Query 020997
Match_columns 318
No_of_seqs 187 out of 1360
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 06:48:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020997.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020997hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03212 Transcription repress 100.0 2.8E-37 6.1E-42 285.5 11.9 116 3-119 14-129 (249)
2 PLN03091 hypothetical protein; 100.0 3.8E-37 8.3E-42 302.8 12.4 118 1-119 1-118 (459)
3 KOG0048 Transcription factor, 100.0 2E-35 4.2E-40 273.5 10.6 112 9-121 4-115 (238)
4 KOG0049 Transcription factor, 99.8 7.4E-20 1.6E-24 186.5 5.6 115 1-117 347-462 (939)
5 KOG0049 Transcription factor, 99.7 5.5E-17 1.2E-21 165.7 7.0 110 7-117 246-410 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.6 1.5E-16 3.2E-21 117.2 2.2 60 17-79 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.5 3.8E-15 8.2E-20 151.1 5.6 108 9-118 15-122 (512)
8 KOG0050 mRNA splicing protein 99.4 1.9E-14 4.1E-19 144.4 1.8 104 12-118 5-108 (617)
9 KOG0051 RNA polymerase I termi 99.4 8.4E-14 1.8E-18 142.9 5.1 101 13-117 383-511 (607)
10 PF00249 Myb_DNA-binding: Myb- 99.4 5.8E-13 1.3E-17 94.5 5.2 46 68-113 1-48 (48)
11 PF00249 Myb_DNA-binding: Myb- 99.3 4.5E-13 9.6E-18 95.1 -0.1 48 14-62 1-48 (48)
12 PF13921 Myb_DNA-bind_6: Myb-l 99.3 7.5E-12 1.6E-16 92.0 5.1 46 71-116 1-46 (60)
13 smart00717 SANT SANT SWI3, AD 99.2 2.1E-11 4.5E-16 83.7 5.8 47 68-114 1-48 (49)
14 PLN03212 Transcription repress 99.1 5.3E-11 1.1E-15 111.2 5.8 56 63-118 20-77 (249)
15 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 1.6E-10 3.4E-15 78.2 5.8 43 70-112 1-44 (45)
16 KOG0048 Transcription factor, 99.0 4.4E-10 9.6E-15 104.5 4.4 55 64-118 5-61 (238)
17 PLN03091 hypothetical protein; 99.0 6.2E-10 1.4E-14 111.0 5.2 55 63-117 9-65 (459)
18 smart00717 SANT SANT SWI3, AD 98.9 3.4E-10 7.3E-15 77.6 1.0 48 14-63 1-48 (49)
19 KOG0051 RNA polymerase I termi 98.8 8E-09 1.7E-13 106.7 5.8 102 13-116 307-431 (607)
20 cd00167 SANT 'SWI3, ADA2, N-Co 98.7 3.6E-09 7.8E-14 71.5 0.7 45 16-62 1-45 (45)
21 COG5147 REB1 Myb superfamily p 98.3 3.9E-08 8.4E-13 100.5 -2.6 100 11-114 288-397 (512)
22 TIGR02894 DNA_bind_RsfA transc 97.6 7.4E-05 1.6E-09 66.2 4.9 52 67-119 3-61 (161)
23 KOG0457 Histone acetyltransfer 97.6 0.00028 6E-09 70.9 8.5 50 65-114 69-119 (438)
24 TIGR01557 myb_SHAQKYF myb-like 97.5 0.00031 6.7E-09 52.3 6.0 46 68-113 3-54 (57)
25 TIGR01557 myb_SHAQKYF myb-like 97.5 4.2E-05 9.2E-10 56.9 1.1 49 13-62 2-54 (57)
26 PF13325 MCRS_N: N-terminal re 97.3 0.0004 8.7E-09 63.7 5.1 99 16-117 1-130 (199)
27 KOG0050 mRNA splicing protein 97.2 0.00031 6.7E-09 71.9 3.9 53 66-118 5-58 (617)
