|||++|+++|++||..+|..||..++++|+++|||+||.++|+|.+++++||+|||++|++++..||+
T Consensus 19 ~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~Gn 98 (249)
T PLN03212 19 TKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGN 98 (249)
T ss_pred ccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhccc
Confidence 46889999999999999999999999999999999996699999999999999999999999999999999999999999
Q ss_pred chhhhcccCCCCCHHHHHHHHHHHHHHHHHH
Q 045400 93 KWSQIAQHLPGRTDNEIKNYWHSHLKKKLAK 123 (313)
Q Consensus 93 ~W~~Ia~~l~gRT~~q~knrw~~llkk~l~~ 123 (313)
+|+.||+.|||||+++||+||+.++++++.+
T Consensus 99 KWs~IAk~LpGRTDnqIKNRWns~LrK~l~r 129 (249)
T PLN03212 99 RWSLIAGRIPGRTDNEIKNYWNTHLRKKLLR 129 (249)
T ss_pred cHHHHHhhcCCCCHHHHHHHHHHHHhHHHHh
Confidence 9999999999999999999999999887665
No 4
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.83 E-value=6.3e-22 Score=194.62 Aligned_cols=162 Identities=23% Similarity=0.412 Sum_probs=144.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCCccCcccCHHHHHHHHHHHHHhCCchh
Q 045400 16 KHRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPGLKRGVFNMQEEETILTLHRLLGNKWS 95 (313)
Q Consensus 16 ~~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkk~~WT~EED~~Ll~lv~~~G~~W~ 95 (313)
-++.|.|+..||+.|+.+|.+||...|.+|+..+. .++++||+.||..+|+|.+++..|+.|||++||.+.+.+..+|.
T Consensus 4 ~~kggvwrntEdeilkaav~kyg~nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwr 82 (617)
T KOG0050|consen 4 EIKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWR 82 (617)
T ss_pred EEecceecccHHHHHHHHHHHcchHHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccc
Confidence 36789999999999999999999999999999998 89999999999999999999999999999999999999999999
Q ss_pred hhcccCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCCCCCCCCCCCCccccccccccCCCCCccccc
Q 045400 96 QIAQHLPGRTDNEIKNYWHSHLKKKLAKLEEMEAANATTPSSENMESSTSPNNNPSTRSSSYESLHHMEKSSAGSTDQCA 175 (313)
Q Consensus 96 ~Ia~~l~gRT~~q~knrw~~llkk~l~~~~~~~~~~~~~~ss~~~~~s~sp~~~p~s~sss~~s~~~~e~ss~~~~~~~~ 175 (313)
.|+..| |||++||..||..++......... .....++.....+..+.|.+.|+.+++.++..++.+|.++++++.++
T Consensus 83 tIa~i~-gr~~~qc~eRy~~ll~~~~s~~~~--~~~~~D~rLk~gE~ePn~e~~~aRpd~~dmdEde~eMl~eaRarlaN 159 (617)
T KOG0050|consen 83 TIADIM-GRTSQQCLERYNNLLDVYVSYHYH--SEPYIDAKLKEGEIEPNQETNPARPDGFDMDEDEGEMLSEARARLAN 159 (617)
T ss_pred hHHHHh-hhhHHHHHHHHHHHHHHHHhhhcc--cccccccccCCCcCCCccccccccCCcccchHHHHHHHHHHHHHHhc
Confidence 999999 999999999999998877765443 11222222456777888999999999999999999999999999999
Q ss_pred ccCCcc
Q 045400 176 TQGQKS 181 (313)
Q Consensus 176 tq~~~s 181 (313)
+++++.
T Consensus 160 t~gkka 165 (617)
T KOG0050|consen 160 TQGKKA 165 (617)
T ss_pred ccchHH
Confidence 987643
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.76 E-value=5.4e-19 Score=177.61 Aligned_cols=102 Identities=25% Similarity=0.468 Sum_probs=95.7
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCCccCcccCHHHHHHHHHHHHHhC-
Q 045400 13 PKPKHRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPGLKRGVFNMQEEETILTLHRLLG- 91 (313)
Q Consensus 13 ~kp~~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkk~~WT~EED~~Ll~lv~~~G- 91 (313)
..|.+++|+||++||.+|..+|.+||.++|.+|-..+| +|+..|||+||.+.|....|++.||-.||+.||.+|++||
T Consensus 354 LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~YG~ 432 (939)
T KOG0049|consen 354 LDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKVYGK 432 (939)
T ss_pred cCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCceeecchHHHHHHHHHHcc
Confidence 68999999999999999999999999999999999999 9999999999999999999999999999999999999999
Q ss_pred CchhhhcccCCCCCHHHHHHHHHH
Q 045400 92 NKWSQIAQHLPGRTDNEIKNYWHS 115 (313)
Q Consensus 92 ~~W~~Ia~~l~gRT~~q~knrw~~ 115 (313)
++|.+||..||.||..|...|=..
T Consensus 433 g~WakcA~~Lp~~t~~q~~rrR~R 456 (939)
T KOG0049|consen 433 GNWAKCAMLLPKKTSRQLRRRRLR 456 (939)
T ss_pred chHHHHHHHccccchhHHHHHHHH
Confidence 679999999999999666554433
No 6
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.72 E-value=1.8e-18 Score=173.88 Aligned_cols=113 Identities=26% Similarity=0.497 Sum_probs=104.6
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccch------------------------------
Q 045400 11 AKPKPKHRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRL------------------------------ 60 (313)
Q Consensus 11 ~~~kp~~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~------------------------------ 60 (313)
....|+++|-.|++|||++|.++...++...|..||..++..|+..||.+
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 35789999999999999999999999999999999999996699999977
Q ss_pred ------------------------hhhhccCCCccCcccCHHHHHHHHHHHHHhCCc-hhhhcccCCCCCHHHHHHHHHH
Q 045400 61 ------------------------RWINYLRPGLKRGVFNMQEEETILTLHRLLGNK-WSQIAQHLPGRTDNEIKNYWHS 115 (313)
Q Consensus 61 ------------------------Rw~~~L~p~lkk~~WT~EED~~Ll~lv~~~G~~-W~~Ia~~l~gRT~~q~knrw~~ 115 (313)
||...|+|.+++|+||.+||.+|+.+|.+||.+ |..|-..||||++.||+.||..
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 899999999999999999999999999999965 9999999999999999999999
Q ss_pred HHHHHHHH
Q 045400 116 HLKKKLAK 123 (313)
Q Consensus 116 llkk~l~~ 123 (313)
.|....++
T Consensus 405 vL~~s~K~ 412 (939)
T KOG0049|consen 405 VLNRSAKV 412 (939)
T ss_pred HHHHhhcc
Confidence 88765443
No 7
>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=99.66 E-value=5.1e-17 Score=118.71 Aligned_cols=60 Identities=37% Similarity=0.754 Sum_probs=55.2
Q ss_pred CCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCCccCcccCHHHHHHH
Q 045400 22 WSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPGLKRGVFNMQEEETI 83 (313)
Q Consensus 22 WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkk~~WT~EED~~L 83 (313)
||+|||++|+.+|.+|| .+|..||..|| .|++.||+.||..+|.|.+++++||++||++|
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 99999999999999999 57999999997 89999999999999999999999999999987
No 8
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.62 E-value=2.3e-16 Score=158.19 Aligned_cols=108 Identities=31% Similarity=0.503 Sum_probs=102.8
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCCccCcccCHHHHHHHHHHHHHhCCc
Q 045400 14 KPKHRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPGLKRGVFNMQEEETILTLHRLLGNK 93 (313)
Q Consensus 14 kp~~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkk~~WT~EED~~Ll~lv~~~G~~ 93 (313)
..+++.|.|+..||+.|..+|++||+.+|..||..+. -|+++||+.||.++++|.+++..|+.|||+.|+.+..++|.+
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ 93 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch
Confidence 4568889999999999999999999999999999999 699999999999999999999999999999999999999999
Q ss_pred hhhhcccCCCCCHHHHHHHHHHHHHHHHH
Q 045400 94 WSQIAQHLPGRTDNEIKNYWHSHLKKKLA 122 (313)
Q Consensus 94 W~~Ia~~l~gRT~~q~knrw~~llkk~l~ 122 (313)
|+.||..+++||..+|.+||...+....+
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 99999999999999999999988876654
No 9
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.43 E-value=8.2e-14 Score=141.33 Aligned_cols=101 Identities=29% Similarity=0.627 Sum_probs=91.8
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCCc--cCcccCHHHHHHHHHHHH-------
Q 045400 18 RKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPGL--KRGVFNMQEEETILTLHR------- 88 (313)
Q Consensus 18 kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~l--kk~~WT~EED~~Ll~lv~------- 88 (313)
.+|+||+||++.|..+|.++| .+|..|+..|+ |.+..||+||+++..++- +++.||.||+++|+++|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g-~~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~ 459 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHG-NDWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREAL 459 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhc-ccHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhh
Confidence 899999999999999999999 77999999887 999999999999999985 899999999999999995
Q ss_pred Hh-------------------CCchhhhcccCCCCCHHHHHHHHHHHHHHHH
Q 045400 89 LL-------------------GNKWSQIAQHLPGRTDNEIKNYWHSHLKKKL 121 (313)
Q Consensus 89 ~~-------------------G~~W~~Ia~~l~gRT~~q~knrw~~llkk~l 121 (313)
++ +-.|+.|++.+.+|+..||+-+|..++.+..
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s 511 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPS 511 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHH
Confidence 33 1159999999999999999999999887653
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=99.42 E-value=3.1e-14 Score=99.84 Aligned_cols=48 Identities=33% Similarity=0.630 Sum_probs=43.3
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhcc
Q 045400 19 KGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYL 66 (313)
Q Consensus 19 kg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L 66 (313)
|++||+|||++|+++|.+||..+|..||..||.+||+.||+.||.++|
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 689999999999999999997779999999998999999999999875
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=99.35 E-value=7.4e-13 Score=92.83 Aligned_cols=46 Identities=30% Similarity=0.689 Sum_probs=41.8
Q ss_pred CcccCHHHHHHHHHHHHHhCCc-hhhhcccCC-CCCHHHHHHHHHHHH
Q 045400 72 RGVFNMQEEETILTLHRLLGNK-WSQIAQHLP-GRTDNEIKNYWHSHL 117 (313)
Q Consensus 72 k~~WT~EED~~Ll~lv~~~G~~-W~~Ia~~l~-gRT~~q~knrw~~ll 117 (313)
+++||+|||++|+++|.+||.. |..||..|+ +||+.||++||..++
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 999999998 999999999999864
No 12
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.15 E-value=2.2e-11 Score=112.06 Aligned_cols=68 Identities=18% Similarity=0.484 Sum_probs=58.1
Q ss_pred cCCcCCccccchhhhhccCCCccCcccCHHHHHHHHHHHHHhC-CchhhhcccC-CCCCHHHHHHHHHHHHHHHHHHH
Q 045400 49 AGLQRNGKSCRLRWINYLRPGLKRGVFNMQEEETILTLHRLLG-NKWSQIAQHL-PGRTDNEIKNYWHSHLKKKLAKL 124 (313)
Q Consensus 49 l~~~Rt~~QCr~Rw~~~L~p~lkk~~WT~EED~~Ll~lv~~~G-~~W~~Ia~~l-~gRT~~q~knrw~~llkk~l~~~ 124 (313)
++ +|+..-|- ++.+++++||+|||++|+++|++|| .+|..||+.+ ++||+.||+.||..+|++.+.+.
T Consensus 10 ~~-~~~~pcc~-------K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kg 79 (249)
T PLN03212 10 VS-KKTTPCCT-------KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRG 79 (249)
T ss_pred CC-CCCCCCcc-------cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccC
Confidence 44 56665553 3678999999999999999999999 5799999998 69999999999999999877664
No 13
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.14 E-value=6e-11 Score=81.09 Aligned_cols=47 Identities=36% Similarity=0.803 Sum_probs=44.1
Q ss_pred CcccCHHHHHHHHHHHHHhC-CchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 72 RGVFNMQEEETILTLHRLLG-NKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 72 k~~WT~EED~~Ll~lv~~~G-~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
+++||++||.+|+.++.+|| ..|..||..|++||+.+|+.||..+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 899999999999999999999998754
No 14
>PLN03091 hypothetical protein; Provisional
Probab=99.13 E-value=6.5e-12 Score=123.33 Aligned_cols=64 Identities=19% Similarity=0.323 Sum_probs=55.6
Q ss_pred CCCCCCCC-CCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCC
Q 045400 4 KSSEKPIA-KPKPKHRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPG 69 (313)
Q Consensus 4 ~~~~k~~~-~~kp~~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~ 69 (313)
+.|+.||. .++|.++||+||+|||++|++++++|| .+|.+||..|+ ||++.+|+.||...|+..
T Consensus 51 KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~G-nKWskIAk~LP-GRTDnqIKNRWnslLKKk 115 (459)
T PLN03091 51 KSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLG-NRWSQIAAQLP-GRTDNEIKNLWNSCLKKK 115 (459)
T ss_pred chHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhC-cchHHHHHhcC-CCCHHHHHHHHHHHHHHH
Confidence 34555544 479999999999999999999999999 56999999999 999999999999877653
No 15
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.13 E-value=2.7e-11 Score=88.31 Aligned_cols=45 Identities=38% Similarity=0.787 Sum_probs=39.1
Q ss_pred cCHHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 75 FNMQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 75 WT~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
||+|||++|+.+|..||..|..||+.|+.||+.+|+.||...|++
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~ 45 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRP 45 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTST
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcc
Confidence 999999999999999999999999999669999999999986653
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.10 E-value=3.7e-11 Score=82.14 Aligned_cols=48 Identities=35% Similarity=0.705 Sum_probs=44.7
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccC
Q 045400 19 KGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLR 67 (313)
Q Consensus 19 kg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~ 67 (313)
++.||++||++|+.++..||..+|..||..++ +||+.+|+.||..++.
