Query 023677
Match_columns 279
No_of_seqs 265 out of 1371
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 05:49:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023677.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023677hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03212 Transcription repress 100.0 4.4E-31 9.5E-36 238.5 13.4 115 20-141 18-133 (249)
2 KOG0048 Transcription factor, 100.0 3.8E-31 8.2E-36 240.0 10.1 108 25-139 7-115 (238)
3 PLN03091 hypothetical protein; 100.0 7.6E-29 1.7E-33 238.5 13.0 114 20-140 7-121 (459)
4 KOG0049 Transcription factor, 99.8 2E-20 4.3E-25 186.1 6.9 129 3-137 282-412 (939)
5 KOG0049 Transcription factor, 99.8 1.6E-18 3.5E-23 172.6 9.7 121 9-136 342-463 (939)
6 COG5147 REB1 Myb superfamily p 99.5 7.6E-14 1.7E-18 138.4 7.2 108 22-136 15-122 (512)
7 KOG0050 mRNA splicing protein 99.5 7.1E-14 1.5E-18 136.9 5.9 109 24-140 4-112 (617)
8 PF00249 Myb_DNA-binding: Myb- 99.4 1.8E-13 3.8E-18 94.8 5.0 46 86-131 1-48 (48)
9 PF13921 Myb_DNA-bind_6: Myb-l 99.4 2.6E-13 5.6E-18 97.7 6.0 56 39-97 5-60 (60)
10 PLN03212 Transcription repress 99.3 4.9E-13 1.1E-17 121.5 1.2 73 3-83 54-126 (249)
11 smart00717 SANT SANT SWI3, AD 99.3 9.5E-12 2.1E-16 83.7 5.7 47 86-132 1-48 (49)
12 PF13921 Myb_DNA-bind_6: Myb-l 99.3 4.4E-12 9.6E-17 91.2 3.8 45 89-133 1-45 (60)
13 PLN03091 hypothetical protein; 99.2 3.3E-12 7.2E-17 124.0 1.9 72 3-82 43-114 (459)
14 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 1E-10 2.2E-15 77.6 5.7 44 88-131 1-45 (45)
15 KOG0051 RNA polymerase I termi 99.1 2.7E-10 5.8E-15 114.6 8.5 101 26-135 383-511 (607)
16 KOG0048 Transcription factor, 99.0 1.9E-10 4.1E-15 104.6 3.5 57 82-138 5-63 (238)
17 PF00249 Myb_DNA-binding: Myb- 98.8 3.6E-09 7.8E-14 73.2 3.1 47 27-80 1-48 (48)
18 smart00717 SANT SANT SWI3, AD 98.3 8.2E-07 1.8E-11 59.3 4.0 47 28-81 2-48 (49)
19 KOG0051 RNA polymerase I termi 98.2 1.9E-06 4E-11 87.3 6.7 78 57-135 354-432 (607)
20 COG5147 REB1 Myb superfamily p 98.2 7E-07 1.5E-11 89.3 2.8 117 7-132 52-168 (512)
21 cd00167 SANT 'SWI3, ADA2, N-Co 98.1 3.8E-06 8.3E-11 55.3 3.6 44 30-80 2-45 (45)
22 KOG0457 Histone acetyltransfer 97.5 0.00017 3.7E-09 70.6 5.9 51 83-133 69-120 (438)
23 KOG0050 mRNA splicing protein 97.5 1.4E-05 3E-10 79.5 -2.1 65 8-81 40-104 (617)
24 TIGR01557 myb_SHAQKYF myb-like 97.4 0.00052 1.1E-08 49.6 5.9 46 86-131 3-54 (57)
25 TIGR02894 DNA_bind_RsfA transc 97.2 0.00052 1.1E-08 59.3 5.1 50 85-135 3-59 (161)
26 PF13837 Myb_DNA-bind_4: Myb/S 97.2 0.0005 1.1E-08 52.5 4.0 54 86-139 1-72 (90)
27 PF08914 Myb_DNA-bind_2: Rap1 96.8 0.0022 4.8E-08 47.6 4.5 50 86-135 2-61 (65)
28 KOG1279 Chromatin remodeling f 96.6 0.0027 5.8E-08 64.0 5.2 50 85-134 252-301 (506)
29 COG5259 RSC8 RSC chromatin rem 96.6 0.0026 5.6E-08 63.1 4.7 47 85-131 278-324 (531)
30 PRK13923 putative spore coat p 96.4 0.0048 1E-07 53.9 4.7 49 85-134 4-59 (170)
31 PF13873 Myb_DNA-bind_5: Myb/S 96.1 0.018 3.9E-07 43.1 5.9 50 86-135 2-73 (78)
32 COG5114 Histone acetyltransfer 94.8 0.038 8.1E-07 52.8 4.5 48 85-132 62-110 (432)
33 PF09111 SLIDE: SLIDE; InterP 94.8 0.053 1.1E-06 44.8 4.8 53 83-135 46-114 (118)
34 KOG2656 DNA methyltransferase 93.9 0.086 1.9E-06 51.5 4.8 65 73-141 121-191 (445)
35 KOG0457 Histone acetyltransfer 92.9 0.2 4.3E-06 49.6 5.7 53 22-81 67-119 (438)
36 KOG4282 Transcription factor G 92.8 0.32 6.9E-06 46.4 6.9 57 86-142 54-124 (345)
37 PF12776 Myb_DNA-bind_3: Myb/S 92.6 0.33 7.1E-06 37.3 5.5 47 88-134 1-65 (96)
38 PF13837 Myb_DNA-bind_4: Myb/S 91.8 0.096 2.1E-06 39.7 1.7 24 56-79 36-63 (90)
39 COG5259 RSC8 RSC chromatin rem 91.3 0.27 5.9E-06 49.1 4.5 45 33-78 278-322 (531)
40 TIGR01557 myb_SHAQKYF myb-like 91.2 0.3 6.6E-06 35.2 3.6 47 27-80 3-54 (57)
41 PF13325 MCRS_N: N-terminal re 90.7 3.5 7.5E-05 37.1 10.6 68 67-134 33-129 (199)
42 PLN03142 Probable chromatin-re 89.5 5.1 0.00011 44.2 12.7 54 83-136 923-989 (1033)
43 COG5118 BDP1 Transcription ini 89.1 0.63 1.4E-05 45.6 4.9 47 88-134 367-413 (507)
44 TIGR02894 DNA_bind_RsfA transc 88.5 0.36 7.7E-06 42.0 2.6 50 26-81 3-56 (161)
45 PF08281 Sigma70_r4_2: Sigma-7 88.2 1.3 2.9E-05 30.4 4.9 41 91-132 12-52 (54)
46 KOG1194 Predicted DNA-binding 86.5 1.7 3.7E-05 43.5 6.2 49 85-133 186-234 (534)
47 PF08914 Myb_DNA-bind_2: Rap1 85.7 0.39 8.4E-06 35.6 1.1 55 27-85 2-62 (65)
48 KOG1279 Chromatin remodeling f 84.9 1.4 3.1E-05 44.7 5.0 43 35-78 254-296 (506)
49 PF11035 SnAPC_2_like: Small n 79.1 49 0.0011 32.0 12.6 89 28-133 22-128 (344)
50 PRK13923 putative spore coat p 77.5 1.8 3.9E-05 38.0 2.4 53 25-81 3-57 (170)
51 PF04545 Sigma70_r4: Sigma-70, 76.1 8.1 0.00018 26.1 5.0 42 92-134 7-48 (50)
52 COG5114 Histone acetyltransfer 71.9 5.3 0.00012 38.6 4.2 39 43-81 72-110 (432)
53 KOG4167 Predicted DNA-binding 70.7 18 0.00039 38.5 8.0 42 87-128 620-661 (907)
54 KOG4282 Transcription factor G 70.4 5.7 0.00012 37.9 4.1 28 54-81 83-114 (345)
55 PF13404 HTH_AsnC-type: AsnC-t 69.8 9.9 0.00021 25.5 4.1 38 92-130 3-41 (42)
56 KOG4468 Polycomb-group transcr 69.5 8.2 0.00018 40.1 5.1 49 86-134 88-146 (782)
57 PF13325 MCRS_N: N-terminal re 68.0 11 0.00023 34.0 5.1 46 88-134 1-49 (199)
58 smart00595 MADF subfamily of S 65.0 9.6 0.00021 28.6 3.7 30 107-137 29-58 (89)
59 PRK11179 DNA-binding transcrip 64.9 14 0.0003 31.1 5.0 43 92-135 9-52 (153)
60 TIGR02985 Sig70_bacteroi1 RNA 64.1 17 0.00037 29.3 5.3 41 93-134 117-157 (161)
61 PF11035 SnAPC_2_like: Small n 62.8 28 0.00062 33.6 7.1 46 87-132 22-71 (344)
62 smart00595 MADF subfamily of S 61.1 9.2 0.0002 28.8 3.0 23 56-79 29-51 (89)
63 cd08319 Death_RAIDD Death doma 57.8 15 0.00033 28.4 3.6 29 94-123 2-30 (83)
64 KOG2009 Transcription initiati 55.8 13 0.00028 38.6 3.7 47 84-130 407-453 (584)
65 PF01388 ARID: ARID/BRIGHT DNA 55.7 28 0.00061 26.4 4.9 39 95-133 39-90 (92)
66 PF10545 MADF_DNA_bdg: Alcohol 54.8 17 0.00036 26.5 3.4 34 107-140 28-62 (85)
67 PF13873 Myb_DNA-bind_5: Myb/S 54.7 13 0.00027 27.5 2.7 26 55-80 39-69 (78)
68 PF11626 Rap1_C: TRF2-interact 53.3 6.6 0.00014 30.3 1.0 17 82-98 43-59 (87)
69 PRK11169 leucine-responsive tr 51.9 25 0.00054 29.9 4.4 44 91-135 13-57 (164)
70 PF12776 Myb_DNA-bind_3: Myb/S 51.1 22 0.00048 26.9 3.6 45 30-78 2-60 (96)
71 smart00501 BRIGHT BRIGHT, ARID 50.8 35 0.00075 26.2 4.7 40 95-134 35-87 (93)
72 PF07750 GcrA: GcrA cell cycle 48.9 20 0.00043 31.1 3.4 40 88-128 2-41 (162)
73 PF01388 ARID: ARID/BRIGHT DNA 47.1 27 0.00058 26.6 3.5 41 42-82 38-90 (92)
74 KOG4329 DNA-binding protein [G 47.0 32 0.00069 33.9 4.7 42 88-129 279-321 (445)
75 TIGR02937 sigma70-ECF RNA poly 46.9 44 0.00096 26.0 4.9 39 94-133 115-153 (158)
76 cd08803 Death_ank3 Death domai 46.6 31 0.00068 26.6 3.8 31 94-125 4-34 (84)
77 PRK09652 RNA polymerase sigma 45.9 47 0.001 27.3 5.2 39 95-134 134-172 (182)
78 smart00501 BRIGHT BRIGHT, ARID 44.3 42 0.00091 25.8 4.2 41 42-82 34-86 (93)
79 cd08317 Death_ank Death domain 43.9 27 0.00059 26.5 3.1 30 94-124 4-33 (84)
80 PRK09643 RNA polymerase sigma 41.8 59 0.0013 27.9 5.3 39 94-133 139-177 (192)
81 PRK09641 RNA polymerase sigma 40.3 63 0.0014 27.1 5.1 38 95-133 142-179 (187)
82 PRK11924 RNA polymerase sigma 39.8 65 0.0014 26.4 5.1 34 100-134 136-169 (179)
83 PRK09047 RNA polymerase factor 39.7 77 0.0017 25.8 5.5 37 97-134 114-150 (161)
84 PRK04217 hypothetical protein; 39.3 1.3E+02 0.0029 24.4 6.6 45 88-134 42-86 (110)
85 cd08318 Death_NMPP84 Death dom 39.3 43 0.00094 25.7 3.6 27 97-124 10-36 (86)
86 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 38.7 54 0.0012 23.1 3.6 35 92-127 7-41 (50)
87 smart00344 HTH_ASNC helix_turn 38.2 75 0.0016 24.5 4.9 42 92-134 3-45 (108)
88 cd08804 Death_ank2 Death domai 37.9 45 0.00098 25.5 3.5 31 94-125 4-34 (84)
89 cd08777 Death_RIP1 Death Domai 37.7 43 0.00093 25.9 3.4 30 95-125 3-32 (86)
90 PRK10100 DNA-binding transcrip 37.6 1.6E+02 0.0034 26.2 7.5 44 88-134 155-198 (216)
91 PRK12512 RNA polymerase sigma 36.8 96 0.0021 26.1 5.7 39 95-134 137-175 (184)
92 PF13404 HTH_AsnC-type: AsnC-t 36.4 97 0.0021 20.6 4.5 33 45-78 8-40 (42)
93 PRK09645 RNA polymerase sigma 36.0 87 0.0019 26.0 5.3 37 97-134 126-162 (173)
94 TIGR02939 RpoE_Sigma70 RNA pol 35.3 65 0.0014 27.0 4.5 31 103-134 152-182 (190)
95 PRK01905 DNA-binding protein F 34.8 1.3E+02 0.0028 22.5 5.5 58 68-126 5-70 (77)
96 PF07638 Sigma70_ECF: ECF sigm 34.4 91 0.002 26.8 5.3 39 93-132 139-177 (185)
97 PRK12531 RNA polymerase sigma 34.3 95 0.0021 26.5 5.4 37 97-134 149-185 (194)
98 TIGR02954 Sig70_famx3 RNA poly 34.1 91 0.002 25.8 5.1 37 97-134 127-163 (169)
99 cd06171 Sigma70_r4 Sigma70, re 34.1 1E+02 0.0022 19.4 4.4 39 89-129 11-49 (55)
100 PF04504 DUF573: Protein of un 34.1 92 0.002 24.6 4.8 50 87-136 5-67 (98)
101 TIGR02943 Sig70_famx1 RNA poly 33.9 96 0.0021 26.5 5.3 38 96-134 138-175 (188)
102 PRK09642 RNA polymerase sigma 33.8 1E+02 0.0023 25.1 5.4 38 95-133 112-149 (160)
103 PRK12523 RNA polymerase sigma 33.6 83 0.0018 26.3 4.8 40 94-134 124-163 (172)
104 TIGR02948 SigW_bacill RNA poly 33.4 86 0.0019 26.2 4.9 29 104-133 151-179 (187)
105 PRK12529 RNA polymerase sigma 33.3 1E+02 0.0022 26.0 5.3 38 98-136 136-173 (178)
106 PRK12527 RNA polymerase sigma 33.1 1.3E+02 0.0029 24.5 5.9 40 94-134 110-149 (159)
107 PF09420 Nop16: Ribosome bioge 32.5 98 0.0021 26.5 5.1 46 85-130 113-162 (164)
108 PRK09648 RNA polymerase sigma 32.5 1.1E+02 0.0023 25.9 5.4 37 97-134 147-183 (189)
109 COG2197 CitB Response regulato 32.2 79 0.0017 28.0 4.6 44 88-134 148-191 (211)
110 PRK09637 RNA polymerase sigma 32.0 1E+02 0.0022 26.3 5.1 39 94-133 111-149 (181)
111 PRK12530 RNA polymerase sigma 31.6 1E+02 0.0023 26.3 5.2 36 97-133 142-177 (189)
112 PRK12514 RNA polymerase sigma 31.2 1.1E+02 0.0023 25.6 5.1 30 103-133 143-172 (179)
113 KOG3841 TEF-1 and related tran 30.0 3.4E+02 0.0074 27.1 8.7 56 84-139 74-150 (455)
114 PRK11923 algU RNA polymerase s 29.6 1.1E+02 0.0024 25.9 5.0 31 103-134 152-182 (193)
115 TIGR02952 Sig70_famx2 RNA poly 29.5 1.3E+02 0.0027 24.7 5.2 29 104-133 137-165 (170)
116 COG2963 Transposase and inacti 28.9 1.5E+02 0.0033 23.3 5.4 47 86-133 5-51 (116)
117 cd08805 Death_ank1 Death domai 28.8 72 0.0016 24.7 3.3 22 94-115 4-25 (84)
118 PRK06759 RNA polymerase factor 28.6 1.2E+02 0.0027 24.4 4.9 29 104-133 121-149 (154)
119 smart00005 DEATH DEATH domain, 28.5 73 0.0016 23.6 3.2 29 94-123 5-34 (88)
120 PRK11179 DNA-binding transcrip 28.4 1E+02 0.0023 25.7 4.5 43 43-86 12-54 (153)
121 PRK12515 RNA polymerase sigma 28.2 1.4E+02 0.003 25.3 5.4 34 100-134 142-175 (189)
122 PRK12536 RNA polymerase sigma 27.8 1.4E+02 0.0031 25.1 5.3 37 97-134 137-173 (181)
123 cd08779 Death_PIDD Death Domai 27.8 76 0.0016 24.4 3.3 32 95-127 3-37 (86)
124 PRK09649 RNA polymerase sigma 27.6 1.2E+02 0.0027 25.7 4.9 32 102-134 143-174 (185)
125 TIGR02983 SigE-fam_strep RNA p 27.6 1.4E+02 0.003 24.3 5.1 41 93-134 114-154 (162)
126 PRK09651 RNA polymerase sigma 27.5 1.2E+02 0.0026 25.4 4.8 38 96-134 126-163 (172)
127 PRK11169 leucine-responsive tr 27.5 1.2E+02 0.0026 25.7 4.8 43 43-86 17-59 (164)
128 PRK12516 RNA polymerase sigma 27.4 1.8E+02 0.004 24.8 6.0 40 94-134 121-160 (187)
129 PRK13919 putative RNA polymera 27.4 1.5E+02 0.0032 24.9 5.3 30 104-134 150-179 (186)
130 PRK12532 RNA polymerase sigma 26.7 1.4E+02 0.0031 25.4 5.2 36 97-133 144-179 (195)
131 PRK12528 RNA polymerase sigma 26.6 1.3E+02 0.0029 24.6 4.8 38 95-133 119-156 (161)
132 PRK12545 RNA polymerase sigma 26.5 1.5E+02 0.0032 25.6 5.3 30 103-133 153-182 (201)
133 TIGR02999 Sig-70_X6 RNA polyme 26.2 1.6E+02 0.0036 24.5 5.4 34 99-133 144-177 (183)
134 PRK05602 RNA polymerase sigma 26.1 1.4E+02 0.0031 25.1 5.1 36 98-134 137-172 (186)
135 PRK12547 RNA polymerase sigma 25.8 1.7E+02 0.0037 24.1 5.4 36 97-133 120-155 (164)
136 PRK06811 RNA polymerase factor 25.7 1.5E+02 0.0033 25.2 5.1 30 103-133 145-174 (189)
137 PRK09636 RNA polymerase sigma 25.5 1.5E+02 0.0033 27.2 5.5 32 102-134 128-159 (293)
138 PRK00118 putative DNA-binding 25.5 1.8E+02 0.0038 23.4 5.1 42 91-133 19-60 (104)
139 TIGR02960 SigX5 RNA polymerase 25.2 1.3E+02 0.0029 27.7 5.0 32 102-134 155-186 (324)
140 PF01466 Skp1: Skp1 family, di 25.2 1.6E+02 0.0034 22.0 4.5 35 57-98 36-70 (78)
141 PRK12520 RNA polymerase sigma 25.0 1.6E+02 0.0036 24.9 5.2 31 103-134 145-175 (191)
142 PRK12524 RNA polymerase sigma 24.6 1.7E+02 0.0037 25.0 5.3 37 97-134 144-180 (196)
143 PRK12542 RNA polymerase sigma 24.6 1.7E+02 0.0036 24.7 5.2 35 98-133 131-165 (185)