28 PF13837 Myb_DNA-bind_4: Myb/S 97.1 0.00049 1.1E-08 53.7 3.7 50 68-117 1-68 (90)
29 KOG0457 Histone acetyltransfer 96.9 0.00027 5.8E-09 71.0 0.7 51 11-63 69-119 (438)
30 PRK13923 putative spore coat p 96.7 0.0016 3.5E-08 58.4 4.1 53 66-119 3-62 (170)
31 KOG1279 Chromatin remodeling f 96.7 0.0021 4.7E-08 66.3 5.3 46 67-112 252-297 (506)
32 KOG1279 Chromatin remodeling f 96.6 0.00093 2E-08 68.9 2.1 49 10-61 249-297 (506)
33 COG5259 RSC8 RSC chromatin rem 96.6 0.0026 5.7E-08 64.6 4.8 45 68-112 279-323 (531)
34 PF08914 Myb_DNA-bind_2: Rap1 96.5 0.0046 1E-07 47.2 4.5 50 68-117 2-61 (65)
35 COG5259 RSC8 RSC chromatin rem 96.4 0.00081 1.8E-08 68.2 0.2 46 13-61 278-323 (531)
36 TIGR02894 DNA_bind_RsfA transc 95.8 0.0018 4E-08 57.5 -0.6 50 12-63 2-56 (161)
37 PF08914 Myb_DNA-bind_2: Rap1 95.8 0.0027 5.7E-08 48.5 0.3 53 14-66 2-61 (65)
38 PF13873 Myb_DNA-bind_5: Myb/S 95.8 0.022 4.7E-07 43.7 5.2 49 68-116 2-72 (78)
39 COG5114 Histone acetyltransfer 95.3 0.025 5.4E-07 55.5 5.0 48 67-114 62-110 (432)
40 PLN03142 Probable chromatin-re 95.1 0.07 1.5E-06 59.7 8.3 99 16-116 826-987 (1033)
41 PF13837 Myb_DNA-bind_4: Myb/S 95.0 0.0027 5.8E-08 49.5 -2.1 48 14-61 1-63 (90)
42 PRK13923 putative spore coat p 93.8 0.01 2.2E-07 53.3 -1.4 50 12-63 3-57 (170)
43 KOG4282 Transcription factor G 92.9 0.19 4.2E-06 49.0 5.7 51 68-118 54-118 (345)
44 KOG1194 Predicted DNA-binding 92.9 0.19 4.2E-06 51.3 5.7 48 67-114 186-233 (534)
45 PF09111 SLIDE: SLIDE; InterP 92.6 0.24 5.2E-06 42.0 5.1 52 65-116 46-113 (118)
46 KOG2656 DNA methyltransferase 92.2 0.23 5.1E-06 49.9 5.2 86 37-123 75-191 (445)
47 PF13873 Myb_DNA-bind_5: Myb/S 92.2 0.02 4.2E-07 43.9 -1.8 50 13-62 1-69 (78)
48 PF12776 Myb_DNA-bind_3: Myb/S 92.2 0.41 8.9E-06 37.6 5.7 46 70-115 1-64 (96)
49 COG5114 Histone acetyltransfer 90.0 0.072 1.6E-06 52.3 -0.7 48 14-63 63-110 (432)
50 COG5118 BDP1 Transcription ini 89.4 0.61 1.3E-05 47.0 5.2 48 68-115 365-412 (507)
51 PF08281 Sigma70_r4_2: Sigma-7 87.1 1.8 3.9E-05 30.5 5.1 41 73-114 12-52 (54)
52 KOG4167 Predicted DNA-binding 82.5 5.5 0.00012 43.3 8.3 54 57-110 605-661 (907)
53 PF11626 Rap1_C: TRF2-interact 81.5 1.4 3.1E-05 35.0 2.8 25 10-34 43-75 (87)
54 smart00595 MADF subfamily of S 79.6 3 6.6E-05 32.2 4.1 26 89-115 29-54 (89)
55 PRK11179 DNA-binding transcrip 78.4 4.2 9.2E-05 35.1 5.0 46 73-119 8-54 (153)
56 PF13404 HTH_AsnC-type: AsnC-t 77.8 5.8 0.00013 27.5 4.6 38 74-112 3-41 (42)
57 PRK11169 leucine-responsive tr 74.1 4.9 0.00011 35.1 4.3 46 73-119 13-59 (164)
58 PF09111 SLIDE: SLIDE; InterP 73.6 2.3 4.9E-05 36.1 2.0 36 10-45 45-82 (118)