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 47899999999999999999778999999999 9999999999998764
No 17
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.02 E-value=4.4e-10 Score=75.64 Aligned_cols=43 Identities=33% Similarity=0.712 Sum_probs=41.2
Q ss_pred ccCHHHHHHHHHHHHHhC-CchhhhcccCCCCCHHHHHHHHHHH
Q 045400 74 VFNMQEEETILTLHRLLG-NKWSQIAQHLPGRTDNEIKNYWHSH 116 (313)
Q Consensus 74 ~WT~EED~~Ll~lv~~~G-~~W~~Ia~~l~gRT~~q~knrw~~l 116 (313)
+||+|||..|+.++.++| ..|..||+.|++||+.+|+.||..+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 599999999999999999 8999999999999999999999865
No 18
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.99 E-value=1.5e-10 Score=107.07 Aligned_cols=108 Identities=15% Similarity=0.191 Sum_probs=76.9
Q ss_pred CCccCcccCHHHHHHHHHHHHHhCC-chhhhcccCC-CCCHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCC
Q 045400 68 PGLKRGVFNMQEEETILTLHRLLGN-KWSQIAQHLP-GRTDNEIKNYWHSHLKKKLAKLEEMEAANATTPSSENMESSTS 145 (313)
Q Consensus 68 p~lkk~~WT~EED~~Ll~lv~~~G~-~W~~Ia~~l~-gRT~~q~knrw~~llkk~l~~~~~~~~~~~~~~ss~~~~~s~s 145 (313)
|.+.+||||+|||++|+++|++||. .|..|++.++ +|+..+|+-||..+|++.++++...+.+..........-+
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~G--- 81 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLG--- 81 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHC---
Confidence 4455799999999999999999995 5999999998 9999999999999999988764433332222111111111
Q ss_pred CCCCCCCCCCccccccccccCCCCCcccccccCCcccCCchhhhh
Q 045400 146 PNNNPSTRSSSYESLHHMEKSSAGSTDQCATQGQKSCLPKLLFAE 190 (313)
Q Consensus 146 p~~~p~s~sss~~s~~~~e~ss~~~~~~~~tq~~~s~~pk~l~~~ 190 (313)
..+..+....++++|+.+...+.+.+.|.+...
T Consensus 82 ------------NrWs~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~ 114 (238)
T KOG0048|consen 82 ------------NRWSLIAGRLPGRTDNEVKNHWNTHLKKKLLKM 114 (238)
T ss_pred ------------cHHHHHHhhCCCcCHHHHHHHHHHHHHHHHHHc
Confidence 114556666777788888777666666555544
No 19
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.94 E-value=3.6e-10 Score=76.10 Aligned_cols=45 Identities=36% Similarity=0.649 Sum_probs=41.9
Q ss_pred CCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhcc
Q 045400 21 LWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYL 66 (313)
Q Consensus 21 ~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L 66 (313)
+||+|||++|+.++.+||..+|..||..++ +|++.+|+.||.+++
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 599999999999999999778999999999 899999999998753
No 20
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.82 E-value=4.7e-09 Score=107.11 Aligned_cols=102 Identities=27% Similarity=0.360 Sum_probs=85.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHc----C-------------C------CCCcccccccCCcCCccccchhhhhccCCCc-cC
Q 045400 17 HRKGLWSPEEDQRLKNYVLQH----G-------------H------PCWSSVPINAGLQRNGKSCRLRWINYLRPGL-KR 72 (313)
Q Consensus 17 ~kkg~WT~EED~~L~~~V~ky----g-------------~------~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~l-kk 72 (313)
++-+.|+.|||+.|...|..| | . .-|..|...|| -|+...+..+-++...|.- ++
T Consensus 306 ~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~~r 384 (607)
T KOG0051|consen 306 INLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFENKR 384 (607)
T ss_pred hhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCcccccc
Confidence 444899999999999999998 1 0 11567777788 6999888775445555544 99
Q ss_pred cccCHHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHHH
Q 045400 73 GVFNMQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKKK 120 (313)
Q Consensus 73 ~~WT~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk~ 120 (313)
|.||+||++.|..+|.++|+.|..|++.| ||.+..|+.||+.+.+..
T Consensus 385 g~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g 431 (607)
T KOG0051|consen 385 GKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCG 431 (607)
T ss_pred CCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccc
Confidence 99999999999999999999999999999 999999999999998754
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=98.31 E-value=3.6e-07 Score=92.47 Aligned_cols=112 Identities=18% Similarity=0.181 Sum_probs=90.4
Q ss_pred CCCCCCC-CCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCCccCcccCHHHHHH
Q 045400 4 KSSEKPI-AKPKPKHRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPGLKRGVFNMQEEET 82 (313)
Q Consensus 4 ~~~~k~~-~~~kp~~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkk~~WT~EED~~ 82 (313)
++|..+| ....|.++++.|+.|||+.|+.+...+|+. |..||..++ +|++.+|.+||.+.+.+..+ .+|+..+...
T Consensus 56 kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~-wstia~~~d-~rt~~~~~ery~~~~~~~~s-~~~s~~~~~~ 132 (512)
T COG5147 56 KQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ-WSTIADYKD-RRTAQQCVERYVNTLEDLSS-THDSKLQRRN 132 (512)
T ss_pred ccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch-hhhhccccC-ccchHHHHHHHHHHhhhhhc-cccccccchh
Confidence 3455555 457899999999999999999999999966 999999998 99999999999999998777 8888888888
Q ss_pred HHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 83 ILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 83 Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
....+..|+..|.++....--+-...|.+++..+..
T Consensus 133 ~f~k~d~f~~~~~~~~~~~~~~~~~~~~N~~~~~~~ 168 (512)
T COG5147 133 EFDKIDPFNENSARRPDIYEDELLEREVNREASYRL 168 (512)
T ss_pred hccccCchhhhhhhhhhhhhcccchhhhhHHHHHHH
Confidence 887777787777776655555555556666655443
No 22
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.95 E-value=1.6e-05 Score=57.99 Aligned_cols=48 Identities=17% Similarity=0.280 Sum_probs=42.1
Q ss_pred cCcccCHHHHHHHHHHHHHhCC-ch---hhhcccC-CCC-CHHHHHHHHHHHHH
Q 045400 71 KRGVFNMQEEETILTLHRLLGN-KW---SQIAQHL-PGR-TDNEIKNYWHSHLK 118 (313)
Q Consensus 71 kk~~WT~EED~~Ll~lv~~~G~-~W---~~Ia~~l-~gR-T~~q~knrw~~llk 118 (313)
.+-.||+||+.++++++..+|. .| ..|++.| ..| |..||+.|++.+..
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 3567999999999999999996 89 9999987 345 99999999998764
No 23
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.92 E-value=7e-06 Score=59.92 Aligned_cols=49 Identities=14% Similarity=0.271 Sum_probs=42.8
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCCC---cccccccCCcC-Cccccchhhhhcc
Q 045400 18 RKGLWSPEEDQRLKNYVLQHGHPCW---SSVPINAGLQR-NGKSCRLRWINYL 66 (313)
Q Consensus 18 kkg~WT~EED~~L~~~V~kyg~~~W---~~IA~~l~~~R-t~~QCr~Rw~~~L 66 (313)
++-.||+||.++++++|..+|..+| ..|+..|...| |..||+.+++.|.
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 3557999999999999999997799 99999887566 9999999988764
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.60 E-value=2.1e-05 Score=77.65 Aligned_cols=51 Identities=14% Similarity=0.354 Sum_probs=46.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccC
Q 045400 16 KHRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLR 67 (313)
Q Consensus 16 ~~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~ 67 (313)
.+-..-||.+|+-+|++++..||.++|..||.+|| .|+..+|+++|.+++-
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHHh
Confidence 35567899999999999999999999999999999 9999999999998653
No 25
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.43 E-value=0.00011 Score=73.97 Aligned_cols=59 Identities=31% Similarity=0.478 Sum_probs=53.2
Q ss_pred ccCcccCHHHHHHHHHHHHHhC-CchhhhcccCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 045400 70 LKRGVFNMQEEETILTLHRLLG-NKWSQIAQHLPGRTDNEIKNYWHSHLKKKLAKLEEME 128 (313)
Q Consensus 70 lkk~~WT~EED~~Ll~lv~~~G-~~W~~Ia~~l~gRT~~q~knrw~~llkk~l~~~~~~~ 128 (313)
++.+-|+..||+.|-.+|.+|| ++|++|+..|+-.|+.||+.||..++.+.+.+..+..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~ 64 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSR 64 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhh
Confidence 5678999999999999999999 5699999999999999999999999999888765543
No 26
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.42 E-value=0.00026 Score=63.95 Aligned_cols=99 Identities=23% Similarity=0.391 Sum_probs=70.1
Q ss_pred CCCHHHHHHHHHHHHHcCCCCCcccccc--cCCcCCccccchhhhhccC-CCc--------------------cCcccCH
Q 045400 21 LWSPEEDQRLKNYVLQHGHPCWSSVPIN--AGLQRNGKSCRLRWINYLR-PGL--------------------KRGVFNM 77 (313)
Q Consensus 21 ~WT~EED~~L~~~V~kyg~~~W~~IA~~--l~~~Rt~~QCr~Rw~~~L~-p~l--------------------kk~~WT~ 77 (313)
+|++++|-.|+.+|..-.. -..|+.- +-..-|.+.+.+||+..|. |.+ .+.+||.
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 RWKPEDDLLLINAVEQTND--LESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSK 78 (199)
T ss_pred CCCchhhHHHHHHHHHhcC--HHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCH
Confidence 5999999999999987642 3333332 2223477888999999764 333 3458999
Q ss_pred HHHHHHHHHHHHhCC---chhhhcc----cC-CCCCHHHHHHHHHHHHHHHH
Q 045400 78 QEEETILTLHRLLGN---KWSQIAQ----HL-PGRTDNEIKNYWHSHLKKKL 121 (313)
Q Consensus 78 EED~~Ll~lv~~~G~---~W~~Ia~----~l-~gRT~~q~knrw~~llkk~l 121 (313)
+|++.|......... .+.+|-. .| ++||+.++..||..+.+..+
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~L 130 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHL 130 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhch
Confidence 999999997765543 3655543 23 88999999999996554444
No 27
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.23 E-value=0.00037 Score=69.01 Aligned_cols=49 Identities=24% Similarity=0.445 Sum_probs=44.5
Q ss_pred ccCcccCHHHHHHHHHHHHHhC-CchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 70 LKRGVFNMQEEETILTLHRLLG-NKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 70 lkk~~WT~EED~~Ll~lv~~~G-~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
+-...||.+|+.+||+++..|| +.|..||.++..||..+|+.||.+++-
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHh
Confidence 4456799999999999999999 889999999999999999999987654
No 28
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.07 E-value=0.00086 Score=58.50 Aligned_cols=52 Identities=12% Similarity=0.250 Sum_probs=45.4
Q ss_pred cCcccCHHHHHHHHHHHHHhCC----c---hhhhcccCCCCCHHHHHHHHHHHHHHHHHH
Q 045400 71 KRGVFNMQEEETILTLHRLLGN----K---WSQIAQHLPGRTDNEIKNYWHSHLKKKLAK 123 (313)
Q Consensus 71 kk~~WT~EED~~Ll~lv~~~G~----~---W~~Ia~~l~gRT~~q~knrw~~llkk~l~~ 123 (313)
+...||.|||.+|.+.|..|-. + ...+++.| +||+.+|.-||++++|++...
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~ 61 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEE 61 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHH
Confidence 4568999999999999988742 2 88999999 999999999999999987655
No 29
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.97 E-value=0.00026 Score=70.53 Aligned_cols=46 Identities=24% Similarity=0.443 Sum_probs=42.6
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhc
Q 045400 18 RKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINY 65 (313)
Q Consensus 18 kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~ 65 (313)
..-.||.+|..+|.++|..|| .+|.+||.+++ +|+..||..|+.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~yg-DdW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYG-DDWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhh-hhHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 556899999999999999999 77999999999 99999999998764
No 30
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.87 E-value=0.0005 Score=70.07 Aligned_cols=48 Identities=19% Similarity=0.453 Sum_probs=43.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhc
Q 045400 16 KHRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINY 65 (313)
Q Consensus 16 ~~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~ 65 (313)
..-++.||.+|+-+|+++|.+|| .+|.+||.+++ +||..||..++.+.
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~-ddW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYG-DDWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhc-ccHHHHHhccC-CCCHHHHHHHHHhc
Confidence 34578899999999999999999 77999999999 99999999998763
No 31
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.78 E-value=0.0011 Score=66.28 Aligned_cols=44 Identities=18% Similarity=0.302 Sum_probs=41.6
Q ss_pred cccCHHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHH
Q 045400 73 GVFNMQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSH 116 (313)
Q Consensus 73 ~~WT~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~l 116 (313)
..||.+|..+|++++..||-.|.+||+++.+||..||.-||-.+
T Consensus 280 k~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 280 KNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 38999999999999999999999999999999999999999654
No 32
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.68 E-value=0.0019 Score=65.84 Aligned_cols=46 Identities=17% Similarity=0.346 Sum_probs=42.5
Q ss_pred cCcccCHHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHH
Q 045400 71 KRGVFNMQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSH 116 (313)
Q Consensus 71 kk~~WT~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~l 116 (313)
.+..||++|..+||+++..||-.|.+||.++.+||..||--|+..+
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhc
Confidence 3558999999999999999999999999999999999999999653
No 33
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.63 E-value=0.0014 Score=50.85 Aligned_cols=49 Identities=27% Similarity=0.486 Sum_probs=34.4
Q ss_pred CcccCHHHHHHHHHHHHH------hC--C------chhhhcccC----CCCCHHHHHHHHHHHHHHH
Q 045400 72 RGVFNMQEEETILTLHRL------LG--N------KWSQIAQHL----PGRTDNEIKNYWHSHLKKK 120 (313)
Q Consensus 72 k~~WT~EED~~Ll~lv~~------~G--~------~W~~Ia~~l----~gRT~~q~knrw~~llkk~ 120 (313)
+..||.+|...||.++.. ++ . -|..||..| ..||+.||+.+|..+.+.-
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Y 67 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKY 67 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Confidence 357999999999999877 21 1 399999876 3699999999999965544
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=96.46 E-value=0.0037 Score=46.83 Aligned_cols=50 Identities=20% Similarity=0.422 Sum_probs=32.3
Q ss_pred CcccCHHHHHHHHHHHHHhC--------Cc-hhhhcccCC-CCCHHHHHHHHHHHHHHHH
Q 045400 72 RGVFNMQEEETILTLHRLLG--------NK-WSQIAQHLP-GRTDNEIKNYWHSHLKKKL 121 (313)
Q Consensus 72 k~~WT~EED~~Ll~lv~~~G--------~~-W~~Ia~~l~-gRT~~q~knrw~~llkk~l 121 (313)
+.+||.|||..|++.|+.+. +. |.++++.-+ .+|-...++||.+.|+.+.