144 KOG4167 Predicted DNA-binding 24.4 3E+02 0.0066 29.8 7.7 25 53-77 637-661 (907)
145 cd08311 Death_p75NR Death doma 24.3 82 0.0018 23.9 2.8 33 91-125 2-34 (77)
146 TIGR02984 Sig-70_plancto1 RNA 24.2 1.7E+02 0.0037 24.3 5.1 38 95-133 146-183 (189)
147 PRK09646 RNA polymerase sigma 23.7 2E+02 0.0043 24.5 5.5 30 103-133 156-185 (194)
148 COG1522 Lrp Transcriptional re 23.1 1.6E+02 0.0034 24.0 4.6 44 92-136 8-52 (154)
149 KOG3554 Histone deacetylase co 22.8 1.9E+02 0.0041 29.7 5.7 76 43-128 252-328 (693)
150 PRK12537 RNA polymerase sigma 22.6 1.9E+02 0.004 24.4 5.1 35 99-134 143-177 (182)
151 PRK15411 rcsA colanic acid cap 22.6 1.6E+02 0.0034 25.8 4.8 44 88-134 137-180 (207)
152 PRK12526 RNA polymerase sigma 22.6 2E+02 0.0043 24.9 5.3 30 104-134 168-197 (206)
153 PRK12546 RNA polymerase sigma 22.6 1.8E+02 0.0038 25.1 5.0 39 95-134 119-157 (188)
154 PF13936 HTH_38: Helix-turn-he 22.4 95 0.0021 20.6 2.6 36 88-125 4-39 (44)
155 PRK09639 RNA polymerase sigma 22.1 2E+02 0.0043 23.5 5.1 37 95-133 118-154 (166)
156 TIGR02950 SigM_subfam RNA poly 21.8 72 0.0016 25.8 2.3 28 105-133 121-148 (154)
157 cd08306 Death_FADD Fas-associa 21.4 1.4E+02 0.0029 22.9 3.6 28 96-124 4-31 (86)
158 TIGR02957 SigX4 RNA polymerase 21.0 2.2E+02 0.0047 26.2 5.5 34 100-134 119-152 (281)
159 PRK11922 RNA polymerase sigma 20.7 1.2E+02 0.0025 27.0 3.5 30 105-135 165-194 (231)
160 PF13384 HTH_23: Homeodomain-l 20.6 1.1E+02 0.0023 20.2 2.6 33 91-125 4-36 (50)
161 PRK06986 fliA flagellar biosyn 20.6 2E+02 0.0043 25.5 5.0 39 95-134 190-228 (236)
162 PRK12519 RNA polymerase sigma 20.4 1.8E+02 0.004 24.5 4.6 31 102-133 154-184 (194)
163 PRK12544 RNA polymerase sigma 20.2 2.4E+02 0.0052 24.6 5.4 30 104-134 163-192 (206)
No 1
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.97 E-value=4.4e-31 Score=238.45 Aligned_cols=115 Identities=42% Similarity=0.683 Sum_probs=101.8
Q ss_pred cccccccccccccCcccchHHHHHHHHHhhhhcCCcCHHHHHHHc-CCCCHHHHHHHHHHhcCCCCCCCCCCHHHHHHHH
Q 023677 20 ALGFYCESFRFEGGGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVG-LNRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVL 98 (279)
Q Consensus 20 ~l~~~l~k~~wt~~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~-~~Rt~~QCr~RW~n~L~P~l~kg~WT~eED~~Ll 98 (279)
...+.+++++|+.+||+. |+.+++.+ |..+|.+||..+ ++|+++|||+||.|||+|+|++++||.|||++|+
T Consensus 18 c~K~glKRg~WT~EEDe~-----L~~lV~ky--G~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLl 90 (249)
T PLN03212 18 CTKMGMKRGPWTVEEDEI-----LVSFIKKE--GEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLIL 90 (249)
T ss_pred cccCCCcCCCCCHHHHHH-----HHHHHHHh--CcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHH
Confidence 367889999999988774 55555543 456999999987 6999999999999999999999999999999999
Q ss_pred HHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHHHHhhhhc
Q 023677 99 ELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKKAQERKRA 141 (279)
Q Consensus 99 ~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~~~~~~~~ 141 (279)
++|.+||++|+.||++|||||+++|||||+.+++++.......
T Consensus 91 el~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~ 133 (249)
T PLN03212 91 RLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGID 133 (249)
T ss_pred HHHHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCC
Confidence 9999999999999999999999999999999999987665443
No 2
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.97 E-value=3.8e-31 Score=240.02 Aligned_cols=108 Identities=44% Similarity=0.666 Sum_probs=99.1
Q ss_pred ccccccccCcccchHHHHHHHHHhhhhcCCcCHHHHHHHcC-CCCHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHH
Q 023677 25 CESFRFEGGGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVGL-NRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAK 103 (279)
Q Consensus 25 l~k~~wt~~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~~-~Rt~~QCr~RW~n~L~P~l~kg~WT~eED~~Ll~lv~~ 103 (279)
+.+|+|+.|||. +|..|+..++.+ +|..||+.++ +|+++|||+||.|||+|+|+||.||+|||.+|++||..
T Consensus 7 ~~kGpWt~EED~-----~L~~~V~~~G~~--~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~ 79 (238)
T KOG0048|consen 7 LVKGPWTQEEDL-----TQIRSIKSFGKH--NGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHAL 79 (238)
T ss_pred ccCCCCChHHHH-----HHHHHHHHhCCC--CcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHH
Confidence 557999988877 566677665555 9999999998 99999999999999999999999999999999999999
Q ss_pred hcCchhHHhhhCCCCCHHHHHHHHHHHhhHHHHhhh
Q 023677 104 WGNRWSRIARKLPGRTDNEIKNYWRTHMRKKAQERK 139 (279)
Q Consensus 104 ~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~~~~~~ 139 (279)
+|++|++||++|||||||+|||+|++.||++.....
T Consensus 80 ~GNrWs~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 80 LGNRWSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HCcHHHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 999999999999999999999999999999887665
No 3
>PLN03091 hypothetical protein; Provisional
Probab=99.96 E-value=7.6e-29 Score=238.48 Aligned_cols=114 Identities=43% Similarity=0.680 Sum_probs=100.7
Q ss_pred cccccccccccccCcccchHHHHHHHHHhhhhcCCcCHHHHHHHc-CCCCHHHHHHHHHHhcCCCCCCCCCCHHHHHHHH
Q 023677 20 ALGFYCESFRFEGGGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVG-LNRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVL 98 (279)
Q Consensus 20 ~l~~~l~k~~wt~~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~-~~Rt~~QCr~RW~n~L~P~l~kg~WT~eED~~Ll 98 (279)
+....+++++|+.+||.. |+.++.. +|..+|.+||+.+ ++|+++|||+||.|||+|+|++++||+|||++|+
T Consensus 7 c~KqklrKg~WTpEEDe~-----L~~~V~k--yG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLL 79 (459)
T PLN03091 7 CYKQKLRKGLWSPEEDEK-----LLRHITK--YGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLII 79 (459)
T ss_pred CcCCCCcCCCCCHHHHHH-----HHHHHHH--hCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHH
Confidence 345789999999888874 4455544 4556999999877 4999999999999999999999999999999999
Q ss_pred HHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHHHHhhhh
Q 023677 99 ELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKKAQERKR 140 (279)
Q Consensus 99 ~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~~~~~~~ 140 (279)
++|.+||++|++||++|||||+++|||||+.++|++.+.+.-
T Consensus 80 eL~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I 121 (459)
T PLN03091 80 ELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGI 121 (459)
T ss_pred HHHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCC
Confidence 999999999999999999999999999999999998775543
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.81 E-value=2e-20 Score=186.07 Aligned_cols=129 Identities=17% Similarity=0.355 Sum_probs=117.6
Q ss_pred CCCCccccccccccccccccccccccccccCcccchHHHHHHHHHhhhhcC-CcCHHHHHHHcCCCCHHHHHHHHHHhcC
Q 023677 3 RAGGHTAGELCAAVWRSALGFYCESFRFEGGGRQYNRGRLFRRYTNFRRSN-SFNYMKYFVVGLNRTGKSCRLRWVNYLH 81 (279)
Q Consensus 3 ~~gg~~~g~~C~~rW~~~l~~~l~k~~wt~~ed~~~~~~llr~l~~~~~~g-~~~W~~IA~~~~~Rt~~QCr~RW~n~L~ 81 (279)
-||+.++..||.+++..++...+. ..|+.+||. .|+.+++..+.| .|+|.+|...|+||+..|..-||.+.||
T Consensus 282 ~Lgt~RS~yQC~~kF~t~~~~L~e-keWsEEed~-----kL~alV~~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~Ld 355 (939)
T KOG0049|consen 282 NLGTNRSSYQCMEKFKTEVSQLSE-KEWSEEEDT-----KLIALVKITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLD 355 (939)
T ss_pred HhCCCcchHHHHHHHHHHHHHHHh-hhcchhhhH-----HHHHHHHHhhccCccchHHHHHhcCCcchhhhhhhheeccC
Confidence 479999999999999999888766 778877666 588888888888 5999999999999999999999999999
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhcCc-hhHHhhhCCCCCHHHHHHHHHHHhhHHHHh
Q 023677 82 PGLKRGKMTPQEERLVLELHAKWGNR-WSRIARKLPGRTDNEIKNYWRTHMRKKAQE 137 (279)
Q Consensus 82 P~l~kg~WT~eED~~Ll~lv~~~G~~-W~~Ia~~lpgRT~~q~knRw~~llr~~~~~ 137 (279)
|+|++|+||.+||.+|+.+|.+||.+ |.+|...+|||++.|||.||.+.|....+.
T Consensus 356 Psikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~ 412 (939)
T KOG0049|consen 356 PSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAKV 412 (939)
T ss_pred ccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhcc
Confidence 99999999999999999999999964 999999999999999999999988876543
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.76 E-value=1.6e-18 Score=172.64 Aligned_cols=121 Identities=18% Similarity=0.232 Sum_probs=105.8
Q ss_pred ccccccccccccccccccccccccCcccchHHHHHHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhcCCCCCCCC
Q 023677 9 AGELCAAVWRSALGFYCESFRFEGGGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYLHPGLKRGK 88 (279)
Q Consensus 9 ~g~~C~~rW~~~l~~~l~k~~wt~~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L~P~l~kg~ 88 (279)
+-.|=..||..+|||+|++|+|+.+||-. ++..+.++|+++|.+|-..+|||+..|||+||.|+|+-+++++.
T Consensus 342 ~~~qLI~R~~~~LdPsikhg~wt~~ED~~-------L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~r 414 (939)
T KOG0049|consen 342 TRQQLITRFSHTLDPSVKHGRWTDQEDVL-------LVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAKVER 414 (939)
T ss_pred chhhhhhhheeccCccccCCCCCCHHHHH-------HHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhccCc
Confidence 34456789999999999999999998885 55567778999999999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHHHHhc-CchhHHhhhCCCCCHHHHHHHHHHHhhHHHH
Q 023677 89 MTPQEERLVLELHAKWG-NRWSRIARKLPGRTDNEIKNYWRTHMRKKAQ 136 (279)
Q Consensus 89 WT~eED~~Ll~lv~~~G-~~W~~Ia~~lpgRT~~q~knRw~~llr~~~~ 136 (279)
||-.||++||.+|.+|| ++|.+||..||.||..|...|=..+++.+..
T Consensus 415 W~l~edeqL~~~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~~~k~r 463 (939)
T KOG0049|consen 415 WTLVEDEQLLYAVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLIAAKLR 463 (939)
T ss_pred eeecchHHHHHHHHHHccchHHHHHHHccccchhHHHHHHHHHHHHHHH
Confidence 99999999999999999 6899999999999997666654444444433
No 6
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.46 E-value=7.6e-14 Score=138.42 Aligned_cols=108 Identities=19% Similarity=0.322 Sum_probs=96.3
Q ss_pred cccccccccccCcccchHHHHHHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHH
Q 023677 22 GFYCESFRFEGGGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELH 101 (279)
Q Consensus 22 ~~~l~k~~wt~~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L~P~l~kg~WT~eED~~Ll~lv 101 (279)
...++.|.|...||.. |..++ ..++..+|.+||..+..|+++||+.||.++|+|.+++..|+.+||..|+.+.
T Consensus 15 ~~~~k~gsw~~~EDe~-----l~~~v--k~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~ 87 (512)
T COG5147 15 QTKRKGGSWKRTEDED-----LKALV--KKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLD 87 (512)
T ss_pred cceecCCCCCCcchhH-----HHHHH--hhcccccHHHHHHHhcccccccccchhhhhhchhcccccccHHHHHHHHHHH
Confidence 3467788999888885 33333 5667788999999999999999999999999999999999999999999999
Q ss_pred HHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHHHH
Q 023677 102 AKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKKAQ 136 (279)
Q Consensus 102 ~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~~~ 136 (279)
.++|++|+.||..++|||+.+|.+||..++.....
T Consensus 88 ~~~~~~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 88 KELGTQWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred HhcCchhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 99999999999999999999999999999887544
No 7
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.45 E-value=7.1e-14 Score=136.91 Aligned_cols=109 Identities=15% Similarity=0.298 Sum_probs=96.6
Q ss_pred cccccccccCcccchHHHHHHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHH
Q 023677 24 YCESFRFEGGGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAK 103 (279)
Q Consensus 24 ~l~k~~wt~~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L~P~l~kg~WT~eED~~Ll~lv~~ 103 (279)
.++-|+|+..||. +|.+-+ ..+|...|.+||..+...+++||+.||..+|||.|++..|+.+||.+||.+...
T Consensus 4 ~~kggvwrntEde-----ilkaav--~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl 76 (617)
T KOG0050|consen 4 EIKGGVWRNTEDE-----VLKAAV--MKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKL 76 (617)
T ss_pred EEecceecccHHH-----HHHHHH--HHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHh
Confidence 5678999877666 455544 446777999999999999999999999999999999999999999999999999
Q ss_pred hcCchhHHhhhCCCCCHHHHHHHHHHHhhHHHHhhhh
Q 023677 104 WGNRWSRIARKLPGRTDNEIKNYWRTHMRKKAQERKR 140 (279)
Q Consensus 104 ~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~~~~~~~ 140 (279)
+...|..|+..| |||.+||-.||+.++-........