59 PF04545 Sigma70_r4: Sigma-70, 70.8 11 0.00024 26.2 4.7 41 74-115 7-47 (50)
60 KOG3841 TEF-1 and related tran 70.6 50 0.0011 33.6 10.8 80 7-121 69-150 (455)
61 KOG4282 Transcription factor G 69.6 1.5 3.3E-05 42.7 0.1 48 15-62 55-113 (345)
62 KOG4468 Polycomb-group transcr 68.4 7.9 0.00017 41.3 4.9 49 67-115 87-145 (782)
63 TIGR02985 Sig70_bacteroi1 RNA 67.8 12 0.00027 30.8 5.2 36 79-115 121-156 (161)
64 COG5118 BDP1 Transcription ini 67.7 2.2 4.8E-05 43.1 0.7 62 14-78 365-434 (507)
65 PF07750 GcrA: GcrA cell cycle 66.2 7.2 0.00016 34.7 3.6 41 70-111 2-42 (162)
66 PF13325 MCRS_N: N-terminal re 65.4 13 0.00027 34.5 5.1 46 70-116 1-49 (199)
67 PF11626 Rap1_C: TRF2-interact 64.5 9 0.0002 30.3 3.6 16 64-79 43-58 (87)
68 KOG4329 DNA-binding protein [G 63.2 60 0.0013 33.0 9.6 43 69-111 278-321 (445)
69 PF11035 SnAPC_2_like: Small n 58.2 36 0.00078 33.8 7.1 46 68-113 21-70 (344)
70 smart00344 HTH_ASNC helix_turn 56.3 24 0.00051 28.1 4.7 45 74-119 3-48 (108)
71 cd08319 Death_RAIDD Death doma 54.9 18 0.00039 28.8 3.7 29 76-105 2-30 (83)
72 KOG2009 Transcription initiati 52.8 15 0.00032 39.1 3.7 49 66-114 407-455 (584)
73 cd06171 Sigma70_r4 Sigma70, re 52.5 41 0.00089 22.0 4.8 40 71-112 11-50 (55)
74 PF01388 ARID: ARID/BRIGHT DNA 52.4 35 0.00075 26.6 5.0 37 78-114 40-89 (92)
75 TIGR02937 sigma70-ECF RNA poly 52.4 30 0.00065 27.6 4.8 34 81-115 120-153 (158)
76 PF10545 MADF_DNA_bdg: Alcohol 52.0 15 0.00033 27.4 2.9 27 89-115 28-55 (85)
77 cd08803 Death_ank3 Death domai 51.0 25 0.00053 28.0 3.9 31 76-107 4-34 (84)
78 PRK09652 RNA polymerase sigma 50.4 33 0.00071 29.0 5.0 34 81-115 138-171 (182)
79 PF11035 SnAPC_2_like: Small n 49.5 82 0.0018 31.4 8.0 87 14-114 21-127 (344)
80 KOG4167 Predicted DNA-binding 49.2 5.8 0.00013 43.2 0.1 42 15-59 620-661 (907)
81 cd08317 Death_ank Death domain 48.7 21 0.00046 27.8 3.2 30 76-106 4-33 (84)
82 smart00501 BRIGHT BRIGHT, ARID 48.2 42 0.00091 26.5 4.9 38 78-115 36-86 (93)
83 PRK04217 hypothetical protein; 47.9 42 0.00091 28.2 5.0 45 70-116 42-86 (110)
84 PRK11924 RNA polymerase sigma 47.3 38 0.00082 28.5 4.9 30 85-115 139-168 (179)
85 PF04504 DUF573: Protein of un 46.1 37 0.00081 27.6 4.4 47 69-115 5-64 (98)
86 PRK09643 RNA polymerase sigma 46.0 42 0.00091 29.5 5.1 30 83-113 146-175 (192)
87 PRK09641 RNA polymerase sigma 44.2 45 0.00098 28.6 4.9 29 86-115 151-179 (187)
88 PF07638 Sigma70_ECF: ECF sigm 44.0 47 0.001 29.3 5.1 36 77-113 141-176 (185)
89 PLN03162 golden-2 like transcr 43.5 2.4E+02 0.0052 29.0 10.3 45 68-112 237-286 (526)
90 COG2963 Transposase and inacti 41.4 78 0.0017 25.6 5.7 47 68-115 5-52 (116)
91 KOG4468 Polycomb-group transcr 41.3 16 0.00034 39.2 1.8 47 14-62 88-143 (782)