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 46899999999999997642 22 999998876 8999999999988777654
No 35
>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=96.43 E-value=0.00092 Score=50.09 Aligned_cols=52 Identities=21% Similarity=0.355 Sum_probs=33.6
Q ss_pred CCCCCHHHHHHHHHHHHHcC--------CCCCcccccccCCcCCccccchhhhhccCCCc
Q 045400 19 KGLWSPEEDQRLKNYVLQHG--------HPCWSSVPINAGLQRNGKSCRLRWINYLRPGL 70 (313)
Q Consensus 19 kg~WT~EED~~L~~~V~kyg--------~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~l 70 (313)
+.++|.|||+.|+..|..+. ..=|..+++..+..+|-.+-|+||...|.+..
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 46799999999999997763 22299999887767888899999999987643
No 36
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=96.31 E-value=0.017 Score=63.78 Aligned_cols=102 Identities=14% Similarity=0.225 Sum_probs=78.0
Q ss_pred CCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccch-------hhhhc----------------------------
Q 045400 21 LWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRL-------RWINY---------------------------- 65 (313)
Q Consensus 21 ~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~-------Rw~~~---------------------------- 65 (313)
-|+.-+=..++.+..+||-.+-..||..|. ++|...++. ||...
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 488888888899999999888999999998 888877764 11110
Q ss_pred ---------------cCCCccCcccCHHHHHHHHHHHHHhC-Cchhhhcc------------cCCCCCHHHHHHHHHHHH
Q 045400 66 ---------------LRPGLKRGVFNMQEEETILTLHRLLG-NKWSQIAQ------------HLPGRTDNEIKNYWHSHL 117 (313)
Q Consensus 66 ---------------L~p~lkk~~WT~EED~~Ll~lv~~~G-~~W~~Ia~------------~l~gRT~~q~knrw~~ll 117 (313)
-.+..++..+|+|||.-|+-.+.+|| ..|..|-. +|..||+..|..|-..++
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 01222344699999999999999999 67998833 346899999999999988
Q ss_pred HHHHHH
Q 045400 118 KKKLAK 123 (313)
Q Consensus 118 kk~l~~ 123 (313)
+-..+.
T Consensus 985 ~~~~~e 990 (1033)
T PLN03142 985 RLIEKE 990 (1033)
T ss_pred HHHHHH
Confidence 765443
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=96.05 E-value=0.0011 Score=57.88 Aligned_cols=50 Identities=34% Similarity=0.687 Sum_probs=41.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHc---CC---CCCcccccccCCcCCccccchhhhhccCC
Q 045400 17 HRKGLWSPEEDQRLKNYVLQH---GH---PCWSSVPINAGLQRNGKSCRLRWINYLRP 68 (313)
Q Consensus 17 ~kkg~WT~EED~~L~~~V~ky---g~---~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p 68 (313)
.+...||.|||.+|.+.|.+| |. ..+..|+..+. ||+..|.-||..+++.
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 456789999999999999999 21 13777887776 9999999999998873
No 38
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.95 E-value=0.0078 Score=53.19 Aligned_cols=52 Identities=12% Similarity=0.242 Sum_probs=43.2
Q ss_pred ccCcccCHHHHHHHHHHHHHhCC----c---hhhhcccCCCCCHHHHHHHHHHHHHHHHH
Q 045400 70 LKRGVFNMQEEETILTLHRLLGN----K---WSQIAQHLPGRTDNEIKNYWHSHLKKKLA 122 (313)
Q Consensus 70 lkk~~WT~EED~~Ll~lv~~~G~----~---W~~Ia~~l~gRT~~q~knrw~~llkk~l~ 122 (313)
.+...||.|||.+|.+.|..|+. + ...++..| +||+.+|..||+.+++++..
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Ye 61 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQ 61 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHH
Confidence 35678999999999988888873 2 56777788 99999999999999997543
No 39
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.71 E-value=0.0028 Score=49.10 Aligned_cols=47 Identities=23% Similarity=0.523 Sum_probs=33.0
Q ss_pred CCCCHHHHHHHHHHHHH--c----CC-------CCCccccccc---CCcCCccccchhhhhcc
Q 045400 20 GLWSPEEDQRLKNYVLQ--H----GH-------PCWSSVPINA---GLQRNGKSCRLRWINYL 66 (313)
Q Consensus 20 g~WT~EED~~L~~~V~k--y----g~-------~~W~~IA~~l---~~~Rt~~QCr~Rw~~~L 66 (313)
-.||.+|...|+.++.. + +. .-|..||..| |..||+.||+.+|.+..
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 47999999999999988 2 10 1399999886 44799999999998743
No 40
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.14 E-value=0.038 Score=41.93 Aligned_cols=49 Identities=24% Similarity=0.454 Sum_probs=39.8
Q ss_pred CcccCHHHHHHHHHHHHHhCC-----------------chhhhcccC-----CCCCHHHHHHHHHHHHHHH
Q 045400 72 RGVFNMQEEETILTLHRLLGN-----------------KWSQIAQHL-----PGRTDNEIKNYWHSHLKKK 120 (313)
Q Consensus 72 k~~WT~EED~~Ll~lv~~~G~-----------------~W~~Ia~~l-----~gRT~~q~knrw~~llkk~ 120 (313)
...||.+|.+.|++++.++.. -|..|+..| +.||..+++.+|..+....
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 457999999999999988631 299999865 3699999999999866543
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.06 E-value=0.0072 Score=58.04 Aligned_cols=47 Identities=15% Similarity=0.324 Sum_probs=44.4
Q ss_pred CCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccC
Q 045400 20 GLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLR 67 (313)
Q Consensus 20 g~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~ 67 (313)
--|+..|+-+|+++....|.++|..||..+| .|+...|+++|..++.
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 4599999999999999999999999999999 9999999999998776
No 42
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=94.81 E-value=0.024 Score=54.51 Aligned_cols=46 Identities=24% Similarity=0.401 Sum_probs=42.4
Q ss_pred cccCHHHHHHHHHHHHHhC-CchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 73 GVFNMQEEETILTLHRLLG-NKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 73 ~~WT~EED~~Ll~lv~~~G-~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
..|+..|+.+|++.+.-.| +.|..||.++..|+...||.||.++..
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 3699999999999999999 789999999999999999999977665
No 43
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.80 E-value=0.007 Score=46.00 Aligned_cols=49 Identities=27% Similarity=0.402 Sum_probs=39.3
Q ss_pred CCCCCCHHHHHHHHHHHHHc-----C-----------CCCCccccccc----CCcCCccccchhhhhcc
Q 045400 18 RKGLWSPEEDQRLKNYVLQH-----G-----------HPCWSSVPINA----GLQRNGKSCRLRWINYL 66 (313)
Q Consensus 18 kkg~WT~EED~~L~~~V~ky-----g-----------~~~W~~IA~~l----~~~Rt~~QCr~Rw~~~L 66 (313)
++..||++|.+.|+++|.+| + ...|..|+..+ |..|+..||+.+|.++.
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 35679999999999999998 2 12399999876 22699999999998754
No 44
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=94.37 E-value=0.0096 Score=52.64 Aligned_cols=50 Identities=30% Similarity=0.562 Sum_probs=38.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHHcCCCC------CcccccccCCcCCccccchhhhhccC
Q 045400 16 KHRKGLWSPEEDQRLKNYVLQHGHPC------WSSVPINAGLQRNGKSCRLRWINYLR 67 (313)
Q Consensus 16 ~~kkg~WT~EED~~L~~~V~kyg~~~------W~~IA~~l~~~Rt~~QCr~Rw~~~L~ 67 (313)
..++..||.|||.+|.+.|..|+... ...++..+ +|++.+|..||.-+++
T Consensus 2 k~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L--~rt~aac~fRwNs~vr 57 (170)
T PRK13923 2 KTRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL--KRTAAACGFRWNSVVR 57 (170)
T ss_pred cchhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH--hhhHHHHHhHHHHHHH
Confidence 35678899999999999999996433 34444444 4999999999976665
No 45
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=93.69 E-value=0.14 Score=50.66 Aligned_cols=80 Identities=19% Similarity=0.324 Sum_probs=61.8
Q ss_pred CCcccccccCCcCCccccchhhhhccCCCc-------------------------cCcccCHHHHHHHHHHHHHhCCchh
Q 045400 41 CWSSVPINAGLQRNGKSCRLRWINYLRPGL-------------------------KRGVFNMQEEETILTLHRLLGNKWS 95 (313)
Q Consensus 41 ~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~l-------------------------kk~~WT~EED~~Ll~lv~~~G~~W~ 95 (313)
.|..++-..+ -|...-...||...-++.. .-..||+||-+.|.++++.|--+|.
T Consensus 75 ~W~w~pFtn~-aRkD~~~l~HWvr~~d~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf~ 153 (445)
T KOG2656|consen 75 PWKWVPFTNS-ARKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRFF 153 (445)
T ss_pred CceeeccCCc-cccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeEE
Confidence 4777765566 6767667777877744321 1125999999999999999999999
Q ss_pred hhccc-----CCC-CCHHHHHHHHHHHHHHHH
Q 045400 96 QIAQH-----LPG-RTDNEIKNYWHSHLKKKL 121 (313)
Q Consensus 96 ~Ia~~-----l~g-RT~~q~knrw~~llkk~l 121 (313)
-|+.. ++. ||-.++|.||....++.+
T Consensus 154 VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~ 185 (445)
T KOG2656|consen 154 VIADRYDNQQYKKSRTVEDLKERYYSVCRKLL 185 (445)
T ss_pred EEeeccchhhccccccHHHHHHHHHHHHHHHH
Confidence 99976 644 999999999999877543
No 46
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=92.69 E-value=0.16 Score=42.37 Aligned_cols=51 Identities=24% Similarity=0.434 Sum_probs=40.2
Q ss_pred CccCcccCHHHHHHHHHHHHHhCC----chhhhcc------------cCCCCCHHHHHHHHHHHHHH
Q 045400 69 GLKRGVFNMQEEETILTLHRLLGN----KWSQIAQ------------HLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 69 ~lkk~~WT~EED~~Ll~lv~~~G~----~W~~Ia~------------~l~gRT~~q~knrw~~llkk 119 (313)
..++..||+|||.-|+-.+.+||- .|..|.. ++..||+..|..|-..+++-
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 5887765 23569999999999988764
No 47
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=91.76 E-value=0.2 Score=49.32 Aligned_cols=46 Identities=22% Similarity=0.304 Sum_probs=42.4
Q ss_pred cccCHHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 73 GVFNMQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 73 ~~WT~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
.+||.+|-+++.++..++|..+..|+..||.|...|||.+|..--+
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 3899999999999999999999999999999999999999976444
No 48
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=89.75 E-value=0.53 Score=45.67 Aligned_cols=51 Identities=18% Similarity=0.279 Sum_probs=40.3
Q ss_pred CcccCHHHHHHHHHHHHHh----------CCchhhhcccC----CCCCHHHHHHHHHHHHHHHHH
Q 045400 72 RGVFNMQEEETILTLHRLL----------GNKWSQIAQHL----PGRTDNEIKNYWHSHLKKKLA 122 (313)
Q Consensus 72 k~~WT~EED~~Ll~lv~~~----------G~~W~~Ia~~l----~gRT~~q~knrw~~llkk~l~ 122 (313)
...|+.+|-..||++.... +..|..||+.+ .-||+.+|+.+|..+.++...
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 4789999999999888643 23499999854 359999999999997765543
No 49
>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=89.35 E-value=0.71 Score=35.93 Aligned_cols=46 Identities=28% Similarity=0.510 Sum_probs=34.6
Q ss_pred ccCHHHHHHHHHHHHHh---CC----------chhhhcccC---CC--CCHHHHHHHHHHHHHH
Q 045400 74 VFNMQEEETILTLHRLL---GN----------KWSQIAQHL---PG--RTDNEIKNYWHSHLKK 119 (313)
Q Consensus 74 ~WT~EED~~Ll~lv~~~---G~----------~W~~Ia~~l---~g--RT~~q~knrw~~llkk 119 (313)
.||+++++.|++++.+. |. .|..|++.| +| .|..||++||..+.+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~ 64 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKD 64 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHH
Confidence 49999999999998653 21 289999876 23 4788999999875443
No 50
>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=88.92 E-value=0.18 Score=39.63 Aligned_cols=29 Identities=31% Similarity=0.800 Sum_probs=17.7
Q ss_pred CCCCCCCCCHHHHHHH--------HHHHHHcCCCCCcccc
Q 045400 15 PKHRKGLWSPEEDQRL--------KNYVLQHGHPCWSSVP 46 (313)
Q Consensus 15 p~~kkg~WT~EED~~L--------~~~V~kyg~~~W~~IA 46 (313)
|.-..|.||+|+|+.| ..++++|| +..|+
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG---~~~i~ 79 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHG---EERIE 79 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH----HHHHH
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC---HHHHH
Confidence 6677899999999999 56667887 55554
No 51
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=88.48 E-value=1.2 Score=44.96 Aligned_cols=49 Identities=18% Similarity=0.293 Sum_probs=44.0
Q ss_pred cCcccCHHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 71 KRGVFNMQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 71 kk~~WT~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
-...||.||-.++-.+...||+.+.+|-+.||.|+-..+..+|....+.
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~ 234 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKT 234 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHH
Confidence 3457999999999999999999999999999999999999998875553
No 52
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=86.84 E-value=0.3 Score=51.78 Aligned_cols=44 Identities=11% Similarity=0.187 Sum_probs=40.1
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhh
Q 045400 19 KGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWIN 64 (313)
Q Consensus 19 kg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~ 64 (313)
..+||+.|-.++.+|+..|. +++..|+.+++ ++|.+||-+-|+.