T Consensus 77 ~p~qwrtIa~i~-gr~~~qc~eRy~~ll~~~~s~~~~ 112 (617)
T KOG0050|consen 77 EPTQWRTIADIM-GRTSQQCLERYNNLLDVYVSYHYH 112 (617)
T ss_pred cCCccchHHHHh-hhhHHHHHHHHHHHHHHHHhhhcc
Confidence 999999999999 999999999999999887655444
No 8
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.43 E-value=1.8e-13 Score=94.84 Aligned_cols=46 Identities=33% Similarity=0.733 Sum_probs=42.0
Q ss_pred CCCCCHHHHHHHHHHHHHhcCc-hhHHhhhCC-CCCHHHHHHHHHHHh
Q 023677 86 RGKMTPQEERLVLELHAKWGNR-WSRIARKLP-GRTDNEIKNYWRTHM 131 (279)
Q Consensus 86 kg~WT~eED~~Ll~lv~~~G~~-W~~Ia~~lp-gRT~~q~knRw~~ll 131 (279)
|++||++||.+|+++|.+||.. |..||..|+ +||..||++||+.++
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 5899999999999999999988 999999999 999999999999874
No 9
>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=99.43 E-value=2.6e-13 Score=97.68 Aligned_cols=56 Identities=30% Similarity=0.408 Sum_probs=45.6
Q ss_pred HHHHHHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhcCCCCCCCCCCHHHHHHH
Q 023677 39 RGRLFRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYLHPGLKRGKMTPQEERLV 97 (279)
Q Consensus 39 ~~~llr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L~P~l~kg~WT~eED~~L 97 (279)
++++|..++..++ .+|.+||..++.|++.||+.||.++|+|.+++++||++||.+|
T Consensus 5 Ed~~L~~~~~~~g---~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 5 EDELLLELVKKYG---NDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp HHHHHHHHHHHHT---S-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred HHHHHHHHHHHHC---cCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 3345555555443 4899999999779999999999999999999999999999987
No 10
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.30 E-value=4.9e-13 Score=121.51 Aligned_cols=73 Identities=18% Similarity=0.152 Sum_probs=61.3
Q ss_pred CCCCccccccccccccccccccccccccccCcccchHHHHHHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhcCC
Q 023677 3 RAGGHTAGELCAAVWRSALGFYCESFRFEGGGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYLHP 82 (279)
Q Consensus 3 ~~gg~~~g~~C~~rW~~~l~~~l~k~~wt~~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L~P 82 (279)
++|..+++.||+.||.+.|+|.|+++.|+.+||.. |+.++ ...+..|.+||..++|||..||+.||..+|..
T Consensus 54 ~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~l----Llel~----~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK 125 (249)
T PLN03212 54 RAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDL----ILRLH----RLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRK 125 (249)
T ss_pred hhhcCCCcchHHHHHHHhhchhcccCCCChHHHHH----HHHHH----HhccccHHHHHhhcCCCCHHHHHHHHHHHHhH
Confidence 46778999999999999999999999999988774 33332 22346899999999999999999999998875
Q ss_pred C
Q 023677 83 G 83 (279)
Q Consensus 83 ~ 83 (279)
.
T Consensus 126 ~ 126 (249)
T PLN03212 126 K 126 (249)
T ss_pred H
Confidence 4
No 11
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.27 E-value=9.5e-12 Score=83.73 Aligned_cols=47 Identities=38% Similarity=0.894 Sum_probs=44.5
Q ss_pred CCCCCHHHHHHHHHHHHHhc-CchhHHhhhCCCCCHHHHHHHHHHHhh
Q 023677 86 RGKMTPQEERLVLELHAKWG-NRWSRIARKLPGRTDNEIKNYWRTHMR 132 (279)
Q Consensus 86 kg~WT~eED~~Ll~lv~~~G-~~W~~Ia~~lpgRT~~q~knRw~~llr 132 (279)
+++||++||.+|+.++.+|| .+|..||..|++||..+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998765
No 12
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.26 E-value=4.4e-12 Score=91.20 Aligned_cols=45 Identities=44% Similarity=0.843 Sum_probs=39.3
Q ss_pred CCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 89 MTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 89 WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
||++||.+|+++|.+||++|..||..|+.||..+|++||+..|++
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 999999999999999999999999999669999999999996653
No 13
>PLN03091 hypothetical protein; Provisional
Probab=99.21 E-value=3.3e-12 Score=123.98 Aligned_cols=72 Identities=15% Similarity=0.187 Sum_probs=60.2
Q ss_pred CCCCccccccccccccccccccccccccccCcccchHHHHHHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhcCC
Q 023677 3 RAGGHTAGELCAAVWRSALGFYCESFRFEGGGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYLHP 82 (279)
Q Consensus 3 ~~gg~~~g~~C~~rW~~~l~~~l~k~~wt~~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L~P 82 (279)
.+|..|++.||+.||.+.|+|.|++++|+.+||.. |++++..+ +.+|.+||..++|||..||+.||...|..
T Consensus 43 ~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~l----LLeL~k~~----GnKWskIAk~LPGRTDnqIKNRWnslLKK 114 (459)
T PLN03091 43 QAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENL----IIELHAVL----GNRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (459)
T ss_pred hhccCcCcchHhHHHHhccCCcccCCCCCHHHHHH----HHHHHHHh----CcchHHHHHhcCCCCHHHHHHHHHHHHHH
Confidence 35668999999999999999999999999888874 33333322 45899999999999999999999987654
No 14
>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=99.14 E-value=1e-10 Score=77.60 Aligned_cols=44 Identities=41% Similarity=0.850 Sum_probs=41.8
Q ss_pred CCCHHHHHHHHHHHHHhc-CchhHHhhhCCCCCHHHHHHHHHHHh
Q 023677 88 KMTPQEERLVLELHAKWG-NRWSRIARKLPGRTDNEIKNYWRTHM 131 (279)
Q Consensus 88 ~WT~eED~~Ll~lv~~~G-~~W~~Ia~~lpgRT~~q~knRw~~ll 131 (279)
+||.+||.+|++++.+|| .+|..||..|++||..+|++||..++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999998763
No 15
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.08 E-value=2.7e-10 Score=114.64 Aligned_cols=101 Identities=17% Similarity=0.291 Sum_probs=85.2
Q ss_pred cccccccCcccchHHHHHHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhcCCC--CCCCCCCHHHHHHHHHHHH-
Q 023677 26 ESFRFEGGGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYLHPG--LKRGKMTPQEERLVLELHA- 102 (279)
Q Consensus 26 ~k~~wt~~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L~P~--l~kg~WT~eED~~Ll~lv~- 102 (279)
++|.|+.++++. |..++.. .+..|..|+..+ ||.+..||+||+++..++ ++++.||.||+++||++|+
T Consensus 383 ~rg~wt~ee~ee-----L~~l~~~---~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~ 453 (607)
T KOG0051|consen 383 KRGKWTPEEEEE-----LKKLVVE---HGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNE 453 (607)
T ss_pred ccCCCCcchHHH-----HHHHHHH---hcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHH
Confidence 899999887763 3333333 356899999988 999999999999999998 5999999999999999995
Q ss_pred ------Hh-------c------------CchhHHhhhCCCCCHHHHHHHHHHHhhHHH
Q 023677 103 ------KW-------G------------NRWSRIARKLPGRTDNEIKNYWRTHMRKKA 135 (279)
Q Consensus 103 ------~~-------G------------~~W~~Ia~~lpgRT~~q~knRw~~llr~~~ 135 (279)
++ | -+|+.|+..+..|+-.||+.+|..++....
T Consensus 454 ~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s 511 (607)
T KOG0051|consen 454 MIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPS 511 (607)
T ss_pred HHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHH
Confidence 44 1 159999999989999999999999988753
No 16
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.01 E-value=1.9e-10 Score=104.65 Aligned_cols=57 Identities=16% Similarity=0.296 Sum_probs=51.4
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhcC-chhHHhhhCC-CCCHHHHHHHHHHHhhHHHHhh
Q 023677 82 PGLKRGKMTPQEERLVLELHAKWGN-RWSRIARKLP-GRTDNEIKNYWRTHMRKKAQER 138 (279)
Q Consensus 82 P~l~kg~WT~eED~~Ll~lv~~~G~-~W~~Ia~~lp-gRT~~q~knRw~~llr~~~~~~ 138 (279)
|.+.||+||+|||++|+++|++||. +|..|++.++ ||++.+||-||.++||...++.
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg 63 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRG 63 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCC
Confidence 4566899999999999999999995 5999999998 9999999999999999876543
No 17
>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=98.80 E-value=3.6e-09 Score=73.16 Aligned_cols=47 Identities=21% Similarity=0.156 Sum_probs=33.9
Q ss_pred ccccccCcccchHHHHHHHHHhhhhcCCcCHHHHHHHcC-CCCHHHHHHHHHHhc
Q 023677 27 SFRFEGGGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVGL-NRTGKSCRLRWVNYL 80 (279)
Q Consensus 27 k~~wt~~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~~-~Rt~~QCr~RW~n~L 80 (279)
+++||.+|+.. |..++..+ |..+|.+||..++ +||+.||+.||.++|
T Consensus 1 r~~Wt~eE~~~-----l~~~v~~~--g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEK-----LLEAVKKY--GKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHH-----HHHHHHHS--TTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHH-----HHHHHHHh--CCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 57788776663 33344333 3336999999999 999999999999986
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.30 E-value=8.2e-07 Score=59.32 Aligned_cols=47 Identities=21% Similarity=0.247 Sum_probs=34.7
Q ss_pred cccccCcccchHHHHHHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhcC
Q 023677 28 FRFEGGGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYLH 81 (279)
Q Consensus 28 ~~wt~~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L~ 81 (279)
+.|+.+|+.. |..++..+ |..+|..||..+++||+.+|+.||.+.+.
T Consensus 2 ~~Wt~~E~~~-----l~~~~~~~--g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 2 GEWTEEEDEL-----LIELVKKY--GKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCHHHHHH-----HHHHHHHH--CcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 5677666553 33333332 33799999999999999999999998765
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.24 E-value=1.9e-06 Score=87.33 Aligned_cols=78 Identities=29% Similarity=0.472 Sum_probs=68.0
Q ss_pred HHHHHHHcCCCCHHHHHHHHHHhcCC-CCCCCCCCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHHH
Q 023677 57 YMKYFVVGLNRTGKSCRLRWVNYLHP-GLKRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKKA 135 (279)
Q Consensus 57 W~~IA~~~~~Rt~~QCr~RW~n~L~P-~l~kg~WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~~ 135 (279)
|..|...+|-|+.+.....-++.-+| ..++|.||++|++.|..+|.++|+.|..|++.| ||....|+.||+.+++...
T Consensus 354 ~n~~~~~Lp~R~~~siy~~~rR~y~~FE~~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~ 432 (607)
T KOG0051|consen 354 YNNLYKLLPYRDRKSIYHHLRRAYTPFENKRGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGS 432 (607)
T ss_pred HHhhhhhcCcccchhHHHHHHhcCCccccccCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhcccc
Confidence 67788899999999887744455555 229999999999999999999999999999999 9999999999999888654
No 20
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.20 E-value=7e-07 Score=89.29 Aligned_cols=117 Identities=11% Similarity=0.069 Sum_probs=94.8
Q ss_pred ccccccccccccccccccccccccccCcccchHHHHHHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhcCCCCCC
Q 023677 7 HTAGELCAAVWRSALGFYCESFRFEGGGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYLHPGLKR 86 (279)
Q Consensus 7 ~~~g~~C~~rW~~~l~~~l~k~~wt~~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L~P~l~k 86 (279)
+.++.+|..||..++++.+++..|+.+||.. +..+...-+..|..||..+++|+..||.+||++.|.+..+
T Consensus 52 ~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~--------li~l~~~~~~~wstia~~~d~rt~~~~~ery~~~~~~~~s- 122 (512)
T COG5147 52 SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQ--------LIDLDKELGTQWSTIADYKDRRTAQQCVERYVNTLEDLSS- 122 (512)
T ss_pred ccccccccchhhhhhchhcccccccHHHHHH--------HHHHHHhcCchhhhhccccCccchHHHHHHHHHHhhhhhc-
Confidence 4789999999999999999999999888775 2223333355699999999999999999999999998766
Q ss_pred CCCCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhh
Q 023677 87 GKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMR 132 (279)
Q Consensus 87 g~WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr 132 (279)
.+|+..++...+..+..|+..|.++......+-..-+.|++.++..
T Consensus 123 ~~~s~~~~~~~f~k~d~f~~~~~~~~~~~~~~~~~~~~N~~~~~~~ 168 (512)
T COG5147 123 THDSKLQRRNEFDKIDPFNENSARRPDIYEDELLEREVNREASYRL 168 (512)
T ss_pred cccccccchhhccccCchhhhhhhhhhhhhcccchhhhhHHHHHHH
Confidence 8899999888888888888888887766655666666777654444
No 21
>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=98.09 E-value=3.8e-06 Score=55.26 Aligned_cols=44 Identities=27% Similarity=0.311 Sum_probs=32.0
Q ss_pred cccCcccchHHHHHHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhc
Q 023677 30 FEGGGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYL 80 (279)
Q Consensus 30 wt~~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L 80 (279)
|+.+|+. +|..++..+ |..+|..||..+++|++.||+.||.+++
T Consensus 2 Wt~eE~~-----~l~~~~~~~--g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 2 WTEEEDE-----LLLEAVKKY--GKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCHHHHH-----HHHHHHHHH--CcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 5555444 344443333 3378999999999999999999998764
No 22
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.49 E-value=0.00017 Score=70.57 Aligned_cols=51 Identities=27% Similarity=0.446 Sum_probs=45.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhc-CchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 83 GLKRGKMTPQEERLVLELHAKWG-NRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 83 ~l~kg~WT~eED~~Ll~lv~~~G-~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
.+-...||.+|+.+||+++..|| ++|..||.++..||..+||.+|.+++-.
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv~ 120 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFVN 120 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHhc
Confidence 45567899999999999999999 8999999999889999999999876543
No 23
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.46 E-value=1.4e-05 Score=79.46 Aligned_cols=65 Identities=17% Similarity=0.215 Sum_probs=53.4
Q ss_pred cccccccccccccccccccccccccCcccchHHHHHHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhcC
Q 023677 8 TAGELCAAVWRSALGFYCESFRFEGGGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYLH 81 (279)
Q Consensus 8 ~~g~~C~~rW~~~l~~~l~k~~wt~~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L~ 81 (279)
.+..||..||-..+||.|++--|+.+||.. ||-+..-. .-.|.-||..| ||++.||.+||.+.|+
T Consensus 40 kt~rqC~~rw~e~ldp~i~~tews~eeder----lLhlakl~----p~qwrtIa~i~-gr~~~qc~eRy~~ll~ 104 (617)
T KOG0050|consen 40 KTARQCKARWEEWLDPAIKKTEWSREEDER----LLHLAKLE----PTQWRTIADIM-GRTSQQCLERYNNLLD 104 (617)
T ss_pred cchhHHHHHHHHHhCHHHhhhhhhhhHHHH----HHHHHHhc----CCccchHHHHh-hhhHHHHHHHHHHHHH
Confidence 467899999999999999999999988875 33333222 45799999877 9999999999998775
No 24
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.39 E-value=0.00052 Score=49.63 Aligned_cols=46 Identities=20% Similarity=0.241 Sum_probs=40.1
Q ss_pred CCCCCHHHHHHHHHHHHHhcC-ch---hHHhhhCC-CC-CHHHHHHHHHHHh
Q 023677 86 RGKMTPQEERLVLELHAKWGN-RW---SRIARKLP-GR-TDNEIKNYWRTHM 131 (279)
Q Consensus 86 kg~WT~eED~~Ll~lv~~~G~-~W---~~Ia~~lp-gR-T~~q~knRw~~ll 131 (279)
+-.||+||..+.++++..+|. +| ..|+..|. .| |..||+.|.+...
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 557999999999999999997 99 99999874 35 9999999987654
No 25
>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=97.22 E-value=0.00052 Score=59.30 Aligned_cols=50 Identities=22% Similarity=0.326 Sum_probs=44.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhcC-------chhHHhhhCCCCCHHHHHHHHHHHhhHHH
Q 023677 85 KRGKMTPQEERLVLELHAKWGN-------RWSRIARKLPGRTDNEIKNYWRTHMRKKA 135 (279)
Q Consensus 85 ~kg~WT~eED~~Ll~lv~~~G~-------~W~~Ia~~lpgRT~~q~knRw~~llr~~~ 135 (279)
+...||.|||.+|-+.|-+|-. -+..++..| +||..+|.-|||..+|+..
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY 59 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQY 59 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHH
Confidence 4568999999999999987752 389999999 9999999999999999864
No 26
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.16 E-value=0.0005 Score=52.46 Aligned_cols=54 Identities=30% Similarity=0.561 Sum_probs=38.3
Q ss_pred CCCCCHHHHHHHHHHHHH------hcC--------chhHHhhhC----CCCCHHHHHHHHHHHhhHHHHhhh
Q 023677 86 RGKMTPQEERLVLELHAK------WGN--------RWSRIARKL----PGRTDNEIKNYWRTHMRKKAQERK 139 (279)
Q Consensus 86 kg~WT~eED~~Ll~lv~~------~G~--------~W~~Ia~~l----pgRT~~q~knRw~~llr~~~~~~~ 139 (279)
|..||.+|...||+++.+ +++ -|..||..| ..||..||+++|++|.+.-.+.+.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~k~ 72 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKIKD 72 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCSSS
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 357999999999999977 321 499999987 469999999999998877654443
No 27
>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=96.79 E-value=0.0022 Score=47.59 Aligned_cols=50 Identities=20% Similarity=0.432 Sum_probs=32.5
Q ss_pred CCCCCHHHHHHHHHHHHHhc--------Cc-hhHHhhhCC-CCCHHHHHHHHHHHhhHHH
Q 023677 86 RGKMTPQEERLVLELHAKWG--------NR-WSRIARKLP-GRTDNEIKNYWRTHMRKKA 135 (279)
Q Consensus 86 kg~WT~eED~~Ll~lv~~~G--------~~-W~~Ia~~lp-gRT~~q~knRw~~llr~~~ 135 (279)
+.+||.+||+.|++.|.++. ++ |.+++..-+ .+|-...|+||...|+.+.