92 COG2197 CitB Response regulato 40.8 44 0.00095 30.4 4.5 46 69-117 147-192 (211)
93 cd08318 Death_NMPP84 Death dom 40.1 41 0.00089 26.5 3.7 33 70-106 4-36 (86)
94 KOG2656 DNA methyltransferase 39.7 16 0.00035 37.2 1.5 49 11-61 127-180 (445)
95 TIGR02954 Sig70_famx3 RNA poly 39.6 60 0.0013 27.6 4.9 29 86-115 134-162 (169)
96 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 39.4 64 0.0014 23.5 4.2 35 74-109 7-41 (50)
97 TIGR02939 RpoE_Sigma70 RNA pol 39.0 48 0.001 28.5 4.3 29 86-115 153-181 (190)
98 cd08804 Death_ank2 Death domai 38.5 44 0.00095 26.4 3.6 31 76-107 4-34 (84)
99 TIGR02948 SigW_bacill RNA poly 38.2 58 0.0013 27.9 4.7 28 87-115 152-179 (187)
100 KOG0384 Chromodomain-helicase 38.2 33 0.00071 39.7 3.7 74 13-94 1132-1206(1373)
101 PRK09637 RNA polymerase sigma 37.7 66 0.0014 28.1 5.0 30 85-115 120-149 (181)
102 PRK12512 RNA polymerase sigma 37.7 80 0.0017 27.2 5.5 29 86-115 146-174 (184)
103 smart00351 PAX Paired Box doma 37.2 74 0.0016 26.7 5.0 70 14-86 15-91 (125)
104 PRK09047 RNA polymerase factor 37.1 80 0.0017 26.3 5.2 29 86-115 121-149 (161)
105 PRK09648 RNA polymerase sigma 35.6 80 0.0017 27.4 5.2 30 85-115 153-182 (189)
106 PRK09645 RNA polymerase sigma 34.8 85 0.0018 26.7 5.1 29 86-115 133-161 (173)
107 PRK11923 algU RNA polymerase s 34.7 73 0.0016 27.7 4.8 28 87-115 154-181 (193)
108 PRK12515 RNA polymerase sigma 34.5 85 0.0018 27.3 5.2 28 86-114 146-173 (189)
109 TIGR02943 Sig70_famx1 RNA poly 34.2 88 0.0019 27.5 5.2 34 81-115 141-174 (188)
110 cd08805 Death_ank1 Death domai 34.1 53 0.0011 26.2 3.4 26 76-102 4-29 (84)
111 PRK12529 RNA polymerase sigma 34.1 97 0.0021 26.8 5.4 36 82-118 138-173 (178)
112 smart00005 DEATH DEATH domain, 34.1 54 0.0012 25.0 3.4 29 76-105 5-34 (88)
113 PRK09642 RNA polymerase sigma 33.6 94 0.002 26.0 5.2 29 85-114 120-148 (160)
114 COG1522 Lrp Transcriptional re 33.6 83 0.0018 26.3 4.8 45 73-118 7-52 (154)
115 PRK12531 RNA polymerase sigma 33.6 90 0.0019 27.4 5.2 29 86-115 156-184 (194)
116 cd08777 Death_RIP1 Death Domai 33.3 54 0.0012 26.1 3.3 28 79-107 5-32 (86)
117 PF00046 Homeobox: Homeobox do 33.2 1.7E+02 0.0036 20.4 5.6 46 67-113 3-52 (57)
118 PRK12523 RNA polymerase sigma 33.2 95 0.0021 26.5 5.2 36 80-116 128-163 (172)
119 PF02954 HTH_8: Bacterial regu 32.7 90 0.002 21.1 4.0 34 74-108 5-38 (42)
120 PRK12530 RNA polymerase sigma 32.2 95 0.002 27.2 5.1 27 86-113 149-175 (189)
121 PF13936 HTH_38: Helix-turn-he 31.4 54 0.0012 22.6 2.7 36 70-107 4-39 (44)
122 PRK11179 DNA-binding transcrip 31.3 14 0.0003 31.9 -0.4 45 19-66 8-52 (153)
123 PF07750 GcrA: GcrA cell cycle 30.4 25 0.00055 31.2 1.1 33 16-51 2-35 (162)