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~-KDF~~v~km~~-~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYS-KDFIFVQKMVK-SKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhc-ccHHHHHHHhc-cccHHHHHHHHHH
Confidence 35799999999999999999 78999999999 9999999997764
No 53
>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=85.56 E-value=1.4 Score=30.72 Aligned_cols=41 Identities=22% Similarity=0.366 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 77 MQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 77 ~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
++++..++.++...|-.|.+||+.+ |.|...|+.+...-++
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 4678888889888999999999999 9999999998766443
No 54
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=84.35 E-value=0.67 Score=45.81 Aligned_cols=47 Identities=19% Similarity=0.248 Sum_probs=41.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhh
Q 045400 16 KHRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWIN 64 (313)
Q Consensus 16 ~~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~ 64 (313)
+..--+||.+|-+++.+|+...| .++..|+..+| .|..+|++..|.+
T Consensus 362 ~~~~~~Ws~~e~ekFYKALs~wG-tdF~LIs~lfP-~R~RkqIKaKfi~ 408 (507)
T COG5118 362 KKGALRWSKKEIEKFYKALSIWG-TDFSLISSLFP-NRERKQIKAKFIK 408 (507)
T ss_pred CCCCCcccHHHHHHHHHHHHHhc-chHHHHHHhcC-chhHHHHHHHHHH
Confidence 34445799999999999999999 56999999999 9999999998876
No 55
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=82.36 E-value=0.59 Score=45.37 Aligned_cols=47 Identities=28% Similarity=0.449 Sum_probs=37.4
Q ss_pred CCCCCHHHHHHHHHHHHHc---------CCCCCccccccc---CCcCCccccchhhhhc
Q 045400 19 KGLWSPEEDQRLKNYVLQH---------GHPCWSSVPINA---GLQRNGKSCRLRWINY 65 (313)
Q Consensus 19 kg~WT~EED~~L~~~V~ky---------g~~~W~~IA~~l---~~~Rt~~QCr~Rw~~~ 65 (313)
-..|+.+|-..|+.+..+. ...-|..||..+ +..|++.||+.+|.+.
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl 112 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENL 112 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence 3789999999999998764 123499999843 4469999999999873
No 56
>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=79.96 E-value=0.82 Score=38.16 Aligned_cols=49 Identities=22% Similarity=0.345 Sum_probs=35.0
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHcCC---CCCcccccccC-----------CcCCccccchhhh
Q 045400 15 PKHRKGLWSPEEDQRLKNYVLQHGH---PCWSSVPINAG-----------LQRNGKSCRLRWI 63 (313)
Q Consensus 15 p~~kkg~WT~EED~~L~~~V~kyg~---~~W~~IA~~l~-----------~~Rt~~QCr~Rw~ 63 (313)
|.-++..||.|||.-|+-++.+||. +.|..|-..+. ..||+..+..|-.
T Consensus 45 ~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~ 107 (118)
T PF09111_consen 45 PNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCN 107 (118)
T ss_dssp STSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHH
T ss_pred CCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHH
Confidence 3677889999999999999999998 78998876642 1466666555543
No 57
>smart00595 MADF subfamily of SANT domain.
Probab=79.08 E-value=3.4 Score=31.67 Aligned_cols=29 Identities=28% Similarity=0.556 Sum_probs=23.9
Q ss_pred hhhhcccCCCCCHHHHHHHHHHHHHHHHHH
Q 045400 94 WSQIAQHLPGRTDNEIKNYWHSHLKKKLAK 123 (313)
Q Consensus 94 W~~Ia~~l~gRT~~q~knrw~~llkk~l~~ 123 (313)
|..||..| |-|..+|+.+|+.+...-...
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~~y~~e 58 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRDRYRRE 58 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHHHHHHH
Confidence 99999999 559999999999976654443
No 58
>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=77.97 E-value=3.2 Score=28.17 Aligned_cols=38 Identities=18% Similarity=0.372 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHhCC-chhhhcccCCCCCHHHHHHHHHHH
Q 045400 78 QEEETILTLHRLLGN-KWSQIAQHLPGRTDNEIKNYWHSH 116 (313)
Q Consensus 78 EED~~Ll~lv~~~G~-~W~~Ia~~l~gRT~~q~knrw~~l 116 (313)
+=|.+|+.+...-|. .|.+||+.+ |=|...|..|++.+
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 457889999888884 599999999 99999999999764
No 59
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=75.93 E-value=1.5 Score=34.03 Aligned_cols=44 Identities=20% Similarity=0.550 Sum_probs=31.3
Q ss_pred CCCHHHHHHHHHHHHHc---CCC---------CCcccccccC----CcCCccccchhhhh
Q 045400 21 LWSPEEDQRLKNYVLQH---GHP---------CWSSVPINAG----LQRNGKSCRLRWIN 64 (313)
Q Consensus 21 ~WT~EED~~L~~~V~ky---g~~---------~W~~IA~~l~----~~Rt~~QCr~Rw~~ 64 (313)
.||+++++.|++++... |.. .|..|+..|- ...+..||+.||..
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 59999999999998665 212 2777777653 23466788888765
No 60
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=70.99 E-value=6.1 Score=33.77 Aligned_cols=45 Identities=11% Similarity=0.107 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHhC-CchhhhcccCCCCCHHHHHHHHHHHHHHHHH
Q 045400 77 MQEEETILTLHRLLG-NKWSQIAQHLPGRTDNEIKNYWHSHLKKKLA 122 (313)
Q Consensus 77 ~EED~~Ll~lv~~~G-~~W~~Ia~~l~gRT~~q~knrw~~llkk~l~ 122 (313)
.+-|.+|+.+..+-| ..|++||+.+ |-|...|+.|++.+....+-
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCe
Confidence 357889999998888 4699999999 99999999999987765543
No 61
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=69.23 E-value=6.7 Score=42.05 Aligned_cols=45 Identities=7% Similarity=0.076 Sum_probs=40.7
Q ss_pred cccCHHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHH
Q 045400 73 GVFNMQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHL 117 (313)
Q Consensus 73 ~~WT~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~ll 117 (313)
.-||+.|-.++-+++..|.+.+-.|++.++++|-.||-.+|....
T Consensus 620 d~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtWK 664 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTWK 664 (907)
T ss_pred ccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHHH
Confidence 479999999999999999999999999999999999988865543
No 62
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=68.67 E-value=27 Score=34.73 Aligned_cols=46 Identities=17% Similarity=0.216 Sum_probs=40.7
Q ss_pred cccCHHHHHHHHHHHHHhCCchhhhcc-cCCCCCHHHHHHHHHHHHH
Q 045400 73 GVFNMQEEETILTLHRLLGNKWSQIAQ-HLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 73 ~~WT~EED~~Ll~lv~~~G~~W~~Ia~-~l~gRT~~q~knrw~~llk 118 (313)
..|+++|-..+-+.++.||+.+..|.+ .|+.|+--.|-..|....+
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWKk 324 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWKK 324 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhhc
Confidence 479999999999999999999999987 5799999999998876543
No 63
>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=67.88 E-value=16 Score=35.49 Aligned_cols=50 Identities=22% Similarity=0.467 Sum_probs=39.0
Q ss_pred cCcccCHHHHHHHHHHHHHh-CCc---hhhhcccCCCCCHHHHHHHHHHHHHHH
Q 045400 71 KRGVFNMQEEETILTLHRLL-GNK---WSQIAQHLPGRTDNEIKNYWHSHLKKK 120 (313)
Q Consensus 71 kk~~WT~EED~~Ll~lv~~~-G~~---W~~Ia~~l~gRT~~q~knrw~~llkk~ 120 (313)
.-..||.-|...|+++.... |.. -..|++.++||+..+|++.-..+..+.
T Consensus 20 gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rv 73 (344)
T PF11035_consen 20 GPAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRV 73 (344)
T ss_pred CcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHH
Confidence 34579999999999998765 434 468889999999999999766654443
No 64
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=67.47 E-value=3.5 Score=40.99 Aligned_cols=49 Identities=16% Similarity=0.183 Sum_probs=42.0
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCCCcccccc-----cCCcCCccccchhhhhccC
Q 045400 18 RKGLWSPEEDQRLKNYVLQHGHPCWSSVPIN-----AGLQRNGKSCRLRWINYLR 67 (313)
Q Consensus 18 kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~-----l~~~Rt~~QCr~Rw~~~L~ 67 (313)
.-..||.||.+-|..+.++|. -.|.-||.. ++..||....++||+.+..
T Consensus 129 ~dn~WskeETD~LF~lck~fD-LRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r 182 (445)
T KOG2656|consen 129 NDNSWSKEETDYLFDLCKRFD-LRFFVIADRYDNQQYKKSRTVEDLKERYYSVCR 182 (445)
T ss_pred ccccccHHHHHHHHHHHHhcC-eeEEEEeeccchhhccccccHHHHHHHHHHHHH
Confidence 346799999999999999999 569999998 6755999999999987643
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=67.45 E-value=4.4 Score=35.59 Aligned_cols=41 Identities=27% Similarity=0.260 Sum_probs=35.5
Q ss_pred ccCHHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHH
Q 045400 74 VFNMQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHS 115 (313)
Q Consensus 74 ~WT~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~ 115 (313)
.||+|+.++|.+|..+ |..=++||+.|.|.|.+.|.-+.+.
T Consensus 2 ~Wtde~~~~L~~lw~~-G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHHHc-CCCHHHHHHHhCCcchhhhhhhhhc
Confidence 5999999999998754 8888999999977999999887765
No 66
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=67.12 E-value=8.5 Score=40.41 Aligned_cols=49 Identities=16% Similarity=0.240 Sum_probs=37.4
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCCCcccccccCC---------cCCccccchhhhhccC
Q 045400 18 RKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGL---------QRNGKSCRLRWINYLR 67 (313)
Q Consensus 18 kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~---------~Rt~~QCr~Rw~~~L~ 67 (313)
.|.-||..|.+-+..++..+| +++..|-..+.. -++-.|+|.+|++.+.
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~ 144 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVR 144 (782)
T ss_pred cccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHH
Confidence 377899999999999999999 789888222211 3466789998887654
No 67
>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=65.29 E-value=9.9 Score=26.02 Aligned_cols=41 Identities=24% Similarity=0.410 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 78 QEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 78 EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
+++..++.+.-..|..+.+||+.| |-|...|+.+-...+++
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 566667777666667899999999 99999999887766554
No 68
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=63.19 E-value=8.8 Score=33.22 Aligned_cols=44 Identities=9% Similarity=0.053 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHHhC-CchhhhcccCCCCCHHHHHHHHHHHHHHHH
Q 045400 77 MQEEETILTLHRLLG-NKWSQIAQHLPGRTDNEIKNYWHSHLKKKL 121 (313)
Q Consensus 77 ~EED~~Ll~lv~~~G-~~W~~Ia~~l~gRT~~q~knrw~~llkk~l 121 (313)
.+-|.+||.+..+-| -.|++||+.+ |-+...|..|++.+.+..+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 567888999888888 4699999999 9999999999998877654
No 69
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=62.95 E-value=2.5 Score=31.47 Aligned_cols=44 Identities=18% Similarity=0.379 Sum_probs=29.9
Q ss_pred HHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCC-------ccCcccCHHHHHHH
Q 045400 27 DQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPG-------LKRGVFNMQEEETI 83 (313)
Q Consensus 27 D~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~-------lkk~~WT~EED~~L 83 (313)
+.+|.++|..|| |..+++.+. ..|.. -+|. +++.||-.+..+.|
T Consensus 12 e~il~~Lv~~yG---W~~L~~~i~-----i~CF~-----~~PsikSSLkFLRkTpWAR~KVE~l 62 (64)
T PF09905_consen 12 ETILTELVEHYG---WEELGERIN-----INCFK-----NNPSIKSSLKFLRKTPWAREKVENL 62 (64)
T ss_dssp HHHHHHHHHHT----HHHHHHHTT-----SSSTT-----SS--HHHHHHHHHHSHHHHHHHHHH
T ss_pred HHHHHHHHHHhC---HHHHHhhcc-----cccCC-----CCCchHHHHHHHhcCHhHHHHHHHh
Confidence 578999999999 999987776 22322 2443 35779988877765
No 70
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=61.54 E-value=14 Score=33.58 Aligned_cols=47 Identities=13% Similarity=0.167 Sum_probs=35.0
Q ss_pred ccCHHHHHHHHHHHHHhCCchhhhcccC---CCCCHHHHHHHHHHHHHHHH
Q 045400 74 VFNMQEEETILTLHRLLGNKWSQIAQHL---PGRTDNEIKNYWHSHLKKKL 121 (313)
Q Consensus 74 ~WT~EED~~Ll~lv~~~G~~W~~Ia~~l---~gRT~~q~knrw~~llkk~l 121 (313)
.|++++|-.|+.+|.. +..-..|++.+ -.-|-..|..||..+|--..
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~ 50 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLYDPV 50 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHcChh
Confidence 4999999999999876 44455555433 33488999999999987443
No 71
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=60.84 E-value=13 Score=39.15 Aligned_cols=49 Identities=16% Similarity=0.502 Sum_probs=39.4
Q ss_pred cCcccCHHHHHHHHHHHHHhCCchhhhc----------ccCCCCCHHHHHHHHHHHHHH
Q 045400 71 KRGVFNMQEEETILTLHRLLGNKWSQIA----------QHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 71 kk~~WT~EED~~Ll~lv~~~G~~W~~Ia----------~~l~gRT~~q~knrw~~llkk 119 (313)
++..||-.|++-+..+++++|+.+..|- ..+.-+|..|++.+|..++++
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~ 145 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRR 145 (782)
T ss_pred cccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHH
Confidence 3678999999999999999999998882 233446778898888877664
No 72
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=60.77 E-value=11 Score=39.56 Aligned_cols=46 Identities=22% Similarity=0.325 Sum_probs=42.4
Q ss_pred ccCcccCHHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHH
Q 045400 70 LKRGVFNMQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHS 115 (313)
Q Consensus 70 lkk~~WT~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~ 115 (313)
....+|+.+|-++.-.....+|...+.|+..+|+|...|||.++..