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 45899999999999996543 22 999998877 9999999999998888754
No 28
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.62 E-value=0.0027 Score=64.00 Aligned_cols=50 Identities=20% Similarity=0.321 Sum_probs=45.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 85 KRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 85 ~kg~WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
.+..||.+|..+||+.+..||-.|.+||.++..||..||--++..+-..-
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~LPieD 301 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRLPIED 301 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhcCccc
Confidence 35689999999999999999999999999999999999999997665543
No 29
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.59 E-value=0.0026 Score=63.06 Aligned_cols=47 Identities=21% Similarity=0.323 Sum_probs=43.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHh
Q 023677 85 KRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHM 131 (279)
Q Consensus 85 ~kg~WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~ll 131 (279)
....||.+|..+||+.++.||-.|.+||+++..+|..||--||.++-
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~LP 324 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQLP 324 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcCC
Confidence 34589999999999999999999999999999999999999997653
No 30
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.39 E-value=0.0048 Score=53.95 Aligned_cols=49 Identities=18% Similarity=0.331 Sum_probs=42.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhcCc-------hhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 85 KRGKMTPQEERLVLELHAKWGNR-------WSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 85 ~kg~WT~eED~~Ll~lv~~~G~~-------W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
++..||.|||.+|-+.|-.|+.. ...++..| +||..+|.-|||..+|++
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~ 59 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQ 59 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHH
Confidence 56789999999998888888742 67777888 999999999999999965
No 31
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.07 E-value=0.018 Score=43.07 Aligned_cols=50 Identities=24% Similarity=0.491 Sum_probs=41.2
Q ss_pred CCCCCHHHHHHHHHHHHHhc-----------------CchhHHhhhC-----CCCCHHHHHHHHHHHhhHHH
Q 023677 86 RGKMTPQEERLVLELHAKWG-----------------NRWSRIARKL-----PGRTDNEIKNYWRTHMRKKA 135 (279)
Q Consensus 86 kg~WT~eED~~Ll~lv~~~G-----------------~~W~~Ia~~l-----pgRT~~q~knRw~~llr~~~ 135 (279)
+..||.+|..+|++++.+|- .-|..|+..| +.||..+++.+|..+...-.
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~K 73 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAK 73 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHH
Confidence 45799999999999998864 1399999877 35999999999998876543
No 32
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=94.79 E-value=0.038 Score=52.81 Aligned_cols=48 Identities=25% Similarity=0.368 Sum_probs=43.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhc-CchhHHhhhCCCCCHHHHHHHHHHHhh
Q 023677 85 KRGKMTPQEERLVLELHAKWG-NRWSRIARKLPGRTDNEIKNYWRTHMR 132 (279)
Q Consensus 85 ~kg~WT~eED~~Ll~lv~~~G-~~W~~Ia~~lpgRT~~q~knRw~~llr 132 (279)
--..|+..|+.+|++.....| ++|..||.++..|+..+||.+|....-
T Consensus 62 ~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 62 GEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred cCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 345799999999999999999 789999999988999999999976654
No 33
>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=94.79 E-value=0.053 Score=44.78 Aligned_cols=53 Identities=23% Similarity=0.446 Sum_probs=42.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhcC----chhHHhhhC------------CCCCHHHHHHHHHHHhhHHH
Q 023677 83 GLKRGKMTPQEERLVLELHAKWGN----RWSRIARKL------------PGRTDNEIKNYWRTHMRKKA 135 (279)
Q Consensus 83 ~l~kg~WT~eED~~Ll~lv~~~G~----~W~~Ia~~l------------pgRT~~q~knRw~~llr~~~ 135 (279)
..++..+|.+||..||-.+.+||- .|..|...+ ..||+..+..|-++||+--.
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~ 114 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIE 114 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHH
Confidence 566778999999999999999996 798886543 45999999999999998643
No 34
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=93.87 E-value=0.086 Score=51.50 Aligned_cols=65 Identities=18% Similarity=0.279 Sum_probs=54.0
Q ss_pred HHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCchhHHhhh-----CCC-CCHHHHHHHHHHHhhHHHHhhhhc
Q 023677 73 RLRWVNYLHPGLKRGKMTPQEERLVLELHAKWGNRWSRIARK-----LPG-RTDNEIKNYWRTHMRKKAQERKRA 141 (279)
Q Consensus 73 r~RW~n~L~P~l~kg~WT~eED~~Ll~lv~~~G~~W~~Ia~~-----lpg-RT~~q~knRw~~llr~~~~~~~~~ 141 (279)
-+-|.+||+- ..||.+|-..|.+|++.|.-+|..|+.+ ++. ||-.++|.||....++..+.+...
T Consensus 121 ~eEYe~~l~d----n~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~s 191 (445)
T KOG2656|consen 121 DEEYEAHLND----NSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARAPS 191 (445)
T ss_pred hHHHHHhhcc----ccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHccCCC
Confidence 3556666653 6899999999999999999999999987 555 999999999998888876655443
No 35
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=92.90 E-value=0.2 Score=49.58 Aligned_cols=53 Identities=8% Similarity=-0.008 Sum_probs=39.3
Q ss_pred cccccccccccCcccchHHHHHHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhcC
Q 023677 22 GFYCESFRFEGGGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYLH 81 (279)
Q Consensus 22 ~~~l~k~~wt~~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L~ 81 (279)
+..+-...|+..|. +.+|..++..|--||..||.+|..|+..+|++.|.+++-
T Consensus 67 s~~i~~~~WtadEE-------ilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 67 SFPILDPSWTADEE-------ILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCCCChHHH-------HHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHh
Confidence 34445555655433 345566667777799999999999999999999998654
No 36
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=92.79 E-value=0.32 Score=46.44 Aligned_cols=57 Identities=18% Similarity=0.314 Sum_probs=45.4
Q ss_pred CCCCCHHHHHHHHHHHHHhc----------CchhHHhhhC----CCCCHHHHHHHHHHHhhHHHHhhhhcC
Q 023677 86 RGKMTPQEERLVLELHAKWG----------NRWSRIARKL----PGRTDNEIKNYWRTHMRKKAQERKRAV 142 (279)
Q Consensus 86 kg~WT~eED~~Ll~lv~~~G----------~~W~~Ia~~l----pgRT~~q~knRw~~llr~~~~~~~~~~ 142 (279)
...|+.+|=..||++..+.- .-|..||+.+ --||+.|||++|.++.++-.+.+....
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~k~~~~ 124 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKEKAKKE 124 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhcccC
Confidence 36899999999999886432 3499999965 349999999999999998766665543
No 37
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=92.57 E-value=0.33 Score=37.26 Aligned_cols=47 Identities=34% Similarity=0.666 Sum_probs=36.1
Q ss_pred CCCHHHHHHHHHHHHHh---cC----------chhHHhhhC---CC--CCHHHHHHHHHHHhhHH
Q 023677 88 KMTPQEERLVLELHAKW---GN----------RWSRIARKL---PG--RTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 88 ~WT~eED~~Ll~lv~~~---G~----------~W~~Ia~~l---pg--RT~~q~knRw~~llr~~ 134 (279)
.||++++..||+++.+. |+ .|..|+..| .| .|..||+|||..+-+.-
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~y 65 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKDY 65 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHH
Confidence 49999999999998543 21 289998877 23 57889999998776653
No 38
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=91.81 E-value=0.096 Score=39.70 Aligned_cols=24 Identities=33% Similarity=0.618 Sum_probs=17.1
Q ss_pred CHHHHHHH----cCCCCHHHHHHHHHHh
Q 023677 56 NYMKYFVV----GLNRTGKSCRLRWVNY 79 (279)
Q Consensus 56 ~W~~IA~~----~~~Rt~~QCr~RW~n~ 79 (279)
-|..||.. +..||+.||+.+|.+.
T Consensus 36 ~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 36 VWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp HHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 69999974 4589999999999874
No 39
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=91.30 E-value=0.27 Score=49.14 Aligned_cols=45 Identities=13% Similarity=0.183 Sum_probs=37.7
Q ss_pred CcccchHHHHHHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHH
Q 023677 33 GGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVN 78 (279)
Q Consensus 33 ~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n 78 (279)
.++.+..++++-++..+..+| -+|.+||.++.+++..||..++.+
T Consensus 278 ~dk~WS~qE~~LLLEGIe~yg-DdW~kVA~HVgtKt~EqCIl~FL~ 322 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYG-DDWDKVARHVGTKTKEQCILHFLQ 322 (531)
T ss_pred ccccccHHHHHHHHHHHHHhh-hhHHHHHHHhCCCCHHHHHHHHHc
Confidence 344666778888888877775 689999999999999999999987
No 40
>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=91.22 E-value=0.3 Score=35.21 Aligned_cols=47 Identities=4% Similarity=0.033 Sum_probs=32.3
Q ss_pred ccccccCcccchHHHHHHHHHhhhhcCCcCH---HHHHHHcC-CC-CHHHHHHHHHHhc
Q 023677 27 SFRFEGGGRQYNRGRLFRRYTNFRRSNSFNY---MKYFVVGL-NR-TGKSCRLRWVNYL 80 (279)
Q Consensus 27 k~~wt~~ed~~~~~~llr~l~~~~~~g~~~W---~~IA~~~~-~R-t~~QCr~RW~n~L 80 (279)
+..||.+|... .+..+...|..+| .+|+..|. .| |..||+.+.+.|.
T Consensus 3 r~~WT~eeh~~-------Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDR-------FLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHH-------HHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 45677655442 3333444455589 99999765 56 9999999998874
No 41
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=90.66 E-value=3.5 Score=37.13 Aligned_cols=68 Identities=22% Similarity=0.388 Sum_probs=48.1
Q ss_pred CCHHHHHHHHHHhc----------------CCCC-----CCCCCCHHHHHHHHHHHHHhcC---chhHHhh-----hCCC
Q 023677 67 RTGKSCRLRWVNYL----------------HPGL-----KRGKMTPQEERLVLELHAKWGN---RWSRIAR-----KLPG 117 (279)
Q Consensus 67 Rt~~QCr~RW~n~L----------------~P~l-----~kg~WT~eED~~Ll~lv~~~G~---~W~~Ia~-----~lpg 117 (279)
-|-+...+||...| +|.. .+-+||.+||++|......... .+.+|-. +-++
T Consensus 33 fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~s 112 (199)
T PF13325_consen 33 FTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSKEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPS 112 (199)
T ss_pred CcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCHHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccc
Confidence 47788888986544 3432 2458999999999997766543 4666633 2378
Q ss_pred CCHHHHHHHHHHHhhHH
Q 023677 118 RTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 118 RT~~q~knRw~~llr~~ 134 (279)
||..++.++|+.+.+..
T Consensus 113 RTak~L~~HW~lmkqy~ 129 (199)
T PF13325_consen 113 RTAKSLQDHWRLMKQYH 129 (199)
T ss_pred cCHHHHHHHHHHHHHhc
Confidence 99999999999554443
No 42
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=89.48 E-value=5.1 Score=44.20 Aligned_cols=54 Identities=20% Similarity=0.305 Sum_probs=43.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhc-CchhHHhhhC------------CCCCHHHHHHHHHHHhhHHHH
Q 023677 83 GLKRGKMTPQEERLVLELHAKWG-NRWSRIARKL------------PGRTDNEIKNYWRTHMRKKAQ 136 (279)
Q Consensus 83 ~l~kg~WT~eED~~Ll~lv~~~G-~~W~~Ia~~l------------pgRT~~q~knRw~~llr~~~~ 136 (279)
..++..+|.+||..||-.+.+|| .+|.+|-..+ ..||...+..|.++|++--.+
T Consensus 923 ~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~~~~~ 989 (1033)
T PLN03142 923 QNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIRLIEK 989 (1033)
T ss_pred CCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHHHHHH
Confidence 33455699999999999999999 6799884322 569999999999999886533
No 43
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=89.07 E-value=0.63 Score=45.58 Aligned_cols=47 Identities=19% Similarity=0.363 Sum_probs=43.7
Q ss_pred CCCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 88 KMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 88 ~WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
+||.+|-++..++...+|..++.|+..+|.|...|||.+|.+--|+.
T Consensus 367 ~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~n 413 (507)
T COG5118 367 RWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKVN 413 (507)
T ss_pred cccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhhC
Confidence 79999999999999999999999999999999999999997766554
No 44
>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=88.54 E-value=0.36 Score=41.96 Aligned_cols=50 Identities=18% Similarity=0.263 Sum_probs=35.0
Q ss_pred cccccccCcccchHHHHHHHHH-hhhhcCC---cCHHHHHHHcCCCCHHHHHHHHHHhcC
Q 023677 26 ESFRFEGGGRQYNRGRLFRRYT-NFRRSNS---FNYMKYFVVGLNRTGKSCRLRWVNYLH 81 (279)
Q Consensus 26 ~k~~wt~~ed~~~~~~llr~l~-~~~~~g~---~~W~~IA~~~~~Rt~~QCr~RW~n~L~ 81 (279)
++..||.++|-. |...| .+.+.|+ .-..+|+..+ +||+.-|.-||+.++.
T Consensus 3 RQDAWT~eeDlL-----LAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VR 56 (161)
T TIGR02894 3 RQDAWTHEEDLL-----LAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVR 56 (161)
T ss_pred cccccccHHHHH-----HHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHH
Confidence 567899887774 33333 4445553 3355666665 9999999999999887
No 45
>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=88.22 E-value=1.3 Score=30.37 Aligned_cols=41 Identities=24% Similarity=0.396 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhh
Q 023677 91 PQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMR 132 (279)
Q Consensus 91 ~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr 132 (279)
++++..++.++-..|-.+.+||..+ |.|.+.|+++....++
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 4678889999999999999999999 9999999998776554
No 46
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=86.52 E-value=1.7 Score=43.55 Aligned_cols=49 Identities=16% Similarity=0.304 Sum_probs=43.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 85 KRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 85 ~kg~WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
....||.||-.++-+++..||+++.+|.+.||.|+-..+...|...-+.
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 3457999999999999999999999999999999999999887655443
No 47
>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=85.65 E-value=0.39 Score=35.60 Aligned_cols=55 Identities=15% Similarity=0.017 Sum_probs=29.4
Q ss_pred ccccccCcccchHHHHHHHHHhh-----hhcCCcCHHHHHHHcC-CCCHHHHHHHHHHhcCCCCC
Q 023677 27 SFRFEGGGRQYNRGRLFRRYTNF-----RRSNSFNYMKYFVVGL-NRTGKSCRLRWVNYLHPGLK 85 (279)
Q Consensus 27 k~~wt~~ed~~~~~~llr~l~~~-----~~~g~~~W~~IA~~~~-~Rt~~QCr~RW~n~L~P~l~ 85 (279)
+.+||.+||.. |+.-+... ...|..-|.+++..-+ .+|-.+-|+||..+|.+...
T Consensus 2 R~~fT~edD~~----l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~ 62 (65)
T PF08914_consen 2 RTPFTEEDDAA----LLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR 62 (65)
T ss_dssp -----HHHHHH----HHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred CCCCCHHHHHH----HHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence 34566666664 33333222 2245678999999877 88988999999999987543
No 48
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=84.89 E-value=1.4 Score=44.71 Aligned_cols=43 Identities=7% Similarity=0.093 Sum_probs=33.6
Q ss_pred ccchHHHHHHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHH
Q 023677 35 RQYNRGRLFRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVN 78 (279)
Q Consensus 35 d~~~~~~llr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n 78 (279)
+.+.++++|.++..++.++ -+|.+||.++.+||..||-.+..+
T Consensus 254 ~~WT~qE~lLLLE~ie~y~-ddW~kVa~hVg~ks~eqCI~kFL~ 296 (506)
T KOG1279|consen 254 PNWTEQETLLLLEAIEMYG-DDWNKVADHVGTKSQEQCILKFLR 296 (506)
T ss_pred CCccHHHHHHHHHHHHHhc-ccHHHHHhccCCCCHHHHHHHHHh
Confidence 3444556666666666664 689999999999999999999976
No 49
>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=79.14 E-value=49 Score=31.99 Aligned_cols=89 Identities=16% Similarity=0.208 Sum_probs=64.0
Q ss_pred cccccCcccchHHHHHHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHH-h--
Q 023677 28 FRFEGGGRQYNRGRLFRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAK-W-- 104 (279)
Q Consensus 28 ~~wt~~ed~~~~~~llr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L~P~l~kg~WT~eED~~Ll~lv~~-~-- 104 (279)
..|+..|.. .||++|....+....+-.+|++.+++|+..+++. +.+.|. +..+.+++++ |
T Consensus 22 ~~Ws~rEkr----~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~ 84 (344)
T PF11035_consen 22 AAWSAREKR----QLLRLLQARRGQPEPDAAELAKELPGRSEAEIRD-FLQQLK------------GRVAREAIQKVHPG 84 (344)
T ss_pred ccCcHHHHH----HHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHH-HHHHHH------------HHHHHHHHHHhccc
Confidence 367665443 4888888776666899999999999999998865 333343 3444445544 1
Q ss_pred ---cC------------chhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 105 ---GN------------RWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 105 ---G~------------~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
|. -|..+|..+.|.-...+-.-|.+.|-=
T Consensus 85 g~~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~i 128 (344)
T PF11035_consen 85 GLKGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLTI 128 (344)
T ss_pred ccccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHHH
Confidence 21 299999999999999998888776653
No 50
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=77.46 E-value=1.8 Score=38.04 Aligned_cols=53 Identities=13% Similarity=0.197 Sum_probs=32.3
Q ss_pred ccccccccCcccchHHHHHHHHHhhhhcCCcCHHHH--HHHcCCCCHHHHHHHHHHhcC
Q 023677 25 CESFRFEGGGRQYNRGRLFRRYTNFRRSNSFNYMKY--FVVGLNRTGKSCRLRWVNYLH 81 (279)
Q Consensus 25 l~k~~wt~~ed~~~~~~llr~l~~~~~~g~~~W~~I--A~~~~~Rt~~QCr~RW~n~L~ 81 (279)
.++..|+.++|-.+. +.+....+.|+..=..+ +....+||..+|..||..++.
T Consensus 3 ~rqdawt~e~d~lla----e~vl~~i~eg~tql~afe~~g~~L~rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLA----EVVLRHIREGGTQLKAFEEVGDALKRTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHH----HHHHHHHhccchHHHHHHHHHHHHhhhHHHHHhHHHHHHH
Confidence 356788877776532 33334444554333332 234559999999999965543
No 51
>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=76.08 E-value=8.1 Score=26.12 Aligned_cols=42 Identities=24% Similarity=0.344 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 92 QEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 92 eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
+++..++.++--.|-.+.+||..| |-|...|+.+.+..+++-
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~kL 48 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKKL 48 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHHh
Confidence 566677777766677899999999 999999999988777764
No 52
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=71.91 E-value=5.3 Score=38.56 Aligned_cols=39 Identities=5% Similarity=-0.070 Sum_probs=32.4
Q ss_pred HHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhcC
Q 023677 43 FRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYLH 81 (279)
Q Consensus 43 lr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L~ 81 (279)
|.++.....-|--||..||.+++.|+...|++.|..+++
T Consensus 72 llli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 72 LLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred HHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 445555555666799999999999999999999999877
No 53
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=70.67 E-value=18 Score=38.53 Aligned_cols=42 Identities=17% Similarity=0.286 Sum_probs=39.5
Q ss_pred CCCCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHH
Q 023677 87 GKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWR 128 (279)
Q Consensus 87 g~WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~ 128 (279)
..||+.|-.+.-+++-.|-+.+-.|++.+++.|-.||-..|.
T Consensus 620 d~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYY 661 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYY 661 (907)
T ss_pred ccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHH
Confidence 479999999999999999999999999999999999999865
No 54
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=70.36 E-value=5.7 Score=37.89 Aligned_cols=28 Identities=18% Similarity=0.255 Sum_probs=23.5
Q ss_pred CcCHHHHHH----HcCCCCHHHHHHHHHHhcC
Q 023677 54 SFNYMKYFV----VGLNRTGKSCRLRWVNYLH 81 (279)
Q Consensus 54 ~~~W~~IA~----~~~~Rt~~QCr~RW~n~L~ 81 (279)
...|..||. ....|++.||+.+|.|...
T Consensus 83 ~~~We~va~k~~~~g~~rs~~qck~K~~nl~k 114 (345)
T KOG4282|consen 83 GPLWEEVARKMAELGYPRSPKQCKAKIENLKK 114 (345)
T ss_pred ccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence 577999997 6668999999999988543
No 55
>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=69.84 E-value=9.9 Score=25.48 Aligned_cols=38 Identities=21% Similarity=0.415 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHhcC-chhHHhhhCCCCCHHHHHHHHHHH
Q 023677 92 QEERLVLELHAKWGN-RWSRIARKLPGRTDNEIKNYWRTH 130 (279)
Q Consensus 92 eED~~Ll~lv~~~G~-~W~~Ia~~lpgRT~~q~knRw~~l 130 (279)
+=|..||.+.++-|. .+..||+.+ |=|...|.+|.+.+
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 458889999988884 599999999 99999999998754
No 56
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=69.48 E-value=8.2 Score=40.12 Aligned_cols=49 Identities=16% Similarity=0.382 Sum_probs=39.1
Q ss_pred CCCCCHHHHHHHHHHHHHhcCchhHHhhhC----------CCCCHHHHHHHHHHHhhHH
Q 023677 86 RGKMTPQEERLVLELHAKWGNRWSRIARKL----------PGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 86 kg~WT~eED~~Ll~lv~~~G~~W~~Ia~~l----------pgRT~~q~knRw~~llr~~ 134 (279)
|..||-+|+.-...+.+++|..+.+|-..+ .-.|-.|++.+|..++++.
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m 146 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRM 146 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHH
Confidence 678999999999999999999998883322 2256678888887777664
No 57
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=68.00 E-value=11 Score=34.02 Aligned_cols=46 Identities=15% Similarity=0.265 Sum_probs=36.3
Q ss_pred CCCHHHHHHHHHHHHHhcCchhHHhhhC---CCCCHHHHHHHHHHHhhHH
Q 023677 88 KMTPQEERLVLELHAKWGNRWSRIARKL---PGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 88 ~WT~eED~~Ll~lv~~~G~~W~~Ia~~l---pgRT~~q~knRw~~llr~~ 134 (279)
.|++..|-+|+.+|.+ |+.-..|+.-+ -.-|-.+|..||+.+|--.
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~ 49 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLYDP 49 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHcCh
Confidence 5999999999999976 55666666543 3468899999999998753
No 58
>smart00595 MADF subfamily of SANT domain.
Probab=65.02 E-value=9.6 Score=28.64 Aligned_cols=30 Identities=30% Similarity=0.594 Sum_probs=24.2
Q ss_pred chhHHhhhCCCCCHHHHHHHHHHHhhHHHHh
Q 023677 107 RWSRIARKLPGRTDNEIKNYWRTHMRKKAQE 137 (279)
Q Consensus 107 ~W~~Ia~~lpgRT~~q~knRw~~llr~~~~~ 137 (279)
-|..||..| |-|..+|+.+|+++-..-.+.
T Consensus 29 aW~~Ia~~l-~~~~~~~~~kw~~LR~~y~~e 58 (89)
T smart00595 29 AWEEIAEEL-GLSVEECKKRWKNLRDRYRRE 58 (89)
T ss_pred HHHHHHHHH-CcCHHHHHHHHHHHHHHHHHH
Confidence 399999999 559999999999886654433
No 59
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=64.94 E-value=14 Score=31.07 Aligned_cols=43 Identities=14% Similarity=0.182 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHhc-CchhHHhhhCCCCCHHHHHHHHHHHhhHHH
Q 023677 92 QEERLVLELHAKWG-NRWSRIARKLPGRTDNEIKNYWRTHMRKKA 135 (279)
Q Consensus 92 eED~~Ll~lv~~~G-~~W~~Ia~~lpgRT~~q~knRw~~llr~~~ 135 (279)
+-|.+||++.++-| ..|++||+.+ |-|...|++|++.+.....
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 57899999998888 4699999999 9999999999998877653
No 60
>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=64.06 E-value=17 Score=29.33 Aligned_cols=41 Identities=17% Similarity=0.239 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 93 EERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 93 ED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
++..++.+.-..|-.+.+||..+ |.+...|+++.....++-
T Consensus 117 ~~r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~L 157 (161)
T TIGR02985 117 QCRKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKEL 157 (161)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 44555555445677899999999 999999999988765543
No 61
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=62.81 E-value=28 Score=33.57 Aligned_cols=46 Identities=26% Similarity=0.513 Sum_probs=36.2
Q ss_pred CCCCHHHHHHHHHHHHHh-cCc---hhHHhhhCCCCCHHHHHHHHHHHhh
Q 023677 87 GKMTPQEERLVLELHAKW-GNR---WSRIARKLPGRTDNEIKNYWRTHMR 132 (279)
Q Consensus 87 g~WT~eED~~Ll~lv~~~-G~~---W~~Ia~~lpgRT~~q~knRw~~llr 132 (279)
..||.-|...||++.+.. |.. -.+|++.++||+..+|++--+.+-.
T Consensus 22 ~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~ 71 (344)
T PF11035_consen 22 AAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKG 71 (344)
T ss_pred ccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHH
Confidence 479999999999988765 543 4688999999999999985544433
No 62
>smart00595 MADF subfamily of SANT domain.
Probab=61.14 E-value=9.2 Score=28.75 Aligned_cols=23 Identities=17% Similarity=0.250 Sum_probs=20.1
Q ss_pred CHHHHHHHcCCCCHHHHHHHHHHh
Q 023677 56 NYMKYFVVGLNRTGKSCRLRWVNY 79 (279)
Q Consensus 56 ~W~~IA~~~~~Rt~~QCr~RW~n~ 79 (279)
-|.+||..+.. +..+|+.+|.+.
T Consensus 29 aW~~Ia~~l~~-~~~~~~~kw~~L 51 (89)
T smart00595 29 AWEEIAEELGL-SVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHHCc-CHHHHHHHHHHH
Confidence 59999998855 999999999873
No 63
>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=57.79 E-value=15 Score=28.37 Aligned_cols=29 Identities=24% Similarity=0.579 Sum_probs=24.2
Q ss_pred HHHHHHHHHHhcCchhHHhhhCCCCCHHHH
Q 023677 94 ERLVLELHAKWGNRWSRIARKLPGRTDNEI 123 (279)
Q Consensus 94 D~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~ 123 (279)
|+.|..+....|..|..+|.+| |=|..+|
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 5778999999999999999999 6555544
No 64
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=55.77 E-value=13 Score=38.57 Aligned_cols=47 Identities=23% Similarity=0.373 Sum_probs=42.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHH
Q 023677 84 LKRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTH 130 (279)
Q Consensus 84 l~kg~WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~l 130 (279)
...++|+.+|=.+--....++|...+.|+..+|+|+..|||..+..-
T Consensus 407 ~~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~e 453 (584)
T KOG2009|consen 407 LETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKE 453 (584)
T ss_pred cccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhh
Confidence 34558999999999999999999999999999999999999987543
No 65
>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=55.66 E-value=28 Score=26.43 Aligned_cols=39 Identities=21% Similarity=0.366 Sum_probs=28.2
Q ss_pred HHHHHHHHHhc--------CchhHHhhhCCC---CC--HHHHHHHHHHHhhH
Q 023677 95 RLVLELHAKWG--------NRWSRIARKLPG---RT--DNEIKNYWRTHMRK 133 (279)
Q Consensus 95 ~~Ll~lv~~~G--------~~W~~Ia~~lpg---RT--~~q~knRw~~llr~ 133 (279)
-.|-.+|.+.| ..|..|++.|.- -+ ..++|+.|...|..
T Consensus 39 ~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 39 YKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 45777788887 369999998822 12 36899999887753
No 66
>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=54.83 E-value=17 Score=26.49 Aligned_cols=34 Identities=26% Similarity=0.506 Sum_probs=25.5
Q ss_pred chhHHhhhCCC-CCHHHHHHHHHHHhhHHHHhhhh
Q 023677 107 RWSRIARKLPG-RTDNEIKNYWRTHMRKKAQERKR 140 (279)
Q Consensus 107 ~W~~Ia~~lpg-RT~~q~knRw~~llr~~~~~~~~ 140 (279)
-|..|+..|.. -+..+|+.||+++-..-.+..+.
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~y~~~~~~ 62 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDRYRRELKK 62 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHHHHHHHHH
Confidence 49999999943 57889999999877764444433
No 67
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=54.73 E-value=13 Score=27.47 Aligned_cols=26 Identities=15% Similarity=0.086 Sum_probs=20.8
Q ss_pred cCHHHHHHHc-----CCCCHHHHHHHHHHhc
Q 023677 55 FNYMKYFVVG-----LNRTGKSCRLRWVNYL 80 (279)
Q Consensus 55 ~~W~~IA~~~-----~~Rt~~QCr~RW~n~L 80 (279)
.-|..|+..+ +.|+..|++..|.+..
T Consensus 39 ~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 39 KAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred HHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 4599999643 3799999999999854
No 68
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=53.33 E-value=6.6 Score=30.28 Aligned_cols=17 Identities=24% Similarity=0.509 Sum_probs=10.4
Q ss_pred CCCCCCCCCHHHHHHHH
Q 023677 82 PGLKRGKMTPQEERLVL 98 (279)
Q Consensus 82 P~l~kg~WT~eED~~Ll 98 (279)
|....|-||+++|..|.
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 66778899999999994
No 69
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=51.90 E-value=25 Score=29.93 Aligned_cols=44 Identities=16% Similarity=0.147 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHhcC-chhHHhhhCCCCCHHHHHHHHHHHhhHHH
Q 023677 91 PQEERLVLELHAKWGN-RWSRIARKLPGRTDNEIKNYWRTHMRKKA 135 (279)
Q Consensus 91 ~eED~~Ll~lv~~~G~-~W~~Ia~~lpgRT~~q~knRw~~llr~~~ 135 (279)
.+-|.+||.+.++-|. .|+.||+.+ |=+...|++|++.+.+...
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 4578999998888884 699999999 9999999999998888754
No 70
>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=51.07 E-value=22 Score=26.91 Aligned_cols=45 Identities=11% Similarity=0.077 Sum_probs=26.9
Q ss_pred cccCcccchHHHHHHHHHhhhhcCCc---------CHHHHHHHcC-----CCCHHHHHHHHHH
Q 023677 30 FEGGGRQYNRGRLFRRYTNFRRSNSF---------NYMKYFVVGL-----NRTGKSCRLRWVN 78 (279)
Q Consensus 30 wt~~ed~~~~~~llr~l~~~~~~g~~---------~W~~IA~~~~-----~Rt~~QCr~RW~n 78 (279)
|+.+.+.. ||.+++.....|.. .|..|+..+. ..+.+||..||..
T Consensus 2 Wt~~~~~~----ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~ 60 (96)
T PF12776_consen 2 WTPEMTRF----LLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKT 60 (96)
T ss_pred CChHHHHH----HHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHH
Confidence 66555554 45555444333322 4888886443 4478899988865
No 71
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=50.81 E-value=35 Score=26.21 Aligned_cols=40 Identities=18% Similarity=0.321 Sum_probs=29.9
Q ss_pred HHHHHHHHHhcC--------chhHHhhhCCC-----CCHHHHHHHHHHHhhHH
Q 023677 95 RLVLELHAKWGN--------RWSRIARKLPG-----RTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 95 ~~Ll~lv~~~G~--------~W~~Ia~~lpg-----RT~~q~knRw~~llr~~ 134 (279)
-.|..+|.+.|+ .|..|+..|.- ....++|..|...|..-
T Consensus 35 ~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~y 87 (93)
T smart00501 35 YRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPF 87 (93)
T ss_pred HHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHH
Confidence 457777888883 69999998822 24678999999888753
No 72
>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=48.90 E-value=20 Score=31.05 Aligned_cols=40 Identities=28% Similarity=0.263 Sum_probs=34.2
Q ss_pred CCCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHH
Q 023677 88 KMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWR 128 (279)
Q Consensus 88 ~WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~ 128 (279)
.||.|+.++|.+|-.+ |-.=++||..|.|.|-|.|.-+-+
T Consensus 2 ~Wtde~~~~L~~lw~~-G~SasqIA~~lg~vsRnAViGk~h 41 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GLSASQIARQLGGVSRNAVIGKAH 41 (162)
T ss_pred CCCHHHHHHHHHHHHc-CCCHHHHHHHhCCcchhhhhhhhh
Confidence 5999999999988855 888899999997799998887654
No 73
>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=47.06 E-value=27 Score=26.57 Aligned_cols=41 Identities=15% Similarity=0.206 Sum_probs=26.1
Q ss_pred HHHHHHhhhhcCC-------cCHHHHHHHcCCCC-----HHHHHHHHHHhcCC
Q 023677 42 LFRRYTNFRRSNS-------FNYMKYFVVGLNRT-----GKSCRLRWVNYLHP 82 (279)
Q Consensus 42 llr~l~~~~~~g~-------~~W~~IA~~~~~Rt-----~~QCr~RW~n~L~P 82 (279)
|++++..+...|+ ..|.+||..+.--. +.+.+.-|.++|.|
T Consensus 38 L~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 38 LYKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 5555555554443 46999999774322 36678888888753
No 74
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=46.96 E-value=32 Score=33.95 Aligned_cols=42 Identities=21% Similarity=0.253 Sum_probs=38.3
Q ss_pred CCCHHHHHHHHHHHHHhcCchhHHhh-hCCCCCHHHHHHHHHH
Q 023677 88 KMTPQEERLVLELHAKWGNRWSRIAR-KLPGRTDNEIKNYWRT 129 (279)
Q Consensus 88 ~WT~eED~~Ll~lv~~~G~~W~~Ia~-~lpgRT~~q~knRw~~ 129 (279)
.|+.+|=...-+-.+.||+.+..|.+ +++.|+-..|-..|..