T Consensus 407 ~~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 407 LETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred cccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhh
Confidence 3456899999999999999999999999999999999999999865
No 73
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=58.75 E-value=16 Score=30.01 Aligned_cols=39 Identities=26% Similarity=0.402 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 79 EEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 79 ED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
++..++.+.-..|-.+.+||+.+ |.|...|+.+....++
T Consensus 117 ~~r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~ 155 (161)
T TIGR02985 117 QCRKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALK 155 (161)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 34444455444577899999999 9999999999887544
No 74
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=57.51 E-value=20 Score=28.74 Aligned_cols=49 Identities=16% Similarity=0.127 Sum_probs=33.5
Q ss_pred cccCHHHHHHHHHHHHHh----CC----chhh----hcccC-CCCCHHHHHHHHHHHHHHHH
Q 045400 73 GVFNMQEEETILTLHRLL----GN----KWSQ----IAQHL-PGRTDNEIKNYWHSHLKKKL 121 (313)
Q Consensus 73 ~~WT~EED~~Ll~lv~~~----G~----~W~~----Ia~~l-~gRT~~q~knrw~~llkk~l 121 (313)
.-||+|++..||+++..| |. .|.. |...| ..=+..|+.++-+.+.++..
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~ 66 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYR 66 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHH
Confidence 359999999999999877 52 2432 33334 22378899999888555443
No 75
>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=57.40 E-value=4.1 Score=27.64 Aligned_cols=38 Identities=16% Similarity=0.294 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhh
Q 045400 25 EEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWIN 64 (313)
Q Consensus 25 EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~ 64 (313)
+=|.+|+.++..-+...|..||+.+| -+...|+.|+..
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 45888999999999888999999988 888889988764
No 76
>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=56.77 E-value=10 Score=29.55 Aligned_cols=17 Identities=18% Similarity=0.481 Sum_probs=10.3
Q ss_pred CCccCcccCHHHHHHHH
Q 045400 68 PGLKRGVFNMQEEETIL 84 (313)
Q Consensus 68 p~lkk~~WT~EED~~Ll 84 (313)
|.-..|-||+|+|+.|.
T Consensus 43 P~n~~GiWT~eDD~~L~ 59 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLR 59 (87)
T ss_dssp -TT-TT---HHHHHHHT
T ss_pred CCCCCCCcCHHHHHHHH
Confidence 56678899999999994
No 77
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=53.39 E-value=51 Score=32.98 Aligned_cols=79 Identities=16% Similarity=0.230 Sum_probs=47.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCCccCcccCHHHHHHHHHHHHHhCCchhh
Q 045400 17 HRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPGLKRGVFNMQEEETILTLHRLLGNKWSQ 96 (313)
Q Consensus 17 ~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkk~~WT~EED~~Ll~lv~~~G~~W~~ 96 (313)
.--|.|+++=|+.+.+|++.|.+. ||+..-+++. +.. +-. .+ |+..+-++..
T Consensus 74 daegvWSpdIEqsFqEALaiyppc-----------GrrKIilsde-------gkm---yGR--NE-LIarYIKlrt---- 125 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPC-----------GRRKIILSDE-------GKM---YGR--NE-LIARYIKLRT---- 125 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCC-----------CceeEEEccC-------ccc---cch--HH-HHHHHHHHhc----
Confidence 567999999999999999999753 3333222111 000 000 11 3333322221
Q ss_pred hcccCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 045400 97 IAQHLPGRTDNEIKNYWHSHLKKKLAKLEEM 127 (313)
Q Consensus 97 Ia~~l~gRT~~q~knrw~~llkk~l~~~~~~ 127 (313)
=..||.+||-.|-+.+-|+++++.+.+
T Consensus 126 ----gktRTrKQVSSHIQVlarrk~reiq~k 152 (455)
T KOG3841|consen 126 ----GKTRTRKQVSSHIQVLARRKLREIQAK 152 (455)
T ss_pred ----CCchhHHHHHHHHHHHHHHHHHHHHhh
Confidence 047999999999988888777664443
No 78
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=50.06 E-value=9.9 Score=38.65 Aligned_cols=48 Identities=10% Similarity=0.075 Sum_probs=40.4
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhh
Q 045400 15 PKHRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWIN 64 (313)
Q Consensus 15 p~~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~ 64 (313)
..-....||.||--+|.++...|| +++.+|-+.|| .|+-..++.-|..
T Consensus 183 r~~~~d~WT~Ed~vlFe~aF~~~G-K~F~kIrq~LP-~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 183 RTEFPDEWTAEDIVLFEQAFQFFG-KDFHKIRQALP-HRSLASLVQYYYS 230 (534)
T ss_pred cCCCcccchHHHHHHHHHHHHHhc-ccHHHHHHHcc-CccHHHHHHHHHH
Confidence 445567899999999999999999 77999999999 9988777765544
No 79
>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=49.73 E-value=17 Score=28.32 Aligned_cols=29 Identities=28% Similarity=0.598 Sum_probs=24.3
Q ss_pred HHHHHHHHHHhCCchhhhcccCCCCCHHHH
Q 045400 80 EETILTLHRLLGNKWSQIAQHLPGRTDNEI 109 (313)
Q Consensus 80 D~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~ 109 (313)
|+.|..+....|..|..+|++| |=|..+|
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I 30 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDI 30 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 5678899999999999999999 7666554
No 80
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=48.83 E-value=22 Score=26.24 Aligned_cols=32 Identities=22% Similarity=0.440 Sum_probs=24.0
Q ss_pred chhhhcccCC-CCCHHHHHHHHHHHHHHHHHHH
Q 045400 93 KWSQIAQHLP-GRTDNEIKNYWHSHLKKKLAKL 124 (313)
Q Consensus 93 ~W~~Ia~~l~-gRT~~q~knrw~~llkk~l~~~ 124 (313)
-|..||..|. .-+..+|+.+|..+...-....
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~y~~~~ 60 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDRYRREL 60 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHHHHHHH
Confidence 3999999994 3678899999999766544433
No 81
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=48.63 E-value=41 Score=28.29 Aligned_cols=36 Identities=17% Similarity=0.275 Sum_probs=26.7
Q ss_pred HHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 83 ILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 83 Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
++.+....|-.+.+||..| |.+...|+.+....+++
T Consensus 136 vl~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 136 AITLREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREA 171 (182)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3444444577899999999 99999999887764443
No 82
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=48.22 E-value=17 Score=41.34 Aligned_cols=75 Identities=15% Similarity=0.225 Sum_probs=48.5
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCCccCcccCHHHHHHHHHHHHHh-CCchhh
Q 045400 18 RKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPGLKRGVFNMQEEETILTLHRLL-GNKWSQ 96 (313)
Q Consensus 18 kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkk~~WT~EED~~Ll~lv~~~-G~~W~~ 96 (313)
.---|..+||..|+-.|-+||.++|..|-.- +.-|... ...+...+-.+.|=..+-..|+.++..+ +..|..
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~D------p~L~l~d-Ki~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~ 1204 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLD------PDLGLTD-KIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPK 1204 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccC------ccccchh-hhcccccCCchHHHHHHHHHHHHHHhhcccCCCch
Confidence 5567999999999999999999999988321 1111110 1111212445567777778888888776 445655
Q ss_pred hcc
Q 045400 97 IAQ 99 (313)
Q Consensus 97 Ia~ 99 (313)
..+
T Consensus 1205 ~~~ 1207 (1373)
T KOG0384|consen 1205 KLK 1207 (1373)
T ss_pred hhh
Confidence 443
No 83
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=47.86 E-value=15 Score=36.58 Aligned_cols=57 Identities=12% Similarity=0.053 Sum_probs=42.2
Q ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhc
Q 045400 8 KPIAKPKPKHRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINY 65 (313)
Q Consensus 8 k~~~~~kp~~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~ 65 (313)
+|+..+.-+-.--.|+.+|-..+.+.++.|| +++..|-+.--.+|+...|.+-|+.+
T Consensus 266 ~rfnvk~~rd~l~~wsEeEcr~FEegl~~yG-KDF~lIr~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 266 LRFNVKTVRDDLSGWSEEECRNFEEGLELYG-KDFHLIRANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred cCCcceecccccccCCHHHHHHHHHHHHHhc-ccHHHHHhcccccchHHHHHHHHHHh
Confidence 3444333334445699999999999999999 78988865533389999998877643
No 84
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=47.01 E-value=16 Score=38.26 Aligned_cols=50 Identities=14% Similarity=0.198 Sum_probs=44.4
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhh
Q 045400 13 PKPKHRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWIN 64 (313)
Q Consensus 13 ~kp~~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~ 64 (313)
..+....++||.+|-+++..++...| .+...|+..++ +|..+|++..+..
T Consensus 403 ~sk~~~~~~w~~se~e~fyka~~~~g-s~~slis~l~p-~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 403 YSKKLETDKWDASETELFYKALSERG-SDFSLISNLFP-LRDRKQIKAKFKK 452 (584)
T ss_pred ccCccccCcccchhhHHhhhHHhhhc-ccccccccccc-cccHHHHHHHHhh
Confidence 45777889999999999999999999 56999999999 9999999987754
No 85
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=45.73 E-value=9.6 Score=32.56 Aligned_cols=46 Identities=9% Similarity=0.176 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCCcc
Q 045400 24 PEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPGLK 71 (313)
Q Consensus 24 ~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lk 71 (313)
.+-|.+|+.++.+-|-..|.+||+.++ -+...|+.|+.+...-++-
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 367999999999999888999999987 8999999999887765543
No 86
>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=45.63 E-value=38 Score=26.97 Aligned_cols=38 Identities=29% Similarity=0.369 Sum_probs=27.5
Q ss_pred HHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 81 ETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 81 ~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
..++.++...|..+.+||+.+ |-+...|+.+....+++
T Consensus 116 ~~ii~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 116 REVLVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred HHHHhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334444444577899999999 77999999988775443
No 87
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=44.92 E-value=39 Score=26.02 Aligned_cols=38 Identities=18% Similarity=0.322 Sum_probs=27.1
Q ss_pred HHHHHHHHhCC--------chhhhcccCCC---CC--HHHHHHHHHHHHHH
Q 045400 82 TILTLHRLLGN--------KWSQIAQHLPG---RT--DNEIKNYWHSHLKK 119 (313)
Q Consensus 82 ~Ll~lv~~~G~--------~W~~Ia~~l~g---RT--~~q~knrw~~llkk 119 (313)
+|-.+|.+.|+ .|..|++.|.- -+ ..+++..|..+|.+
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 37777777774 59999998821 12 36789999888754
No 88
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=43.00 E-value=47 Score=21.50 Aligned_cols=37 Identities=22% Similarity=0.343 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHH
Q 045400 79 EEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSH 116 (313)
Q Consensus 79 ED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~l 116 (313)
++..++.++...|..+..||+.+ |-+...|+.+....
T Consensus 14 ~~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 14 REREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 34556666656677899999998 78888887766543
No 89
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=42.94 E-value=9 Score=33.15 Aligned_cols=47 Identities=17% Similarity=0.205 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCCccC
Q 045400 24 PEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPGLKR 72 (313)
Q Consensus 24 ~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkk 72 (313)
.+-|.+|+.++.+-|...|.+||+.++ -+...|+.|+.+...-++-+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCeE
Confidence 567999999999999889999999988 88889999998877765533
No 90
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=42.84 E-value=42 Score=26.13 Aligned_cols=38 Identities=21% Similarity=0.370 Sum_probs=27.5
Q ss_pred HHHHHHHHhCC--------chhhhcccCCC-----CCHHHHHHHHHHHHHH
Q 045400 82 TILTLHRLLGN--------KWSQIAQHLPG-----RTDNEIKNYWHSHLKK 119 (313)
Q Consensus 82 ~Ll~lv~~~G~--------~W~~Ia~~l~g-----RT~~q~knrw~~llkk 119 (313)
+|..+|.+.|+ .|..|++.|.- ....+++..|..+|.+
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 36677777764 59999998822 2356788989888765
No 91
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=42.10 E-value=43 Score=26.29 Aligned_cols=43 Identities=12% Similarity=0.139 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHhC-CchhhhcccCCCCCHHHHHHHHHHHHHHHH
Q 045400 78 QEEETILTLHRLLG-NKWSQIAQHLPGRTDNEIKNYWHSHLKKKL 121 (313)
Q Consensus 78 EED~~Ll~lv~~~G-~~W~~Ia~~l~gRT~~q~knrw~~llkk~l 121 (313)
+.|.+|+.+....| -.+..||+.+ |-+...|..+...+.+..+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~ 46 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGV 46 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 56888999888877 4699999999 9999999999988777554
No 92
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=41.48 E-value=57 Score=27.31 Aligned_cols=33 Identities=21% Similarity=0.250 Sum_probs=25.0
Q ss_pred HHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 86 LHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 86 lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
+....|..+.+||..| |-|...|+.++...+++
T Consensus 136 l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 136 LRYVEGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334566799999999 99999999988774443
No 93
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=41.08 E-value=50 Score=28.91 Aligned_cols=39 Identities=15% Similarity=0.282 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHH
Q 045400 78 QEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHL 117 (313)
Q Consensus 78 EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~ll 117 (313)
++..+++.+..-.|-.+.+||+.| |-+...|+.+|....
T Consensus 138 ~~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR 176 (185)
T PF07638_consen 138 PRQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR 176 (185)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 344555555556677899999999 999999999998754
No 94
>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=38.40 E-value=37 Score=26.50 Aligned_cols=30 Identities=23% Similarity=0.467 Sum_probs=24.5
Q ss_pred HHHHHHHHHHhCCchhhhcccCCCCCHHHHH
Q 045400 80 EETILTLHRLLGNKWSQIAQHLPGRTDNEIK 110 (313)
Q Consensus 80 D~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~k 110 (313)
|.+|..+....|..|.++|+.| |=+...|.
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI~ 33 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEIN 33 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHHH
Confidence 6778888899999999999999 66665543
No 95
>PRK04217 hypothetical protein; Provisional
Probab=36.86 E-value=70 Score=26.35 Aligned_cols=43 Identities=19% Similarity=0.165 Sum_probs=34.5
Q ss_pred cCHHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 75 FNMQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 75 WT~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
-|.+| ..++.+....|-...+||+.+ |.+...|+.++....++
T Consensus 43 Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkk 85 (110)
T PRK04217 43 MTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKK 85 (110)
T ss_pred CCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 45555 677777777788899999999 99999999999874443
No 96
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=36.28 E-value=38 Score=27.15 Aligned_cols=19 Identities=21% Similarity=0.497 Sum_probs=16.8
Q ss_pred CCCCCHHHHHHHHHHHHHc
Q 045400 19 KGLWSPEEDQRLKNYVLQH 37 (313)
Q Consensus 19 kg~WT~EED~~L~~~V~ky 37 (313)
...||+|++-.|++++..|
T Consensus 4 qR~WS~eDEi~iL~gl~~~ 22 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDF 22 (98)
T ss_pred cCCCCchHHHHHHHHHHHH
Confidence 4569999999999999888
No 97
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=35.77 E-value=82 Score=27.47 Aligned_cols=37 Identities=16% Similarity=0.182 Sum_probs=27.1
Q ss_pred HHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 81 ETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 81 ~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
..++.+....|....+||..| |-+...|+.|+...++
T Consensus 140 r~i~~l~~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~ 176 (192)
T PRK09643 140 RAALVAVDMQGYSVADAARML-GVAEGTVKSRCARGRA 176 (192)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 334444444567799999999 9999999999865433
No 98
>PLN03162 golden-2 like transcription factor; Provisional
Probab=34.75 E-value=1.3e+02 Score=30.09 Aligned_cols=47 Identities=13% Similarity=0.059 Sum_probs=38.0
Q ss_pred CcccCHHHHHHHHHHHHHhCCc---hhhhcccC--CCCCHHHHHHHHHHHHH
Q 045400 72 RGVFNMQEEETILTLHRLLGNK---WSQIAQHL--PGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 72 k~~WT~EED~~Ll~lv~~~G~~---W~~Ia~~l--~gRT~~q~knrw~~llk 118 (313)
|-.||+|=.++++++|.++|.. =..|-+.| +|=|..+|+.|.++|..
T Consensus 237 RLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl 288 (526)
T PLN03162 237 KVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRS 288 (526)
T ss_pred cccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHH
Confidence 3479999999999999999932 45666665 88899999999877654
No 99
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-associati
Probab=34.56 E-value=34 Score=26.26 Aligned_cols=30 Identities=30% Similarity=0.725 Sum_probs=23.8
Q ss_pred HHHHHHHHHHhCCchhhhcccCCCCCHHHHH
Q 045400 80 EETILTLHRLLGNKWSQIAQHLPGRTDNEIK 110 (313)
Q Consensus 80 D~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~k 110 (313)
|..|..+....|..|.++|+.| |=+..+|.
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 5668888899999999999999 66655443
No 100
>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=34.13 E-value=1.4e+02 Score=29.35 Aligned_cols=89 Identities=13% Similarity=0.226 Sum_probs=60.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHcCCC---CCcccccccCCcCCccccchhhhhccCCCccCcccCHHHHHHHHHHHHH-h-
Q 045400 16 KHRKGLWSPEEDQRLKNYVLQHGHP---CWSSVPINAGLQRNGKSCRLRWINYLRPGLKRGVFNMQEEETILTLHRL-L- 90 (313)
Q Consensus 16 ~~kkg~WT~EED~~L~~~V~kyg~~---~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkk~~WT~EED~~Ll~lv~~-~- 90 (313)
......||.-|...|..++...... +-.+|++.++ +|+..++++ |.+.|+ +..+-+++++ |
T Consensus 18 ~~gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~-fl~~LK------------~rvareaiqkv~~ 83 (344)
T PF11035_consen 18 VTGPAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRD-FLQQLK------------GRVAREAIQKVHP 83 (344)
T ss_pred CCCcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHH-HHHHHH------------HHHHHHHHHHhcc
Confidence 3445689999999999888776323 3456777888 999988876 444443 1223333333 1
Q ss_pred ----CC------------chhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 91 ----GN------------KWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 91 ----G~------------~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
|. -|..+|+.+.|.-...+-.-|...|-
T Consensus 84 ~g~~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 84 GGLKGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred cccccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 11 29999999999888888888877654
No 101
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=33.86 E-value=60 Score=27.65 Aligned_cols=32 Identities=16% Similarity=0.124 Sum_probs=24.2
Q ss_pred HHHHhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 86 LHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 86 lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
+....|..+.+||..| |-|...|+.+.....+
T Consensus 147 l~~~~~~s~~eIA~~l-gis~~~v~~~l~Rar~ 178 (187)
T PRK09641 147 LKYIEDLSLKEISEIL-DLPVGTVKTRIHRGRE 178 (187)
T ss_pred hHHhhCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3334566789999999 9999999998766443
No 102
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=32.74 E-value=1.1e+02 Score=25.26 Aligned_cols=34 Identities=12% Similarity=0.107 Sum_probs=25.4
Q ss_pred HHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 85 TLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 85 ~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
.++...|-.-.+||..| |-+...|+.+....+++
T Consensus 116 ~l~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 116 LLRYWEDMDVAETAAAM-GCSEGSVKTHCSRATHA 149 (161)
T ss_pred HHHHHhcCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33344466789999999 99999999988765443
No 103
>PTZ00470 glycoside hydrolase family 47 protein; Provisional
Probab=32.64 E-value=39 Score=35.15 Aligned_cols=13 Identities=23% Similarity=0.381 Sum_probs=5.4
Q ss_pred hhhccccCCCCCC
Q 045400 246 FMNGYLSNEGAFG 258 (313)
Q Consensus 246 ~~~~~~~~~~~~~ 258 (313)
..++....+.+++
T Consensus 44 ~~~~~~~~~~~~~ 56 (522)
T PTZ00470 44 LPRGKKKQENPFN 56 (522)
T ss_pred CCCCcccccCCCC
Confidence 3444444444444
No 104
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=32.22 E-value=89 Score=26.84 Aligned_cols=37 Identities=30% Similarity=0.291 Sum_probs=27.6
Q ss_pred HHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHHHH
Q 045400 84 LTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKKKL 121 (313)
Q Consensus 84 l~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk~l 121 (313)
+.++...|-...+||..| |-+...|+.|...-+.+-+
T Consensus 136 ~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~ 172 (178)
T PRK12529 136 FLMATLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCL 172 (178)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 333344566789999999 9999999999876665543
No 105
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=31.29 E-value=71 Score=26.93 Aligned_cols=30 Identities=27% Similarity=0.442 Sum_probs=23.0
Q ss_pred HhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 89 LLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 89 ~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
..|-+..+||+.| |-|...|+.+....+++
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 3455788999999 88999999988765443
No 106
>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=30.99 E-value=50 Score=28.76 Aligned_cols=48 Identities=17% Similarity=0.227 Sum_probs=33.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCC---cCCccccchhhhhc
Q 045400 17 HRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGL---QRNGKSCRLRWINY 65 (313)
Q Consensus 17 ~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~---~Rt~~QCr~Rw~~~ 65 (313)
.+...=|+.|.+-|..||.+|| .++...|.-..+ ..|+.||+.+...|
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhG-dDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHG-DDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHC-ccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 5666789999999999999999 667766643321 35666666655443
No 107
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=30.71 E-value=1.2e+02 Score=26.38 Aligned_cols=29 Identities=14% Similarity=0.002 Sum_probs=23.3
Q ss_pred HhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 89 LLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 89 ~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
..|-...+||..| |.+...|+.|...-++
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 3466789999999 9999999998765443
No 108
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=30.70 E-value=67 Score=21.30 Aligned_cols=35 Identities=20% Similarity=0.184 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHH
Q 045400 79 EEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWH 114 (313)
Q Consensus 79 ED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~ 114 (313)
|-+.|..++..++......|+.| |=+...+..+-+
T Consensus 6 E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~klk 40 (42)
T PF02954_consen 6 EKQLIRQALERCGGNVSKAARLL-GISRRTLYRKLK 40 (42)
T ss_dssp HHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHHHH
T ss_pred HHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHHH
Confidence 66788889999999999999999 777776666543
No 109
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=30.44 E-value=1.2e+02 Score=26.20 Aligned_cols=31 Identities=13% Similarity=0.150 Sum_probs=24.2
Q ss_pred HHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 88 RLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 88 ~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
...|-...+||..| |-|...|+.++...+++
T Consensus 144 ~~~~~s~~eIA~~l-gis~~tV~~~l~Rar~~ 174 (189)
T PRK12515 144 YYHEKSVEEVGEIV-GIPESTVKTRMFYARKK 174 (189)
T ss_pred HHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 34456789999999 88999999998765443
No 110
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=30.44 E-value=1.2e+02 Score=25.27 Aligned_cols=32 Identities=16% Similarity=0.052 Sum_probs=24.0
Q ss_pred HHHHhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 86 LHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 86 lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
+....|-.-.+||..| |-+...|+.|....++
T Consensus 117 l~~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 148 (160)
T PRK09642 117 AHYLEEKSYQEIALQE-KIEVKTVEMKLYRARK 148 (160)
T ss_pred HHHHhCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3334456788999999 9999999998766444
No 111
>cd08804 Death_ank2 Death domain of Ankyrin-2. Death Domain (DD) of Ankyrin-2 (ANK-2) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-2, also called ankyrin-B (for broadly expressed), is required for proper function of the Na/Ca ion exchanger-1 in cardiomyocytes, and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. Human ANK-2 is associated with "Ankyrin-B syndrome", an atypical arrythmia disorder with risk of sudden cardiac death. It also plays key roles in the brain and striated muscle. Loss of ANK-2 is associated with significant nervous system defects and sarcomere disorganization. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other
Probab=30.38 E-value=50 Score=25.59 Aligned_cols=31 Identities=29% Similarity=0.587 Sum_probs=25.5
Q ss_pred HHHHHHHHHHhCCchhhhcccCCCCCHHHHHH
Q 045400 80 EETILTLHRLLGNKWSQIAQHLPGRTDNEIKN 111 (313)
Q Consensus 80 D~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~kn 111 (313)
|..|..+....|..|..+|+.| |=+...|..
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 5667788889999999999999 777776655
No 112
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=29.92 E-value=1e+02 Score=26.53 Aligned_cols=35 Identities=23% Similarity=0.332 Sum_probs=25.4
Q ss_pred HHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 84 LTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 84 l~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
+.++...|....+||..| |-+...|+.+....+++
T Consensus 148 ~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 148 LILRVVVGLSAEETAEAV-GSTPGAVRVAQHRALAR 182 (189)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333334466789999999 89999999987664443
No 113
>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=29.89 E-value=80 Score=26.94 Aligned_cols=29 Identities=10% Similarity=0.124 Sum_probs=22.6
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 90 LGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 90 ~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
.|....+||..| |-|...|+.+....+++
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 455689999999 88899999988765443
No 114
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=29.81 E-value=53 Score=25.47 Aligned_cols=27 Identities=37% Similarity=0.701 Sum_probs=20.6
Q ss_pred HHHHHHHhCCchhhhcccCCCCCHHHHH
Q 045400 83 ILTLHRLLGNKWSQIAQHLPGRTDNEIK 110 (313)
Q Consensus 83 Ll~lv~~~G~~W~~Ia~~l~gRT~~q~k 110 (313)
|..+....|..|..+|+.| |-+..+|.
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 3335577899999999999 77777663
No 115
>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=29.32 E-value=1.3e+02 Score=26.13 Aligned_cols=37 Identities=14% Similarity=0.168 Sum_probs=27.3
Q ss_pred HHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 82 TILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 82 ~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
.++.+....|....+||..| |-|...|+.|....+++
T Consensus 138 ~v~~l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~ 174 (188)
T TIGR02943 138 RVFMMREVLGFESDEICQEL-EISTSNCHVLLYRARLS 174 (188)
T ss_pred HHHHHHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 34444444567789999999 99999999987765443
No 116
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=29.16 E-value=1.1e+02 Score=25.14 Aligned_cols=82 Identities=21% Similarity=0.261 Sum_probs=0.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCCccCcccC--------------------
Q 045400 17 HRKGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPGLKRGVFN-------------------- 76 (313)
Q Consensus 17 ~kkg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkk~~WT-------------------- 76 (313)
.++..||+|+-..++..+...| ..=..||..++. ..+-..+|.+.+.....-+. +
T Consensus 8 ~~rr~ys~EfK~~aV~~~~~~g-~sv~evA~e~gI---s~~tl~~W~r~y~~~~~~~~-~~~~~~~~~~~~~~~~~ei~~ 82 (121)
T PRK09413 8 EKRRRRTTQEKIAIVQQSFEPG-MTVSLVARQHGV---AASQLFLWRKQYQEGSLTAV-AAGEQVVPASELAAAMKQIKE 82 (121)
T ss_pred CCCCCCCHHHHHHHHHHHHcCC-CCHHHHHHHHCc---CHHHHHHHHHHHhhcccccc-cccccCCchhHHHHHHHHHHH
Q ss_pred --------HHHHHHHHHHHHHhC-CchhhhcccCCC
Q 045400 77 --------MQEEETILTLHRLLG-NKWSQIAQHLPG 103 (313)
Q Consensus 77 --------~EED~~Ll~lv~~~G-~~W~~Ia~~l~g 103 (313)
..|-+.|-+++..++ .+|..++.+++|
T Consensus 83 L~~el~~L~~E~diLKKa~~~~~~~~~~~~~~~~~~ 118 (121)
T PRK09413 83 LQRLLGKKTMENELLKEAVEYGRAKKWIAHAPLLPG 118 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhchhhhhhcCCCCCC
No 117
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=28.91 E-value=90 Score=26.49 Aligned_cols=38 Identities=24% Similarity=0.432 Sum_probs=27.7
Q ss_pred HHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 81 ETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 81 ~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
..++.+....|-...+||..| |.+...|+.+-..-+++
T Consensus 125 r~v~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 162 (172)
T PRK12523 125 RAAFLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQ 162 (172)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334444445566789999999 99999999987665544
No 118
>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=28.82 E-value=39 Score=25.93 Aligned_cols=33 Identities=30% Similarity=0.513 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHH
Q 045400 77 MQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKN 111 (313)
Q Consensus 77 ~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~kn 111 (313)
.||.++|+.. ...|..|...|+.| |=+...|..