T Consensus 279 ~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYl 321 (445)
T KOG4329|consen 279 GWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYL 321 (445)
T ss_pred cCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHH
Confidence 79999999999999999999999955 7999999999988753
No 75
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=46.85 E-value=44 Score=26.03 Aligned_cols=39 Identities=31% Similarity=0.316 Sum_probs=28.4
Q ss_pred HHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 94 ERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 94 D~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
+..++.++-..|..+..||+.+ |=+...|+++.+..+++
T Consensus 115 ~~~ii~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 115 EREVLVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred HHHHHhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3344444445678899999999 77899999988776554
No 76
>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=46.64 E-value=31 Score=26.60 Aligned_cols=31 Identities=23% Similarity=0.411 Sum_probs=25.2
Q ss_pred HHHHHHHHHHhcCchhHHhhhCCCCCHHHHHH
Q 023677 94 ERLVLELHAKWGNRWSRIARKLPGRTDNEIKN 125 (279)
Q Consensus 94 D~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~kn 125 (279)
|..|..+....|..|.++|..| |=+...|.+
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI~~ 34 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEINQ 34 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHHHH
Confidence 6788889999999999999999 666655443
No 77
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=45.88 E-value=47 Score=27.35 Aligned_cols=39 Identities=15% Similarity=0.140 Sum_probs=28.6
Q ss_pred HHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 95 RLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 95 ~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
..++.+....|-....||..| |-+...|+++....+++-
T Consensus 134 r~vl~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~L 172 (182)
T PRK09652 134 RTAITLREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREAL 172 (182)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 334444445677899999999 899999999877655543
No 78
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=44.26 E-value=42 Score=25.75 Aligned_cols=41 Identities=20% Similarity=0.213 Sum_probs=25.5
Q ss_pred HHHHHHhhhhcC-------CcCHHHHHHHcCCC-----CHHHHHHHHHHhcCC
Q 023677 42 LFRRYTNFRRSN-------SFNYMKYFVVGLNR-----TGKSCRLRWVNYLHP 82 (279)
Q Consensus 42 llr~l~~~~~~g-------~~~W~~IA~~~~~R-----t~~QCr~RW~n~L~P 82 (279)
|++++..+...| ...|.+||..+.-. ...+.+.-|.++|.|
T Consensus 34 L~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 34 LYRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 455555554443 25799999977543 245567777777654
No 79
>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=43.92 E-value=27 Score=26.47 Aligned_cols=30 Identities=23% Similarity=0.621 Sum_probs=23.9
Q ss_pred HHHHHHHHHHhcCchhHHhhhCCCCCHHHHH
Q 023677 94 ERLVLELHAKWGNRWSRIARKLPGRTDNEIK 124 (279)
Q Consensus 94 D~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~k 124 (279)
|..|..+....|..|.++|+.| |=+..+|.
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 5677888899999999999999 66655443
No 80
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=41.76 E-value=59 Score=27.89 Aligned_cols=39 Identities=21% Similarity=0.196 Sum_probs=28.7
Q ss_pred HHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 94 ERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 94 D~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
+..++.+.-..|-...+||..| |-+.+.|++|.....++
T Consensus 139 ~r~i~~l~~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~~ 177 (192)
T PRK09643 139 QRAALVAVDMQGYSVADAARML-GVAEGTVKSRCARGRAR 177 (192)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3444445555677899999999 99999999998654444
No 81
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=40.34 E-value=63 Score=27.05 Aligned_cols=38 Identities=16% Similarity=0.035 Sum_probs=27.2
Q ss_pred HHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 95 RLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 95 ~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
..++.+..-.|....+||..| |-|...|+++.....++
T Consensus 142 r~il~l~~~~~~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T PRK09641 142 RTVIVLKYIEDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred HHHhhhHHhhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333444444567789999999 99999999987655554
No 82
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=39.81 E-value=65 Score=26.43 Aligned_cols=34 Identities=24% Similarity=0.187 Sum_probs=25.7
Q ss_pred HHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 100 LHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 100 lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
+....|-....||..| |-|...|+++.....++-
T Consensus 136 l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~l 169 (179)
T PRK11924 136 LRYVEGLSYREIAEIL-GVPVGTVKSRLRRARQLL 169 (179)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3334566789999999 899999999887655543
No 83
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=39.67 E-value=77 Score=25.77 Aligned_cols=37 Identities=11% Similarity=0.030 Sum_probs=27.4
Q ss_pred HHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 97 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 97 Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
++.++...|-.-.+||..| |-+.+.|++|....+++-
T Consensus 114 v~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~L 150 (161)
T PRK09047 114 AFLLRYWEDMDVAETAAAM-GCSEGSVKTHCSRATHAL 150 (161)
T ss_pred HHHHHHHhcCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3344444566789999999 999999999987655543
No 84
>PRK04217 hypothetical protein; Provisional
Probab=39.35 E-value=1.3e+02 Score=24.44 Aligned_cols=45 Identities=18% Similarity=0.112 Sum_probs=36.6
Q ss_pred CCCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 88 KMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 88 ~WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
.-|.+| ..++.+....|-...+||+.+ |-+...|+++++...++-
T Consensus 42 ~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkkL 86 (110)
T PRK04217 42 FMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKKV 86 (110)
T ss_pred cCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 455655 677888888888999999999 999999999988665554
No 85
>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=39.29 E-value=43 Score=25.66 Aligned_cols=27 Identities=30% Similarity=0.580 Sum_probs=21.0
Q ss_pred HHHHHHHhcCchhHHhhhCCCCCHHHHH
Q 023677 97 VLELHAKWGNRWSRIARKLPGRTDNEIK 124 (279)
Q Consensus 97 Ll~lv~~~G~~W~~Ia~~lpgRT~~q~k 124 (279)
|..+....|..|.++|+.| |=++.+|.
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 3346688899999999999 77777663
No 86
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=38.73 E-value=54 Score=23.09 Aligned_cols=35 Identities=23% Similarity=0.500 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHH
Q 023677 92 QEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYW 127 (279)
Q Consensus 92 eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw 127 (279)
++|+..+.+..+.|-+-.+||+.+ ||+-+.|++.-
T Consensus 7 ~~Eqaqid~m~qlG~s~~~isr~i-~RSr~~Ir~yl 41 (50)
T PF11427_consen 7 DAEQAQIDVMHQLGMSLREISRRI-GRSRTCIRRYL 41 (50)
T ss_dssp HHHHHHHHHHHHTT--HHHHHHHH-T--HHHHHHHH
T ss_pred HHHHHHHHHHHHhchhHHHHHHHh-CccHHHHHHHh
Confidence 456667778888999999999999 99999888753
No 87
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=38.16 E-value=75 Score=24.49 Aligned_cols=42 Identities=19% Similarity=0.245 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHhcC-chhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 92 QEERLVLELHAKWGN-RWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 92 eED~~Ll~lv~~~G~-~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
+.|..|+.+.++.|. .++.|++.+ |-+...|++|.+.+.+..
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g 45 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEG 45 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCC
Confidence 568889999988874 699999999 999999999999888764
No 88
>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=37.94 E-value=45 Score=25.54 Aligned_cols=31 Identities=26% Similarity=0.502 Sum_probs=25.7
Q ss_pred HHHHHHHHHHhcCchhHHhhhCCCCCHHHHHH
Q 023677 94 ERLVLELHAKWGNRWSRIARKLPGRTDNEIKN 125 (279)
Q Consensus 94 D~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~kn 125 (279)
|..|..+....|..|..+|+.| |=++..|.+
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 5677888899999999999999 777776655
No 89
>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=37.75 E-value=43 Score=25.85 Aligned_cols=30 Identities=40% Similarity=0.689 Sum_probs=24.2
Q ss_pred HHHHHHHHHhcCchhHHhhhCCCCCHHHHHH
Q 023677 95 RLVLELHAKWGNRWSRIARKLPGRTDNEIKN 125 (279)
Q Consensus 95 ~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~kn 125 (279)
+.|-.+....|..|..+|+.| |=++.+|.+
T Consensus 3 ~~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 3 KHLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 445566688899999999999 888877766
No 90
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=37.65 E-value=1.6e+02 Score=26.21 Aligned_cols=44 Identities=25% Similarity=0.268 Sum_probs=34.8
Q ss_pred CCCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 88 KMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 88 ~WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
..|+.|-+. ++++.+ |..-.+||+.| +-+...+|++-..+++|-
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 478755555 555555 98899999999 899999999988888774
No 91
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=36.83 E-value=96 Score=26.07 Aligned_cols=39 Identities=15% Similarity=0.124 Sum_probs=27.9
Q ss_pred HHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 95 RLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 95 ~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
..++.+....|-...+||..| |-+.+.|+++....+++-
T Consensus 137 r~v~~l~~~~g~s~~eIA~~l-~is~~tV~~~l~ra~~~L 175 (184)
T PRK12512 137 RDVVQSISVEGASIKETAAKL-SMSEGAVRVALHRGLAAL 175 (184)
T ss_pred HHHHHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 333444444566789999999 999999999987666554
No 92
>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=36.42 E-value=97 Score=20.59 Aligned_cols=33 Identities=9% Similarity=-0.011 Sum_probs=23.5
Q ss_pred HHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHH
Q 023677 45 RYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVN 78 (279)
Q Consensus 45 ~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n 78 (279)
.+...+..+...+.+||+.+ |=+...|..|+..
T Consensus 8 Il~~Lq~d~r~s~~~la~~l-glS~~~v~~Ri~r 40 (42)
T PF13404_consen 8 ILRLLQEDGRRSYAELAEEL-GLSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHH-TTS-HHHHHHHH-TS-HHHHHHHHHH
T ss_pred HHHHHHHcCCccHHHHHHHH-CcCHHHHHHHHHH
Confidence 34444555789999999988 7799999999865
No 93
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=36.00 E-value=87 Score=25.98 Aligned_cols=37 Identities=24% Similarity=0.221 Sum_probs=27.0
Q ss_pred HHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 97 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 97 Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
++.+..-.|-.-.+||..| |.+.+.|+.|....+++-
T Consensus 126 vl~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~L 162 (173)
T PRK09645 126 VLVRSYYRGWSTAQIAADL-GIPEGTVKSRLHYALRAL 162 (173)
T ss_pred HHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 3344444566779999999 999999999987655543
No 94
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoE. This protein may be called sigma-24, sigma-E factor, sigma-H factor, fecI-like sigma factor or alternative sigma factor AlgU.
Probab=35.26 E-value=65 Score=27.01 Aligned_cols=31 Identities=13% Similarity=0.038 Sum_probs=23.9
Q ss_pred HhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 103 KWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 103 ~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
..|-...+||..| |=|.+.|+++....+++-
T Consensus 152 ~~~~s~~EIA~~l-gis~~tv~~~l~rar~~L 182 (190)
T TIGR02939 152 LEGLSYEDIARIM-DCPVGTVRSRIFRAREAI 182 (190)
T ss_pred hcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 3455689999999 888999999877665553
No 95
>PRK01905 DNA-binding protein Fis; Provisional
Probab=34.80 E-value=1.3e+02 Score=22.47 Aligned_cols=58 Identities=19% Similarity=0.152 Sum_probs=36.7
Q ss_pred CHHHH-HHHHHHhcCCCCCCC---CC----CHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHH
Q 023677 68 TGKSC-RLRWVNYLHPGLKRG---KM----TPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNY 126 (279)
Q Consensus 68 t~~QC-r~RW~n~L~P~l~kg---~W----T~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knR 126 (279)
+-.|| +++-.++|..-+..+ .| ..-|...|.+++...|.+.++.|+.+ |=+...++.+
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~E~~~i~~aL~~~~gn~s~aAr~L-GIsrstL~rk 70 (77)
T PRK01905 5 NIEQCIRDSLDQYFRDLDGSNPHDVYDMVLSCVEKPLLEVVMEQAGGNQSLAAEYL-GINRNTLRKK 70 (77)
T ss_pred cHHHHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHH
Confidence 44455 555555555433322 22 34477788999999999999999988 5455444443
No 96
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=34.35 E-value=91 Score=26.80 Aligned_cols=39 Identities=26% Similarity=0.314 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhh
Q 023677 93 EERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMR 132 (279)
Q Consensus 93 ED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr 132 (279)
+...++++..--|-.+.+||..| |-+...|+++|...-.
T Consensus 139 ~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR~ 177 (185)
T PF07638_consen 139 RQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRARA 177 (185)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 44555556556777899999999 9999999999986643
No 97
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=34.33 E-value=95 Score=26.55 Aligned_cols=37 Identities=16% Similarity=0.043 Sum_probs=26.3
Q ss_pred HHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 97 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 97 Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
++.+.-..|-...+||..| |-+.+.|++|....+++-
T Consensus 149 v~~l~~~eg~s~~EIA~~l-gis~~tVk~rl~ra~~~L 185 (194)
T PRK12531 149 VLQAVYLEELPHQQVAEMF-DIPLGTVKSRLRLAVEKL 185 (194)
T ss_pred HHHHHHHcCCCHHHHHHHh-CcCHHHHHHHHHHHHHHH
Confidence 3333344466788999999 999999999876555543
No 98
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=34.12 E-value=91 Score=25.80 Aligned_cols=37 Identities=16% Similarity=0.267 Sum_probs=26.1
Q ss_pred HHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 97 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 97 Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
++.++-..|-+..+||..| |-|...|+++....+++-
T Consensus 127 i~~l~~~~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~L 163 (169)
T TIGR02954 127 AIILRYYHDLTIKEIAEVM-NKPEGTVKTYLHRALKKL 163 (169)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3334444556788899988 889999999877655543
No 99
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=34.11 E-value=1e+02 Score=19.45 Aligned_cols=39 Identities=23% Similarity=0.319 Sum_probs=26.7
Q ss_pred CCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHH
Q 023677 89 MTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRT 129 (279)
Q Consensus 89 WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~ 129 (279)
.+++ +..++.++-.-|-....||..+ |=+...|+.+.+.
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~ 49 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHR 49 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHH
Confidence 3444 4555566656777899999998 7777777665544
No 100
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=34.11 E-value=92 Score=24.61 Aligned_cols=50 Identities=14% Similarity=0.183 Sum_probs=32.9
Q ss_pred CCCCHHHHHHHHHHHHHh----cC----chhH----HhhhCCC-CCHHHHHHHHHHHhhHHHH
Q 023677 87 GKMTPQEERLVLELHAKW----GN----RWSR----IARKLPG-RTDNEIKNYWRTHMRKKAQ 136 (279)
Q Consensus 87 g~WT~eED~~Ll~lv~~~----G~----~W~~----Ia~~lpg-RT~~q~knRw~~llr~~~~ 136 (279)
.-||+++|..||+.+..| |. .+.. |...|.- =|.+|+.++-+.|-++-..
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~ 67 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRN 67 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHH
Confidence 459999999999998766 62 3433 3333322 3677888877766665433
No 101
>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=33.93 E-value=96 Score=26.54 Aligned_cols=38 Identities=11% Similarity=0.028 Sum_probs=28.3
Q ss_pred HHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 96 LVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 96 ~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
.++.++-..|-...+||..| |-+.+.|+.|....+++-
T Consensus 138 ~v~~l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~L 175 (188)
T TIGR02943 138 RVFMMREVLGFESDEICQEL-EISTSNCHVLLYRARLSL 175 (188)
T ss_pred HHHHHHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 34445455567789999999 999999999977665543
No 102
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=33.83 E-value=1e+02 Score=25.12 Aligned_cols=38 Identities=13% Similarity=-0.042 Sum_probs=27.1
Q ss_pred HHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 95 RLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 95 ~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
..++.+.-..|-.-.+||..| |-+.+.|++|.....++
T Consensus 112 r~v~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (160)
T PRK09642 112 RDVVLAHYLEEKSYQEIALQE-KIEVKTVEMKLYRARKW 149 (160)
T ss_pred HHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334444445566789999999 99999999997654443
No 103
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=33.60 E-value=83 Score=26.25 Aligned_cols=40 Identities=20% Similarity=0.302 Sum_probs=30.4
Q ss_pred HHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 94 ERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 94 D~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
+..++.+....|-...+||..| |-+.+.|+++-..-+++-
T Consensus 124 ~r~v~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~ 163 (172)
T PRK12523 124 ARAAFLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQC 163 (172)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 4445555555677899999999 999999999977666654
No 104
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=33.42 E-value=86 Score=26.20 Aligned_cols=29 Identities=10% Similarity=-0.047 Sum_probs=22.6
Q ss_pred hcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 104 WGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 104 ~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
.|-...+||..| |-+.+.|+++.....++
T Consensus 151 ~g~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T TIGR02948 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 456688999999 88999999987655544
No 105
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=33.26 E-value=1e+02 Score=26.01 Aligned_cols=38 Identities=16% Similarity=0.094 Sum_probs=29.4
Q ss_pred HHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHHHH
Q 023677 98 LELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKKAQ 136 (279)
Q Consensus 98 l~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~~~ 136 (279)
+.++...|-...+||..| |-+.+.|+.|....+++-..
T Consensus 136 ~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~ 173 (178)
T PRK12529 136 FLMATLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLS 173 (178)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 444445567899999999 99999999998877666543
No 106
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=33.15 E-value=1.3e+02 Score=24.51 Aligned_cols=40 Identities=20% Similarity=0.140 Sum_probs=28.8
Q ss_pred HHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 94 ERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 94 D~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
+..++.+....|-.-.+||..| |-+...|++|....+++-
T Consensus 110 ~r~v~~l~~~~~~s~~eIA~~l-gis~~tv~~~l~ra~~~L 149 (159)
T PRK12527 110 CRDSFLLRKLEGLSHQQIAEHL-GISRSLVEKHIVNAMKHC 149 (159)
T ss_pred HHHHHHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 3444444445556778999999 999999999987665553
No 107
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=32.54 E-value=98 Score=26.50 Aligned_cols=46 Identities=20% Similarity=0.277 Sum_probs=38.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhcCchhHHhhhC----CCCCHHHHHHHHHHH
Q 023677 85 KRGKMTPQEERLVLELHAKWGNRWSRIARKL----PGRTDNEIKNYWRTH 130 (279)
Q Consensus 85 ~kg~WT~eED~~Ll~lv~~~G~~W~~Ia~~l----pgRT~~q~knRw~~l 130 (279)
....-|..|...|..|+.+||..+..++.-. --.|..||+.+.+..
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 4557899999999999999999999998743 238999999887654
No 108
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=32.46 E-value=1.1e+02 Score=25.95 Aligned_cols=37 Identities=16% Similarity=0.169 Sum_probs=26.5
Q ss_pred HHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 97 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 97 Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
++.++-..|....+||..| |=+.+.|+.+....+++-
T Consensus 147 i~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~L 183 (189)
T PRK09648 147 ILILRVVVGLSAEETAEAV-GSTPGAVRVAQHRALARL 183 (189)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3334444566789999999 888999999876555543
No 109
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=32.23 E-value=79 Score=27.96 Aligned_cols=44 Identities=25% Similarity=0.300 Sum_probs=36.2
Q ss_pred CCCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 88 KMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 88 ~WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
..|+.|-+.|.-+.+ |-.=.+||..| +.+..-||+|..++++|-
T Consensus 148 ~LT~RE~eVL~lla~--G~snkeIA~~L-~iS~~TVk~h~~~i~~KL 191 (211)
T COG2197 148 LLTPRELEVLRLLAE--GLSNKEIAEEL-NLSEKTVKTHVSNILRKL 191 (211)
T ss_pred CCCHHHHHHHHHHHC--CCCHHHHHHHH-CCCHhHHHHHHHHHHHHc
Confidence 688888777655543 66668999999 999999999999999984
No 110
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=31.96 E-value=1e+02 Score=26.30 Aligned_cols=39 Identities=26% Similarity=0.098 Sum_probs=28.2
Q ss_pred HHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 94 ERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 94 D~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
+..++.+.-..|-...+||..| |-+...|++|.....++
T Consensus 111 ~r~i~~l~~~~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 111 YAEALRLTELEGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred HHHHHHHHHhcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3344444445667789999999 99999999997755554
No 111
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=31.64 E-value=1e+02 Score=26.26 Aligned_cols=36 Identities=6% Similarity=0.006 Sum_probs=26.3
Q ss_pred HHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 97 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 97 Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
++.+..-.|-...+||..| |-+.+.|+.|.....++
T Consensus 142 v~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~RAr~~ 177 (189)
T PRK12530 142 VFMMREYLELSSEQICQEC-DISTSNLHVLLYRARLQ 177 (189)
T ss_pred HHhHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3333334566789999999 99999999997655443
No 112
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=31.16 E-value=1.1e+02 Score=25.61 Aligned_cols=30 Identities=17% Similarity=0.258 Sum_probs=23.3
Q ss_pred HhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 103 KWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 103 ~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
..|-.-.+||..| |.+...|+++....+++
T Consensus 143 ~~g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 172 (179)
T PRK12514 143 LEGLSYKELAERH-DVPLNTMRTWLRRSLLK 172 (179)
T ss_pred HcCCCHHHHHHHH-CCChHHHHHHHHHHHHH
Confidence 3456789999999 99999999987655444
No 113
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=30.01 E-value=3.4e+02 Score=27.10 Aligned_cols=56 Identities=25% Similarity=0.254 Sum_probs=43.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHhcC----------------chhHHhhhC-----CCCCHHHHHHHHHHHhhHHHHhhh
Q 023677 84 LKRGKMTPQEERLVLELHAKWGN----------------RWSRIARKL-----PGRTDNEIKNYWRTHMRKKAQERK 139 (279)
Q Consensus 84 l~kg~WT~eED~~Ll~lv~~~G~----------------~W~~Ia~~l-----pgRT~~q~knRw~~llr~~~~~~~ 139 (279)
.--|.|+++=|+-..++...|-. +=..||+++ ..||..||..|-+.+-|++.++-+
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~reiq 150 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLREIQ 150 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHH
Confidence 34578999999999999887652 357788876 348889999998888888765543
No 114
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=29.61 E-value=1.1e+02 Score=25.87 Aligned_cols=31 Identities=10% Similarity=-0.045 Sum_probs=23.5
Q ss_pred HhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 103 KWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 103 ~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
-.|-...+||..| |-|.+.|++|.....++-
T Consensus 152 ~~g~s~~eIA~~l-gis~~tv~~~l~Rar~~L 182 (193)
T PRK11923 152 FDGLSYEDIASVM-QCPVGTVRSRIFRAREAI 182 (193)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3455678899998 888999999877655553
No 115
>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=29.51 E-value=1.3e+02 Score=24.68 Aligned_cols=29 Identities=24% Similarity=0.295 Sum_probs=21.8
Q ss_pred hcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 104 WGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 104 ~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
.|-+-.+||..| |-+...|+++-....++
T Consensus 137 ~g~s~~eIA~~l-~is~~tv~~~l~ra~~~ 165 (170)
T TIGR02952 137 QNLPIAEVARIL-GKTEGAVKILQFRAIKK 165 (170)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 455678899988 88888898886655444
No 116
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=28.92 E-value=1.5e+02 Score=23.27 Aligned_cols=47 Identities=26% Similarity=0.403 Sum_probs=36.3
Q ss_pred CCCCCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 86 RGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 86 kg~WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
+..||.|.-..+++++.+-|..=+.||+.+ |-.......+|...++.
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l~~W~~~~~~ 51 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQLYKWRIQLQK 51 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHHHHHHHHHHH
Confidence 567999999999999999999889999999 76333344556555543
No 117
>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=28.80 E-value=72 Score=24.68 Aligned_cols=22 Identities=27% Similarity=0.543 Sum_probs=19.8
Q ss_pred HHHHHHHHHHhcCchhHHhhhC
Q 023677 94 ERLVLELHAKWGNRWSRIARKL 115 (279)
Q Consensus 94 D~~Ll~lv~~~G~~W~~Ia~~l 115 (279)
|..|.......|..|.++|+.|
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L 25 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL 25 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc
Confidence 5678888999999999999988
No 118
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=28.58 E-value=1.2e+02 Score=24.38 Aligned_cols=29 Identities=21% Similarity=0.254 Sum_probs=21.3
Q ss_pred hcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 104 WGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 104 ~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
.|-...+||..| |-+...|+++-...+++
T Consensus 121 ~~~s~~EIA~~l-~is~~tV~~~~~ra~~~ 149 (154)
T PRK06759 121 VGKTMGEIALET-EMTYYQVRWIYRQALEK 149 (154)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 445678888888 88888888886655444
No 119
>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=28.50 E-value=73 Score=23.63 Aligned_cols=29 Identities=31% Similarity=0.598 Sum_probs=21.3
Q ss_pred HHHHHHHHHH-hcCchhHHhhhCCCCCHHHH
Q 023677 94 ERLVLELHAK-WGNRWSRIARKLPGRTDNEI 123 (279)
Q Consensus 94 D~~Ll~lv~~-~G~~W~~Ia~~lpgRT~~q~ 123 (279)
+..|..++.. .|..|..+|+.| |=++.+|
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 4566666767 899999999999 4455544
No 120
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=28.41 E-value=1e+02 Score=25.70 Aligned_cols=43 Identities=7% Similarity=-0.029 Sum_probs=33.8
Q ss_pred HHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhcCCCCCC
Q 023677 43 FRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYLHPGLKR 86 (279)
Q Consensus 43 lr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L~P~l~k 86 (279)
++.+...+.++...|.+||+.+ |-+...|+.|+.+-.+-++-+
T Consensus 12 ~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 12 RGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred HHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 3444555566789999999988 889999999999877766544
No 121
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=28.16 E-value=1.4e+02 Score=25.25 Aligned_cols=34 Identities=12% Similarity=0.065 Sum_probs=25.5
Q ss_pred HHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 100 LHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 100 lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
+....|-...+||..| |-|...|+++.....++-
T Consensus 142 l~~~~~~s~~eIA~~l-gis~~tV~~~l~Rar~~L 175 (189)
T PRK12515 142 LVYYHEKSVEEVGEIV-GIPESTVKTRMFYARKKL 175 (189)
T ss_pred HHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 3334556789999999 889999999987655543
No 122
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=27.85 E-value=1.4e+02 Score=25.10 Aligned_cols=37 Identities=11% Similarity=0.006 Sum_probs=27.4
Q ss_pred HHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 97 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 97 Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
++.++...|-+..+||..| |-+...|+++-...+++-
T Consensus 137 v~~l~~~~g~s~~EIA~~l-~is~~tV~~~l~rar~~L 173 (181)
T PRK12536 137 PIVHVKLEGLSVAETAQLT-GLSESAVKVGIHRGLKAL 173 (181)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3344445566789999999 999999999976655543
No 123
>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=27.80 E-value=76 Score=24.37 Aligned_cols=32 Identities=25% Similarity=0.375 Sum_probs=23.7
Q ss_pred HHHHHHHHHhcCchhHHhhhCCCCCHH---HHHHHH
Q 023677 95 RLVLELHAKWGNRWSRIARKLPGRTDN---EIKNYW 127 (279)
Q Consensus 95 ~~Ll~lv~~~G~~W~~Ia~~lpgRT~~---q~knRw 127 (279)
..|..+..+.|..|..++++| |=++. .|+.+|
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 468889999999999999998 43333 444444
No 124
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=27.62 E-value=1.2e+02 Score=25.71 Aligned_cols=32 Identities=13% Similarity=0.024 Sum_probs=24.6
Q ss_pred HHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 102 AKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 102 ~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
.-.|-...+||..| |-+.+.|++|....+++-
T Consensus 143 ~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~L 174 (185)
T PRK09649 143 QLLGLSYADAAAVC-GCPVGTIRSRVARARDAL 174 (185)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 34455689999999 999999999976655543
No 125
>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=27.61 E-value=1.4e+02 Score=24.34 Aligned_cols=41 Identities=17% Similarity=0.157 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 93 EERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 93 ED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
++..++.+.-..|-+-.+||..| |-+...|+++....+++-
T Consensus 114 ~~r~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~L 154 (162)
T TIGR02983 114 RQRAVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALARL 154 (162)
T ss_pred HHHHHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 44455555555667788999999 899999999877665553
No 126
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=27.54 E-value=1.2e+02 Score=25.38 Aligned_cols=38 Identities=26% Similarity=0.265 Sum_probs=27.8
Q ss_pred HHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 96 LVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 96 ~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
.++.+....|-+..+||..| |-+.+.|++|....+++-
T Consensus 126 ~i~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~~ 163 (172)
T PRK09651 126 EAFLLSQLDGLTYSEIAHKL-GVSVSSVKKYVAKATEHC 163 (172)
T ss_pred HHhhhhhccCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 33344444556789999999 999999999987666553
No 127
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=27.51 E-value=1.2e+02 Score=25.67 Aligned_cols=43 Identities=7% Similarity=0.061 Sum_probs=34.4
Q ss_pred HHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhcCCCCCC
Q 023677 43 FRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYLHPGLKR 86 (279)
Q Consensus 43 lr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L~P~l~k 86 (279)
++.+...+.++...|.+||+.+ |=+...|+.|+.+-.+-++-+
T Consensus 17 ~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 17 RNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCeE
Confidence 4455566677889999999988 889999999999987766544
No 128
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=27.44 E-value=1.8e+02 Score=24.84 Aligned_cols=40 Identities=18% Similarity=0.122 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 94 ERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 94 D~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
+..++.|....|-...+||..| |-+.+.|++|-...+++-
T Consensus 121 ~r~i~~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~~L 160 (187)
T PRK12516 121 QREAIILVGASGFAYEEAAEIC-GCAVGTIKSRVNRARQRL 160 (187)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3444455555667889999999 999999999976555543
No 129
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=27.37 E-value=1.5e+02 Score=24.92 Aligned_cols=30 Identities=20% Similarity=0.174 Sum_probs=22.9
Q ss_pred hcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 104 WGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 104 ~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
.|-+-.+||..| |-|.+.|+++.+..+++-
T Consensus 150 ~~~s~~eIA~~l-gis~~~V~~~l~ra~~~L 179 (186)
T PRK13919 150 QGYTHREAAQLL-GLPLGTLKTRARRALSRL 179 (186)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 345678899999 899999999877655543
No 130
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=26.67 E-value=1.4e+02 Score=25.37 Aligned_cols=36 Identities=14% Similarity=0.141 Sum_probs=26.1
Q ss_pred HHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 97 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 97 Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
++.+....|-.-.+||..| |-+.+.|++|....+++
T Consensus 144 i~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 179 (195)
T PRK12532 144 VFTLKEILGFSSDEIQQMC-GISTSNYHTIMHRARES 179 (195)
T ss_pred HhhhHHHhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334444566789999999 99999999987654443
No 131
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=26.63 E-value=1.3e+02 Score=24.59 Aligned_cols=38 Identities=21% Similarity=0.262 Sum_probs=27.8
Q ss_pred HHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 95 RLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 95 ~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
..++.+.--.|-...+||..| |-+.+.|++|....+++
T Consensus 119 r~v~~L~~~~g~s~~EIA~~l-~is~~tV~~~l~ra~~~ 156 (161)
T PRK12528 119 KRAFLLAQVDGLGYGEIATEL-GISLATVKRYLNKAAMR 156 (161)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334444455667789999999 89999999987766554
No 132
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=26.50 E-value=1.5e+02 Score=25.65 Aligned_cols=30 Identities=13% Similarity=-0.014 Sum_probs=23.2
Q ss_pred HhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 103 KWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 103 ~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
..|-.-.+||..| |.+...||+|.....++
T Consensus 153 ~eg~s~~EIA~~l-gis~~tVk~~l~RAr~~ 182 (201)
T PRK12545 153 FLDFEIDDICTEL-TLTANHCSVLLYRARTR 182 (201)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3455789999999 99999999997644443
No 133
>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=26.16 E-value=1.6e+02 Score=24.48 Aligned_cols=34 Identities=26% Similarity=0.241 Sum_probs=25.3
Q ss_pred HHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 99 ELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 99 ~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
.+....|-...+||..| |-+...|++|.....++
T Consensus 144 ~l~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 177 (183)
T TIGR02999 144 ELRFFAGLTVEEIAELL-GVSVRTVERDWRFARAW 177 (183)
T ss_pred HHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 33344556789999999 99999999997755544
No 134
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=26.05 E-value=1.4e+02 Score=25.05 Aligned_cols=36 Identities=11% Similarity=0.008 Sum_probs=24.6
Q ss_pred HHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 98 LELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 98 l~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
+.+.--.|-...+||..| |-+.+.|+++....+++-
T Consensus 137 ~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~L 172 (186)
T PRK05602 137 IVLQYYQGLSNIEAAAVM-DISVDALESLLARGRRAL 172 (186)
T ss_pred hhHHHhcCCCHHHHHHHh-CcCHHHHHHHHHHHHHHH
Confidence 333334556678888888 888888888876555543
No 135
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=25.76 E-value=1.7e+02 Score=24.12 Aligned_cols=36 Identities=17% Similarity=0.092 Sum_probs=25.9
Q ss_pred HHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 97 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 97 Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
++.++...|-.-.+||..| |-+...|++|-....++
T Consensus 120 v~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 155 (164)
T PRK12547 120 AIILIGASGFSYEDAAAIC-GCAVGTIKSRVSRARNR 155 (164)
T ss_pred HHHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3444444556789999999 88999999987655554
No 136
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=25.74 E-value=1.5e+02 Score=25.16 Aligned_cols=30 Identities=33% Similarity=0.426 Sum_probs=22.1
Q ss_pred HhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 103 KWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 103 ~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
.-|-.-.+||..| |-|...|++|-....++
T Consensus 145 ~~g~s~~EIAe~l-gis~~~V~~~l~Ra~~~ 174 (189)
T PRK06811 145 LLGEKIEEIAKKL-GLTRSAIDNRLSRGRKK 174 (189)
T ss_pred HccCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3455678899999 99999999986554443
No 137
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=25.51 E-value=1.5e+02 Score=27.22 Aligned_cols=32 Identities=19% Similarity=0.305 Sum_probs=24.7
Q ss_pred HHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 102 AKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 102 ~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
..+|-.-.+||..| |.|...|+++.....++-
T Consensus 128 ~~~g~s~~EIA~~l-g~s~~tVk~~l~RAr~~L 159 (293)
T PRK09636 128 DVFGVPFDEIASTL-GRSPAACRQLASRARKHV 159 (293)
T ss_pred HHhCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 34566789999999 999999999876554443
No 138
>PRK00118 putative DNA-binding protein; Validated
Probab=25.50 E-value=1.8e+02 Score=23.44 Aligned_cols=42 Identities=12% Similarity=0.111 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 91 PQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 91 ~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
++.+..++.++...|-...+||..+ |-|.+.|+++-....++
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RArkk 60 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRTEKL 60 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 4566777788888899999999999 99999998886654443
No 139
>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=25.18 E-value=1.3e+02 Score=27.74 Aligned_cols=32 Identities=16% Similarity=0.137 Sum_probs=24.6
Q ss_pred HHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 102 AKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 102 ~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
...|-.-.+||..| |.+.+.|++|....+++-
T Consensus 155 ~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~L 186 (324)
T TIGR02960 155 DVLGWRAAETAELL-GTSTASVNSALQRARATL 186 (324)
T ss_pred HHhCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 34556789999999 999999999976555543
No 140
>PF01466 Skp1: Skp1 family, dimerisation domain; InterPro: IPR016072 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a dimerisation domain found at the C-terminal of SKP1 proteins [], as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. This domain is multi-helical in structure, and consists of an interlocked herterodimer in F-box proteins.; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 2P1O_A 3OGL_G 3OGM_A 3C6O_A 2P1N_A 2P1Q_A 3OGK_I 3C6N_A 3C6P_A 2P1P_A ....