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 6788888842 24578899999999 777777655
No 119
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=28.74 E-value=1.1e+02 Score=25.70 Aligned_cols=34 Identities=26% Similarity=0.288 Sum_probs=24.9
Q ss_pred HHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 85 TLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 85 ~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
.+....|-.-.+||+.| |.+...|+.+...-+++
T Consensus 128 ~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 161 (173)
T PRK09645 128 VRSYYRGWSTAQIAADL-GIPEGTVKSRLHYALRA 161 (173)
T ss_pred HHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 33334456678999999 99999999988765443
No 120
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=28.66 E-value=1.2e+02 Score=26.15 Aligned_cols=36 Identities=28% Similarity=0.220 Sum_probs=26.3
Q ss_pred HHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 83 ILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 83 Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
++.+....|-...+||..| |.+...|+.+....+++
T Consensus 114 i~~l~~~~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 114 ALRLTELEGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred HHHHHHhcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3333344566799999999 99999999998764443
No 121
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=28.58 E-value=1.1e+02 Score=26.15 Aligned_cols=34 Identities=15% Similarity=0.185 Sum_probs=25.0
Q ss_pred HHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 85 TLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 85 ~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
.+....|....+||..| |-+...|+.+....+++
T Consensus 141 ~l~~~~g~s~~eIA~~l-~is~~tV~~~l~ra~~~ 174 (184)
T PRK12512 141 QSISVEGASIKETAAKL-SMSEGAVRVALHRGLAA 174 (184)
T ss_pred HHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 33334466788999999 99999999988765443
No 122
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=28.54 E-value=93 Score=25.81 Aligned_cols=45 Identities=11% Similarity=0.082 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHhC-CchhhhcccCCCCCHHHHHHHHHHHHHHHHH
Q 045400 77 MQEEETILTLHRLLG-NKWSQIAQHLPGRTDNEIKNYWHSHLKKKLA 122 (313)
Q Consensus 77 ~EED~~Ll~lv~~~G-~~W~~Ia~~l~gRT~~q~knrw~~llkk~l~ 122 (313)
.+-|.+|+++...-+ ..+..||+.+ |-+...|..|-+.+.+..+-
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI 52 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVI 52 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCce
Confidence 356888888888877 4599999999 99999999999887776543
No 123
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=28.43 E-value=37 Score=22.92 Aligned_cols=36 Identities=25% Similarity=0.350 Sum_probs=18.1
Q ss_pred ccCHHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHH
Q 045400 74 VFNMQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKN 111 (313)
Q Consensus 74 ~WT~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~kn 111 (313)
.+|.+|-..|..++ .-|..=.+||+.| ||+...|..
T Consensus 4 ~Lt~~eR~~I~~l~-~~G~s~~~IA~~l-g~s~sTV~r 39 (44)
T PF13936_consen 4 HLTPEERNQIEALL-EQGMSIREIAKRL-GRSRSTVSR 39 (44)
T ss_dssp --------HHHHHH-CS---HHHHHHHT-T--HHHHHH
T ss_pred chhhhHHHHHHHHH-HcCCCHHHHHHHH-CcCcHHHHH
Confidence 46777777766664 4577789999999 999988865
No 124
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=28.04 E-value=1.2e+02 Score=26.14 Aligned_cols=29 Identities=10% Similarity=0.085 Sum_probs=22.3
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 90 LGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 90 ~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
.|-...+||..| |-|...|+.+....+++
T Consensus 153 ~g~s~~eIA~~l-gis~~tv~~~l~Rar~~ 181 (193)
T PRK11923 153 DGLSYEDIASVM-QCPVGTVRSRIFRAREA 181 (193)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 345678999999 88999999987765443
No 125
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=27.23 E-value=1.1e+02 Score=26.00 Aligned_cols=28 Identities=14% Similarity=0.075 Sum_probs=21.5
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 90 LGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 90 ~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
.|....+||..| |.+...|+.+....++
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 355678999998 8899999988766443
No 126
>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=26.98 E-value=60 Score=25.39 Aligned_cols=27 Identities=22% Similarity=0.446 Sum_probs=21.6
Q ss_pred HHHHHHHHHHhCCchhhhcccCCCCCHH
Q 045400 80 EETILTLHRLLGNKWSQIAQHLPGRTDN 107 (313)
Q Consensus 80 D~~Ll~lv~~~G~~W~~Ia~~l~gRT~~ 107 (313)
|.+|..++...|..|.++|+.| |=+..
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L-~vs~~ 30 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL-QFSVE 30 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc-CCCHH
Confidence 5677888899999999999998 44443
No 127
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=26.96 E-value=1.4e+02 Score=26.00 Aligned_cols=29 Identities=14% Similarity=0.075 Sum_probs=22.5
Q ss_pred HhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 89 LLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 89 ~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
..|-...+||..| |-+...|+.|....++
T Consensus 155 ~eg~s~~EIA~~l-gis~~tVk~rl~ra~~ 183 (194)
T PRK12531 155 LEELPHQQVAEMF-DIPLGTVKSRLRLAVE 183 (194)
T ss_pred HcCCCHHHHHHHh-CcCHHHHHHHHHHHHH
Confidence 3456788999999 9999999988765444
No 128
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=26.75 E-value=88 Score=22.19 Aligned_cols=34 Identities=24% Similarity=0.504 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHH
Q 045400 78 QEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNY 112 (313)
Q Consensus 78 EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knr 112 (313)
++|+-.+.+..+.|-+=.+||+.+ ||+...|++.
T Consensus 7 ~~Eqaqid~m~qlG~s~~~isr~i-~RSr~~Ir~y 40 (50)
T PF11427_consen 7 DAEQAQIDVMHQLGMSLREISRRI-GRSRTCIRRY 40 (50)
T ss_dssp HHHHHHHHHHHHTT--HHHHHHHH-T--HHHHHHH
T ss_pred HHHHHHHHHHHHhchhHHHHHHHh-CccHHHHHHH
Confidence 456677788889999999999999 9999877764
No 129
>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=25.88 E-value=60 Score=25.34 Aligned_cols=30 Identities=37% Similarity=0.638 Sum_probs=23.4
Q ss_pred HHHHHHHHHhCCchhhhcccCCCCCHHHHHH
Q 045400 81 ETILTLHRLLGNKWSQIAQHLPGRTDNEIKN 111 (313)
Q Consensus 81 ~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~kn 111 (313)
+.|-.+....|..|..+|+.| |=+..+|..
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 345556677899999999999 888887765
No 130
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=25.63 E-value=1.1e+02 Score=26.77 Aligned_cols=34 Identities=12% Similarity=0.117 Sum_probs=24.6
Q ss_pred HHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 84 LTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 84 l~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
+.+....|-.+.+||+.| |-+...|+.+...-++
T Consensus 145 ~~L~~~~g~s~~eIA~~l-gis~~tV~~~l~Ra~~ 178 (196)
T PRK12524 145 VVLRHIEGLSNPEIAEVM-EIGVEAVESLTARGKR 178 (196)
T ss_pred HHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 333344566799999999 8888989888765433
No 131
>TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in a variety of species including Rhodopirellula baltica which encodes a paralogous group of five.
Probab=24.97 E-value=1.2e+02 Score=25.86 Aligned_cols=29 Identities=21% Similarity=0.321 Sum_probs=22.8
Q ss_pred HhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 89 LLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 89 ~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
..|-...+||..| |-+...|+.|...-++
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 3455789999999 9999999998876433
No 132
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=24.29 E-value=1.7e+02 Score=25.31 Aligned_cols=30 Identities=20% Similarity=0.264 Sum_probs=23.1
Q ss_pred HHhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 88 RLLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 88 ~~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
...|-.-.+||..| |-+...|+.+....++
T Consensus 149 ~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 178 (195)
T PRK12532 149 EILGFSSDEIQQMC-GISTSNYHTIMHRARE 178 (195)
T ss_pred HHhCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 34466788999999 9999999988776443
No 133
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=24.21 E-value=1.3e+02 Score=26.05 Aligned_cols=29 Identities=21% Similarity=0.201 Sum_probs=22.9
Q ss_pred HhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 89 LLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 89 ~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
..|-.-.+||..| |-+...|+.+...-++
T Consensus 144 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 172 (185)
T PRK09649 144 LLGLSYADAAAVC-GCPVGTIRSRVARARD 172 (185)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3455689999999 9999999999876444
No 134
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=24.18 E-value=1.9e+02 Score=24.01 Aligned_cols=35 Identities=29% Similarity=0.405 Sum_probs=24.8
Q ss_pred HHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 84 LTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 84 l~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
+.+....|-.-.+||..| |-+...|+.|...-+++
T Consensus 114 ~~l~~~~~~s~~eIA~~l-gis~~tv~~~l~ra~~~ 148 (159)
T PRK12527 114 FLLRKLEGLSHQQIAEHL-GISRSLVEKHIVNAMKH 148 (159)
T ss_pred HHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 333334455678999999 99999999987654443
No 135
>PF07555 NAGidase: beta-N-acetylglucosaminidase ; InterPro: IPR011496 This family consists of both eukaryotic and prokaryotic hyaluronidases. Human Q9HAR0 from SWISSPROT is expressed during meningioma []. Clostridium perfringens, P26831 from SWISSPROT, is involved in pathogenesis and is likely to act on connectivity tissue during gas gangrene []. It catalyses the random hydrolysis of 1->4-linkages between N-acetyl-beta-D-glucosamine and D-glucuronate residues in hyaluronate.; PDB: 2WB5_B 2V5C_B 2VUR_A 2V5D_A 2YDS_A 2CBI_A 2XPK_A 2CBJ_B 2J62_A 2X0Y_A ....
Probab=23.76 E-value=1.5e+02 Score=28.67 Aligned_cols=68 Identities=18% Similarity=0.213 Sum_probs=36.6
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCCccCcccCHHHHHHHHHHHHH---hCCc-h
Q 045400 19 KGLWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPGLKRGVFNMQEEETILTLHRL---LGNK-W 94 (313)
Q Consensus 19 kg~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkk~~WT~EED~~Ll~lv~~---~G~~-W 94 (313)
..+||.|+-..|++...+|+... - | -.| +...--|.+|+ .+++++|-+.|.+|+.. .|-. .
T Consensus 9 G~PWs~e~R~~l~~f~~~~kmN~-Y-i--YAP--KdDpyhr~~Wr---------e~Yp~~el~~l~~L~~~a~~~~V~Fv 73 (306)
T PF07555_consen 9 GRPWSHEDRLDLIRFLGRYKMNT-Y-I--YAP--KDDPYHRSKWR---------EPYPEEELAELKELADAAKANGVDFV 73 (306)
T ss_dssp SS---HHHHHHHHHHHHHTT--E-E-E--E----TT-TTTTTTTT---------S---HHHHHHHHHHHHHHHHTT-EEE
T ss_pred CCCCCHHHHHHHHHHHHHcCCce-E-E--ECC--CCChHHHhhhc---------ccCCHHHHHHHHHHHHHHHHcCCEEE
Confidence 45899999999999999999541 1 1 123 66655666774 46667777776666654 3333 2
Q ss_pred hhhcccC
Q 045400 95 SQIAQHL 101 (313)
Q Consensus 95 ~~Ia~~l 101 (313)
-.|+..+
T Consensus 74 ~aisPg~ 80 (306)
T PF07555_consen 74 YAISPGL 80 (306)
T ss_dssp EEEBGTT
T ss_pred EEECccc
Confidence 3555554
No 136
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=23.68 E-value=1.8e+02 Score=25.33 Aligned_cols=37 Identities=16% Similarity=0.126 Sum_probs=26.7
Q ss_pred HHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 81 ETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 81 ~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
..++.+....|-...+||+.| |-+...|+.|-..-++
T Consensus 122 r~i~~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~ 158 (187)
T PRK12516 122 REAIILVGASGFAYEEAAEIC-GCAVGTIKSRVNRARQ 158 (187)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 334444444566789999999 9999999998765443
No 137
>PRK00118 putative DNA-binding protein; Validated
Probab=23.53 E-value=1.7e+02 Score=23.89 Aligned_cols=41 Identities=12% Similarity=0.152 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 77 MQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 77 ~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
++.+..++.+....|-...+||+.+ |-|...|+.+-....+
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RArk 59 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRTEK 59 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 4566777788778888999999999 9999999887665433
No 138
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=23.48 E-value=1e+02 Score=27.62 Aligned_cols=43 Identities=23% Similarity=0.276 Sum_probs=35.0
Q ss_pred ccCHHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 74 VFNMQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 74 ~WT~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
..|+.|-+.|..+. -|..=.+||..| +.+...||.|...+++|
T Consensus 148 ~LT~RE~eVL~lla--~G~snkeIA~~L-~iS~~TVk~h~~~i~~K 190 (211)
T COG2197 148 LLTPRELEVLRLLA--EGLSNKEIAEEL-NLSEKTVKTHVSNILRK 190 (211)
T ss_pred CCCHHHHHHHHHHH--CCCCHHHHHHHH-CCCHhHHHHHHHHHHHH
Confidence 57887777665554 366668999999 99999999999999886
No 139
>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=23.28 E-value=76 Score=24.65 Aligned_cols=32 Identities=31% Similarity=0.497 Sum_probs=23.9
Q ss_pred HHHHHHHHHhCCchhhhcccCCCCCHH---HHHHHH
Q 045400 81 ETILTLHRLLGNKWSQIAQHLPGRTDN---EIKNYW 113 (313)
Q Consensus 81 ~~Ll~lv~~~G~~W~~Ia~~l~gRT~~---q~knrw 113 (313)
..|..+....|..|..+++.| |=+.. .|+.++
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L-Glse~~Id~Ie~~~ 37 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL-GLSYRELQRIKYNN 37 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc-CCCHHHHHHHHHHC
Confidence 458888999999999999998 54444 344444
No 140
>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=23.23 E-value=42 Score=29.38 Aligned_cols=32 Identities=19% Similarity=0.240 Sum_probs=24.8
Q ss_pred CCCHHHHHHHHHHHHHcCCCCCcccccccCCcCCc
Q 045400 21 LWSPEEDQRLKNYVLQHGHPCWSSVPINAGLQRNG 55 (313)
Q Consensus 21 ~WT~EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~ 55 (313)
.||.|+.++|+++..+-- .=.+||..|+ +.|.
T Consensus 2 ~Wtde~~~~L~~lw~~G~--SasqIA~~lg-~vsR 33 (162)
T PF07750_consen 2 SWTDERVERLRKLWAEGL--SASQIARQLG-GVSR 33 (162)
T ss_pred CCCHHHHHHHHHHHHcCC--CHHHHHHHhC-Ccch
Confidence 499999999999996632 2678999998 4433
No 141
>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=23.12 E-value=69 Score=24.10 Aligned_cols=29 Identities=31% Similarity=0.642 Sum_probs=20.6
Q ss_pred HHHHHHHHHH-hCCchhhhcccCCCCCHHHH
Q 045400 80 EETILTLHRL-LGNKWSQIAQHLPGRTDNEI 109 (313)
Q Consensus 80 D~~Ll~lv~~-~G~~W~~Ia~~l~gRT~~q~ 109 (313)
.+.|..++.. .|..|..+|+.| |-+..+|
T Consensus 5 ~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i 34 (88)
T smart00005 5 REKLAKLLDHPLGLDWRELARKL-GLSEADI 34 (88)
T ss_pred HHHHHHHHcCccchHHHHHHHHc-CCCHHHH
Confidence 4556666666 789999999999 4444443
No 142
>TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in a limited number of Gram-positive bacterial lineages.
Probab=23.08 E-value=1.3e+02 Score=25.08 Aligned_cols=28 Identities=21% Similarity=0.306 Sum_probs=20.8
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 90 LGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 90 ~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
.|-...+||+.| |.+...|+.+-...++
T Consensus 137 ~g~s~~eIA~~l-~is~~tv~~~l~ra~~ 164 (170)
T TIGR02952 137 QNLPIAEVARIL-GKTEGAVKILQFRAIK 164 (170)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 355678899998 8888888887765433
No 143
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=23.02 E-value=1.4e+02 Score=24.59 Aligned_cols=28 Identities=18% Similarity=0.271 Sum_probs=20.4
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 90 LGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 90 ~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
.|....+||..| |.+...|+.+-...++
T Consensus 121 ~~~s~~EIA~~l-~is~~tV~~~~~ra~~ 148 (154)
T PRK06759 121 VGKTMGEIALET-EMTYYQVRWIYRQALE 148 (154)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 345678888888 8888888887665433
No 144
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=22.89 E-value=1.4e+02 Score=24.89 Aligned_cols=31 Identities=26% Similarity=0.392 Sum_probs=23.2
Q ss_pred HHHHhCCchhhhcccCCCCCHHHHHHHHHHHH
Q 045400 86 LHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHL 117 (313)
Q Consensus 86 lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~ll 117 (313)
+..-.|-...+||..+ |-+...|+.|...-+
T Consensus 124 L~~~~g~s~~EIA~~l-~is~~tV~~~l~ra~ 154 (161)
T PRK12528 124 LAQVDGLGYGEIATEL-GISLATVKRYLNKAA 154 (161)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3334456788999999 899999998876543
No 145
>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=22.60 E-value=47 Score=27.37 Aligned_cols=27 Identities=19% Similarity=0.174 Sum_probs=21.7
Q ss_pred CCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 91 GNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 91 G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
|-.+.+||..| |-+...|+.++....+
T Consensus 121 g~s~~eIA~~l-gis~~tv~~~l~Ra~~ 147 (154)
T TIGR02950 121 EFSYKEIAELL-NLSLAKVKSNLFRARK 147 (154)
T ss_pred cCcHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 44689999999 8899999998876544
No 146
>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=22.40 E-value=1.6e+02 Score=25.56 Aligned_cols=46 Identities=17% Similarity=0.169 Sum_probs=37.8
Q ss_pred cCcccCHHHHHHHHHHHHHhCCchhhhcccCC----CCCHHHHHHHHHHH
Q 045400 71 KRGVFNMQEEETILTLHRLLGNKWSQIAQHLP----GRTDNEIKNYWHSH 116 (313)
Q Consensus 71 kk~~WT~EED~~Ll~lv~~~G~~W~~Ia~~l~----gRT~~q~knrw~~l 116 (313)
....-|+.|.+-|..|+.+||..+..+++... -.|+.||+.+...+
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 34468999999999999999999999997542 47999999887654
No 147
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=22.25 E-value=1.3e+02 Score=25.47 Aligned_cols=28 Identities=14% Similarity=0.258 Sum_probs=22.0
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 90 LGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 90 ~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
.|-.-.+||+.| |.|...|+.+....++
T Consensus 144 ~g~s~~eIA~~l-gis~~tV~~~l~Rar~ 171 (179)
T PRK12514 144 EGLSYKELAERH-DVPLNTMRTWLRRSLL 171 (179)
T ss_pred cCCCHHHHHHHH-CCChHHHHHHHHHHHH
Confidence 355678999999 9999999998766443
No 148
>COG4628 Uncharacterized conserved protein [Function unknown]
Probab=22.13 E-value=63 Score=27.03 Aligned_cols=45 Identities=18% Similarity=0.355 Sum_probs=31.2
Q ss_pred HHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCC-------ccCcccCHHHHHHHH
Q 045400 27 DQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPG-------LKRGVFNMQEEETIL 84 (313)
Q Consensus 27 D~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~-------lkk~~WT~EED~~Ll 84 (313)
+.+|.++|..|| |..++..++ ..|.. -+|. +.+.||..|..+.|.
T Consensus 21 E~llt~Lvd~YG---Wd~L~~ri~-----inCF~-----ndPSi~SSlKfLrkT~WARekvEa~Y 72 (136)
T COG4628 21 ETLLTELVDFYG---WDGLATRIR-----INCFH-----NDPSIKSSLKFLRKTPWAREKVEALY 72 (136)
T ss_pred HHHHHHHHHHhC---hHHHHhhce-----ecccc-----CCccHHHHHHHHhcCHhHHHHHHHHH
Confidence 578899999999 999886554 44443 1333 357789888766653
No 149
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=22.11 E-value=2.3e+02 Score=24.34 Aligned_cols=30 Identities=17% Similarity=-0.002 Sum_probs=23.1
Q ss_pred HhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 89 LLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 89 ~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
..|..-.+||..| |-+...|+.|....+++
T Consensus 145 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 174 (191)
T PRK12520 145 WLELETEEICQEL-QITATNAWVLLYRARMR 174 (191)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3455678999999 99999999997765443
No 150
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=21.66 E-value=1.9e+02 Score=24.80 Aligned_cols=29 Identities=7% Similarity=0.019 Sum_probs=21.4
Q ss_pred HhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 89 LLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 89 ~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
-.|....+||+.| |-+...|+.+....++
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 3455678888888 8888888888765443
No 151
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=21.65 E-value=1.4e+02 Score=25.55 Aligned_cols=30 Identities=13% Similarity=0.318 Sum_probs=23.2
Q ss_pred HHhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 88 RLLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 88 ~~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
...|-+-.+||..| |-+...|+.+....++
T Consensus 135 ~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 164 (185)
T PRK12542 135 VFYNLTYQEISSVM-GITEANVRKQFERARK 164 (185)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 33456789999999 9999999998765444
No 152
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=21.51 E-value=1.5e+02 Score=24.87 Aligned_cols=34 Identities=18% Similarity=0.097 Sum_probs=24.5
Q ss_pred HHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 84 LTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 84 l~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
+.+....|-...+||..| |.+...|+.+-...++
T Consensus 121 ~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~Rar~ 154 (164)
T PRK12547 121 IILIGASGFSYEDAAAIC-GCAVGTIKSRVSRARN 154 (164)
T ss_pred HHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 333334456788999999 8899999988766444
No 153
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=21.50 E-value=1.7e+02 Score=30.20 Aligned_cols=44 Identities=18% Similarity=0.274 Sum_probs=38.4
Q ss_pred CcccCHHHHHHHHHHHHHhCCchhhhccc-CCCCCHHHHHHHHHH
Q 045400 72 RGVFNMQEEETILTLHRLLGNKWSQIAQH-LPGRTDNEIKNYWHS 115 (313)
Q Consensus 72 k~~WT~EED~~Ll~lv~~~G~~W~~Ia~~-l~gRT~~q~knrw~~ 115 (313)
..+|+.-|-.++-++..+||+.+..|... ||=++-..|-..|.-
T Consensus 285 mEEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYYm 329 (693)
T KOG3554|consen 285 MEEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYYM 329 (693)
T ss_pred hhhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHHH
Confidence 45899999999999999999999999865 588999988887754
No 154
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=21.33 E-value=1.4e+02 Score=25.37 Aligned_cols=29 Identities=28% Similarity=0.409 Sum_probs=23.2
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 90 LGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 90 ~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
.|.+..+||+.| |-+...|+.+...-++.
T Consensus 134 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 162 (172)
T PRK09651 134 DGLTYSEIAHKL-GVSVSSVKKYVAKATEH 162 (172)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 355689999999 99999999988765544
No 155
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=20.95 E-value=1.9e+02 Score=24.73 Aligned_cols=33 Identities=27% Similarity=0.250 Sum_probs=24.9
Q ss_pred HHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHH
Q 045400 85 TLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLK 118 (313)
Q Consensus 85 ~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llk 118 (313)
.++...|-+..+||+.| |.+...|+.+-...++
T Consensus 139 ~l~~~~g~s~~EIA~~l-~is~~tV~~~l~rar~ 171 (181)
T PRK12536 139 VHVKLEGLSVAETAQLT-GLSESAVKVGIHRGLK 171 (181)
T ss_pred HHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 33344566789999999 9999999998766433
No 156
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=20.93 E-value=1.5e+02 Score=24.66 Aligned_cols=40 Identities=18% Similarity=0.235 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 79 EEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 79 ED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
++..++.+....|-.-.+||..| |-+...|+.+....+++
T Consensus 114 ~~r~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~ 153 (162)
T TIGR02983 114 RQRAVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALAR 153 (162)
T ss_pred HHHHHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 33444444444556678999998 88999999988765443
No 157
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=20.87 E-value=1.3e+02 Score=27.08 Aligned_cols=44 Identities=27% Similarity=0.340 Sum_probs=34.3
Q ss_pred ccCHHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHHH
Q 045400 74 VFNMQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKKK 120 (313)
Q Consensus 74 ~WT~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk~ 120 (313)
..|+.|-+. +.++.+ |....+||+.| +-+...|+.+...+++|-
T Consensus 155 ~Lt~rE~~V-l~l~~~-G~s~~eIA~~L-~iS~~TVk~~~~~i~~Kl 198 (216)
T PRK10100 155 LLTHREKEI-LNKLRI-GASNNEIARSL-FISENTVKTHLYNLFKKI 198 (216)
T ss_pred CCCHHHHHH-HHHHHc-CCCHHHHHHHh-CCCHHHHHHHHHHHHHHh
Confidence 467655555 445444 88899999999 999999999998887763
No 158
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=20.56 E-value=1.9e+02 Score=24.59 Aligned_cols=28 Identities=25% Similarity=0.248 Sum_probs=21.5
Q ss_pred CCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 91 GNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 91 G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
|.+-.+||..| |-|...|+.+.+..+++
T Consensus 151 ~~s~~eIA~~l-gis~~~V~~~l~ra~~~ 178 (186)
T PRK13919 151 GYTHREAAQLL-GLPLGTLKTRARRALSR 178 (186)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 44568999999 88999999887764443
No 159
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=20.52 E-value=50 Score=25.91 Aligned_cols=43 Identities=12% Similarity=0.140 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHcCCCCCcccccccCCcCCccccchhhhhccCCC
Q 045400 25 EEDQRLKNYVLQHGHPCWSSVPINAGLQRNGKSCRLRWINYLRPG 69 (313)
Q Consensus 25 EED~~L~~~V~kyg~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~ 69 (313)
+.|.++..++...+...+..||+.++ -+...|+.|......-+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l~--~s~~tv~~~l~~L~~~g 45 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKVG--LSPSTVHNRVKRLEEEG 45 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCC
Confidence 57889999999988788999999887 78888888877765544
No 160
>TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are apparently found only in the Planctomycetaceae family including the genuses Gemmata and Pirellula (in which seven sequences are found).
Probab=20.36 E-value=1.8e+02 Score=24.60 Aligned_cols=34 Identities=21% Similarity=0.521 Sum_probs=24.3
Q ss_pred HHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 85 TLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 85 ~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
.+....|....+||..| |-|...|+.+....+++
T Consensus 150 ~l~~~~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~ 183 (189)
T TIGR02984 150 LLRHLEGLSFAEVAERM-DRSEGAVSMLWVRGLAR 183 (189)
T ss_pred HHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 33334456788999998 89999998887765443
No 161
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=20.14 E-value=2.3e+02 Score=25.11 Aligned_cols=29 Identities=21% Similarity=0.302 Sum_probs=22.4
Q ss_pred hCCchhhhcccCCCCCHHHHHHHHHHHHHH
Q 045400 90 LGNKWSQIAQHLPGRTDNEIKNYWHSHLKK 119 (313)
Q Consensus 90 ~G~~W~~Ia~~l~gRT~~q~knrw~~llkk 119 (313)
.|..-.+||+.| |-+...|+.+....+++
T Consensus 153 ~g~s~~EIA~~L-gis~~tV~~~l~RArk~ 181 (203)
T PRK09647 153 EGLSYEEIAATL-GVKLGTVRSRIHRGRQQ 181 (203)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 345568899999 99999999988775443
No 162
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=20.10 E-value=1.5e+02 Score=26.42 Aligned_cols=44 Identities=11% Similarity=0.077 Sum_probs=34.8
Q ss_pred ccCHHHHHHHHHHHHHhCCchhhhcccCCCCCHHHHHHHHHHHHHHH
Q 045400 74 VFNMQEEETILTLHRLLGNKWSQIAQHLPGRTDNEIKNYWHSHLKKK 120 (313)
Q Consensus 74 ~WT~EED~~Ll~lv~~~G~~W~~Ia~~l~gRT~~q~knrw~~llkk~ 120 (313)
..|+-|-+.|..++ -|....+||+.| +-+...|+.|-..+++|-
T Consensus 137 ~LT~RE~eVL~lla--~G~snkeIA~~L-~iS~~TVk~h~~~I~~KL 180 (207)
T PRK15411 137 SLSRTESSMLRMWM--AGQGTIQISDQM-NIKAKTVSSHKGNIKRKI 180 (207)
T ss_pred cCCHHHHHHHHHHH--cCCCHHHHHHHc-CCCHHHHHHHHHHHHHHh
Confidence 47888776655544 377789999999 999999999988877763
Done!