Probab=25.17 E-value=1.6e+02 Score=21.95 Aligned_cols=35 Identities=14% Similarity=0.149 Sum_probs=25.7
Q ss_pred HHHHHHHcCCCCHHHHHHHHHHhcCCCCCCCCCCHHHHHHHH
Q 023677 57 YMKYFVVGLNRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVL 98 (279)
Q Consensus 57 W~~IA~~~~~Rt~~QCr~RW~n~L~P~l~kg~WT~eED~~Ll 98 (279)
-..||..+.|+|+.+.|..+. +. ..+|++|+..|.
T Consensus 36 ~~~iA~~i~gks~eeir~~fg------i~-~d~t~eee~~i~ 70 (78)
T PF01466_consen 36 CKYIANMIKGKSPEEIRKYFG------IE-NDLTPEEEEEIR 70 (78)
T ss_dssp HHHHHHHHTTS-HHHHHHHHT----------TSSHHHHHHHH
T ss_pred HHHHHHHhcCCCHHHHHHHcC------CC-CCCCHHHHHHHH
Confidence 456899999999999999882 33 369999988754
No 141
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=24.96 E-value=1.6e+02 Score=24.87 Aligned_cols=31 Identities=10% Similarity=-0.125 Sum_probs=24.0
Q ss_pred HhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 103 KWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 103 ~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
-.|-.-.+||..| |-+.+.|++|....+++-
T Consensus 145 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~L 175 (191)
T PRK12520 145 WLELETEEICQEL-QITATNAWVLLYRARMRL 175 (191)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3455678999999 999999999977555543
No 142
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=24.59 E-value=1.7e+02 Score=24.98 Aligned_cols=37 Identities=14% Similarity=0.002 Sum_probs=26.7
Q ss_pred HHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 97 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 97 Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
++.++...|-.+.+||..| |=+.+.|+++-...+++-
T Consensus 144 i~~L~~~~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~L 180 (196)
T PRK12524 144 AVVLRHIEGLSNPEIAEVM-EIGVEAVESLTARGKRAL 180 (196)
T ss_pred HHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 4444445566799999999 888899998876555543
No 143
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=24.58 E-value=1.7e+02 Score=24.70 Aligned_cols=35 Identities=9% Similarity=0.327 Sum_probs=25.7
Q ss_pred HHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 98 LELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 98 l~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
+.+.-..|-+-.+||..| |-+...|++|.....++
T Consensus 131 ~~l~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 165 (185)
T PRK12542 131 FKYKVFYNLTYQEISSVM-GITEANVRKQFERARKR 165 (185)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333344566789999999 99999999987655444
No 144
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=24.40 E-value=3e+02 Score=29.79 Aligned_cols=25 Identities=12% Similarity=0.073 Sum_probs=21.8
Q ss_pred CCcCHHHHHHHcCCCCHHHHHHHHH
Q 023677 53 NSFNYMKYFVVGLNRTGKSCRLRWV 77 (279)
Q Consensus 53 g~~~W~~IA~~~~~Rt~~QCr~RW~ 77 (279)
..++...|++.+++.|-+||-+-|.
T Consensus 637 ~~KDF~~v~km~~~KtVaqCVeyYY 661 (907)
T KOG4167|consen 637 YSKDFIFVQKMVKSKTVAQCVEYYY 661 (907)
T ss_pred hcccHHHHHHHhccccHHHHHHHHH
Confidence 3578999999999999999988764
No 145
>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=24.26 E-value=82 Score=23.89 Aligned_cols=33 Identities=30% Similarity=0.527 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHH
Q 023677 91 PQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKN 125 (279)
Q Consensus 91 ~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~kn 125 (279)
.||-++||.. ...|..|...|..| |=++..|++
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 5677777732 35788999999999 877877766
No 146
>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=24.15 E-value=1.7e+02 Score=24.34 Aligned_cols=38 Identities=18% Similarity=0.427 Sum_probs=26.8
Q ss_pred HHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 95 RLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 95 ~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
..++.++--.|-...+||..| |-|.+.|+++....+++
T Consensus 146 r~vi~l~~~~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~ 183 (189)
T TIGR02984 146 REVILLRHLEGLSFAEVAERM-DRSEGAVSMLWVRGLAR 183 (189)
T ss_pred HHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 334444444566788899988 89999999887655554
No 147
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=23.67 E-value=2e+02 Score=24.51 Aligned_cols=30 Identities=17% Similarity=0.218 Sum_probs=22.1
Q ss_pred HhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 103 KWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 103 ~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
..|-...+||..| |-+...|++|-...+++
T Consensus 156 ~~~~s~~EIA~~L-gis~~tVk~~l~ra~~~ 185 (194)
T PRK09646 156 YGGLTYREVAERL-AVPLGTVKTRMRDGLIR 185 (194)
T ss_pred HcCCCHHHHHHHh-CCChHhHHHHHHHHHHH
Confidence 4455678999999 77999998886554444
No 148
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=23.06 E-value=1.6e+02 Score=23.97 Aligned_cols=44 Identities=11% Similarity=0.142 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHhcC-chhHHhhhCCCCCHHHHHHHHHHHhhHHHH
Q 023677 92 QEERLVLELHAKWGN-RWSRIARKLPGRTDNEIKNYWRTHMRKKAQ 136 (279)
Q Consensus 92 eED~~Ll~lv~~~G~-~W~~Ia~~lpgRT~~q~knRw~~llr~~~~ 136 (279)
+-|.+||++.++-|. .+..||+.+ |-+...|++|=+.+.+...-
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI 52 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVI 52 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCce
Confidence 568888888888774 599999999 99999999999888876543
No 149
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=22.83 E-value=1.9e+02 Score=29.66 Aligned_cols=76 Identities=20% Similarity=0.212 Sum_probs=53.9
Q ss_pred HHHHHhhhhcCCcCHHHHHHHcCCCCHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCchhHHhh-hCCCCCHH
Q 023677 43 FRRYTNFRRSNSFNYMKYFVVGLNRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAKWGNRWSRIAR-KLPGRTDN 121 (279)
Q Consensus 43 lr~l~~~~~~g~~~W~~IA~~~~~Rt~~QCr~RW~n~L~P~l~kg~WT~eED~~Ll~lv~~~G~~W~~Ia~-~lpgRT~~ 121 (279)
+-.+...++.+---=..|+..+|-=-+.-||+.- ..|+..|-.+.-++..+||..+..|.. +||-.+-.
T Consensus 252 FHAmdtLhr~~YDl~~Ais~LVPlGGPvLCRDem----------EEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~ 321 (693)
T KOG3554|consen 252 FHAMDTLHRNNYDLSKAISYLVPLGGPVLCRDEM----------EEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLT 321 (693)
T ss_pred hhHHHHHHHccccHHHHHHHhhcCCCceeehhhh----------hhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHH
Confidence 3334444444322224466677766666677654 369999999999999999999999965 67998888
Q ss_pred HHHHHHH
Q 023677 122 EIKNYWR 128 (279)
Q Consensus 122 q~knRw~ 128 (279)
.|-..|.
T Consensus 322 sIveyYY 328 (693)
T KOG3554|consen 322 SIVEYYY 328 (693)
T ss_pred HHHHHHH
Confidence 8877654
No 150
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=22.63 E-value=1.9e+02 Score=24.38 Aligned_cols=35 Identities=17% Similarity=0.205 Sum_probs=25.2
Q ss_pred HHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 99 ELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 99 ~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
.+....|-.-.+||..| |-|.+.|+++....+++-
T Consensus 143 ~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~L 177 (182)
T PRK12537 143 LHAYVDGCSHAEIAQRL-GAPLGTVKAWIKRSLKAL 177 (182)
T ss_pred HHHHHcCCCHHHHHHHH-CCChhhHHHHHHHHHHHH
Confidence 33334555678899988 889999999887666543
No 151
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=22.62 E-value=1.6e+02 Score=25.82 Aligned_cols=44 Identities=14% Similarity=0.139 Sum_probs=35.2
Q ss_pred CCCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 88 KMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 88 ~WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
..|+.|-+.|--+++ |..-.+||+.| +-+...|+++-+.+++|-
T Consensus 137 ~LT~RE~eVL~lla~--G~snkeIA~~L-~iS~~TVk~h~~~I~~KL 180 (207)
T PRK15411 137 SLSRTESSMLRMWMA--GQGTIQISDQM-NIKAKTVSSHKGNIKRKI 180 (207)
T ss_pred cCCHHHHHHHHHHHc--CCCHHHHHHHc-CCCHHHHHHHHHHHHHHh
Confidence 488888776655443 66679999999 899999999988888774
No 152
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=22.56 E-value=2e+02 Score=24.95 Aligned_cols=30 Identities=17% Similarity=0.112 Sum_probs=23.1
Q ss_pred hcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 104 WGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 104 ~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
.|-.-.+||..| |.+.+.|+++....+++-
T Consensus 168 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~L 197 (206)
T PRK12526 168 QELSQEQLAQQL-NVPLGTVKSRLRLALAKL 197 (206)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 345678899999 999999999876655543
No 153
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=22.56 E-value=1.8e+02 Score=25.06 Aligned_cols=39 Identities=18% Similarity=0.098 Sum_probs=28.3
Q ss_pred HHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 95 RLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 95 ~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
..++.++...|-...+||..| |-+...|+++-...+++-
T Consensus 119 r~v~~L~~~~g~s~~EIA~~L-giS~~tVk~~l~Rar~~L 157 (188)
T PRK12546 119 REALILVGASGFSYEEAAEMC-GVAVGTVKSRANRARARL 157 (188)
T ss_pred hHHhhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 334444555667789999999 899999999876555543
No 154
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=22.37 E-value=95 Score=20.64 Aligned_cols=36 Identities=28% Similarity=0.501 Sum_probs=18.4
Q ss_pred CCCHHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHH
Q 023677 88 KMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKN 125 (279)
Q Consensus 88 ~WT~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~kn 125 (279)
.+|.+|-..|..++ +-|..-.+||+.| ||+..-|.+
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 46777777777665 5688889999999 999887765
No 155
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=22.11 E-value=2e+02 Score=23.46 Aligned_cols=37 Identities=27% Similarity=0.343 Sum_probs=27.2
Q ss_pred HHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 95 RLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 95 ~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
..++.+.- .|-.-..||..| |-+...|+++....+++
T Consensus 118 r~il~l~~-~g~s~~eIA~~l-gis~~tV~~~i~ra~~~ 154 (166)
T PRK09639 118 RTVLLLRF-SGYSYKEIAEAL-GIKESSVGTTLARAKKK 154 (166)
T ss_pred HHHHHHHH-cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 44444555 677788999999 99999999987655554
No 156
>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=21.82 E-value=72 Score=25.75 Aligned_cols=28 Identities=14% Similarity=0.108 Sum_probs=22.4
Q ss_pred cCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 105 GNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 105 G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
|-.+.+||..| |=+...|+++.....++
T Consensus 121 g~s~~eIA~~l-gis~~tv~~~l~Ra~~~ 148 (154)
T TIGR02950 121 EFSYKEIAELL-NLSLAKVKSNLFRARKE 148 (154)
T ss_pred cCcHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34689999998 88999999997765554
No 157
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=21.37 E-value=1.4e+02 Score=22.91 Aligned_cols=28 Identities=29% Similarity=0.579 Sum_probs=20.7
Q ss_pred HHHHHHHHhcCchhHHhhhCCCCCHHHHH
Q 023677 96 LVLELHAKWGNRWSRIARKLPGRTDNEIK 124 (279)
Q Consensus 96 ~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~k 124 (279)
.+--++...|..|..+++.| |=|+++|.
T Consensus 4 ~f~~i~~~lG~~Wk~laR~L-Glse~~Id 31 (86)
T cd08306 4 AFDVICENVGRDWRKLARKL-GLSETKIE 31 (86)
T ss_pred HHHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 34445677899999999999 66666554
No 158
>TIGR02957 SigX4 RNA polymerase sigma-70 factor, TIGR02957 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building and bidirectional best hits, to represent a conserved family. This family is found in a limited number of bacterial lineages. This family includes apparent paralogous expansion in Streptomyces coelicolor A3(2), and multiple copies in Mycobacterium smegmatis MC2, Streptomyces avermitilis MA-4680 and Nocardia farcinica IFM10152.
Probab=21.00 E-value=2.2e+02 Score=26.18 Aligned_cols=34 Identities=15% Similarity=0.286 Sum_probs=25.5
Q ss_pred HHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 100 LHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 100 lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
+...+|-.-.+||..| |.|...|+++.....++-
T Consensus 119 L~~~~g~s~~EIA~~l-g~s~~tVr~~l~RAr~~L 152 (281)
T TIGR02957 119 LREVFDYPYEEIASIV-GKSEANCRQLVSRARRHL 152 (281)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3344566789999999 899999999876554443
No 159
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=20.65 E-value=1.2e+02 Score=27.01 Aligned_cols=30 Identities=17% Similarity=0.124 Sum_probs=23.4
Q ss_pred cCchhHHhhhCCCCCHHHHHHHHHHHhhHHH
Q 023677 105 GNRWSRIARKLPGRTDNEIKNYWRTHMRKKA 135 (279)
Q Consensus 105 G~~W~~Ia~~lpgRT~~q~knRw~~llr~~~ 135 (279)
|-...+||..| |-+...|+++....+++-.
T Consensus 165 g~s~~EIAe~l-gis~~tVk~~l~Rar~kLr 194 (231)
T PRK11922 165 ELSVEETAQAL-GLPEETVKTRLHRARRLLR 194 (231)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHHHH
Confidence 44678999999 8999999999876655543
No 160
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=20.62 E-value=1.1e+02 Score=20.23 Aligned_cols=33 Identities=18% Similarity=0.342 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHhcCchhHHhhhCCCCCHHHHHH
Q 023677 91 PQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKN 125 (279)
Q Consensus 91 ~eED~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~kn 125 (279)
.++-..++.++.+ |.....||+.| |-+...|.+
T Consensus 4 ~~~R~~ii~l~~~-G~s~~~ia~~l-gvs~~Tv~~ 36 (50)
T PF13384_consen 4 EERRAQIIRLLRE-GWSIREIAKRL-GVSRSTVYR 36 (50)
T ss_dssp ------HHHHHHH-T--HHHHHHHH-TS-HHHHHH
T ss_pred hhHHHHHHHHHHC-CCCHHHHHHHH-CcCHHHHHH
Confidence 3445567777777 98999999998 766665554
No 161
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=20.55 E-value=2e+02 Score=25.50 Aligned_cols=39 Identities=18% Similarity=0.256 Sum_probs=28.0
Q ss_pred HHHHHHHHHhcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 95 RLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 95 ~~Ll~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
..++.++-..|-...+||..| |-+...|+++-...+++-
T Consensus 190 r~vl~l~~~~g~s~~EIA~~l-gis~~tV~~~~~ra~~~L 228 (236)
T PRK06986 190 QLVLSLYYQEELNLKEIGAVL-GVSESRVSQIHSQAIKRL 228 (236)
T ss_pred HHHHHhHhccCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 334444444556789999999 999999999877666654
No 162
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=20.44 E-value=1.8e+02 Score=24.53 Aligned_cols=31 Identities=29% Similarity=0.204 Sum_probs=22.6
Q ss_pred HHhcCchhHHhhhCCCCCHHHHHHHHHHHhhH
Q 023677 102 AKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 133 (279)
Q Consensus 102 ~~~G~~W~~Ia~~lpgRT~~q~knRw~~llr~ 133 (279)
-..|-.-.+||..| |-+...|+++-...+++
T Consensus 154 ~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 184 (194)
T PRK12519 154 YYEGLSQSEIAKRL-GIPLGTVKARARQGLLK 184 (194)
T ss_pred hhcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 33455678899988 88889999886655544
No 163
>PRK12544 RNA polymerase sigma factor; Provisional
Probab=20.16 E-value=2.4e+02 Score=24.63 Aligned_cols=30 Identities=3% Similarity=-0.086 Sum_probs=23.5
Q ss_pred hcCchhHHhhhCCCCCHHHHHHHHHHHhhHH
Q 023677 104 WGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 134 (279)
Q Consensus 104 ~G~~W~~Ia~~lpgRT~~q~knRw~~llr~~ 134 (279)
.|-.-.+||..| |-|.+.|++|....+++-
T Consensus 163 ~g~s~~EIAe~l-gis~~tV~~~l~RAr~~L 192 (206)
T PRK12544 163 IELETNEICHAV-DLSVSNLNVLLYRARLRL 192 (206)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 455678999999 999999999977555543
Done!