124 PRK12527 RNA polymerase sigma 29.2 1.3E+02 0.0028 25.2 5.3 29 86-115 120-148 (159)
125 TIGR02999 Sig-70_X6 RNA polyme 28.9 1.2E+02 0.0027 25.9 5.2 28 86-114 149-176 (183)
126 TIGR02984 Sig-70_plancto1 RNA 28.4 1.2E+02 0.0026 25.9 5.1 30 85-115 154-183 (189)
127 PRK12514 RNA polymerase sigma 28.2 1.2E+02 0.0027 25.9 5.1 27 87-114 145-171 (179)
128 PRK09649 RNA polymerase sigma 27.8 1.2E+02 0.0025 26.5 4.9 29 86-115 145-173 (185)
129 PRK12524 RNA polymerase sigma 27.4 1.3E+02 0.0028 26.4 5.1 29 85-114 150-178 (196)
130 PRK12532 RNA polymerase sigma 27.4 1.2E+02 0.0026 26.4 4.9 28 85-113 150-177 (195)
131 PRK09651 RNA polymerase sigma 27.4 1.1E+02 0.0023 26.3 4.5 29 86-115 134-162 (172)
132 PRK13919 putative RNA polymera 27.4 1.3E+02 0.0029 25.8 5.1 28 87-115 151-178 (186)
133 cd08779 Death_PIDD Death Domai 27.2 70 0.0015 25.3 3.0 21 77-97 3-23 (86)
134 TIGR02983 SigE-fam_strep RNA p 27.2 1.3E+02 0.0028 25.2 4.9 39 76-115 115-153 (162)
135 PRK06759 RNA polymerase factor 27.1 1.4E+02 0.0031 24.6 5.1 28 86-114 121-148 (154)
136 PF09197 Rap1-DNA-bind: Rap1, 27.0 1.9E+02 0.004 24.3 5.6 47 70-116 1-78 (105)
137 TIGR02950 SigM_subfam RNA poly 27.0 47 0.001 27.5 2.2 28 87-115 121-148 (154)
138 PRK12528 RNA polymerase sigma 26.8 1.5E+02 0.0032 24.9 5.2 32 83-115 125-156 (161)
139 PRK00118 putative DNA-binding 26.5 1.5E+02 0.0033 24.6 5.0 39 73-112 19-57 (104)
140 PRK11169 leucine-responsive tr 26.5 15 0.00032 32.1 -1.1 45 19-66 13-57 (164)
141 PRK10100 DNA-binding transcrip 26.2 1.5E+02 0.0033 27.1 5.5 45 70-117 155-199 (216)
142 PRK05602 RNA polymerase sigma 26.1 1.3E+02 0.0028 26.0 4.9 28 86-114 143-170 (186)
143 TIGR02952 Sig70_famx2 RNA poly 26.1 1.4E+02 0.0031 24.9 5.0 27 87-114 138-164 (170)
144 PRK15201 fimbriae regulatory p 26.1 1.7E+02 0.0037 27.1 5.6 45 70-117 133-177 (198)
145 cd08311 Death_p75NR Death doma 25.9 76 0.0016 24.8 3.0 33 73-107 2-34 (77)
146 PF09420 Nop16: Ribosome bioge 25.7 1.3E+02 0.0028 26.5 4.8 30 12-43 112-141 (164)
147 PRK12536 RNA polymerase sigma 25.6 1.5E+02 0.0032 25.6 5.1 31 84-115 142-172 (181)
148 PRK01905 DNA-binding protein F 25.4 1.7E+02 0.0037 22.5 4.8 36 72-108 35-70 (77)
149 PF07555 NAGidase: beta-N-acet 25.3 1.6E+02 0.0034 28.9 5.7 54 15-84 10-63 (306)
150 PRK10360 DNA-binding transcrip 25.3 1.8E+02 0.0038 24.3 5.4 45 69-116 136-180 (196)
151 PRK12547 RNA polymerase sigma 25.0 1.6E+02 0.0036 24.9 5.2 30 85-115 126-155 (164)
152 PRK12520 RNA polymerase sigma 24.3 1.6E+02 0.0035 25.6 5.1 29 86-115 146-174 (191)
153 PRK12516 RNA polymerase sigma 23.9 1.6E+02 0.0035 25.8 5.1 34 79-113 124-157 (187)
154 cd08306 Death_FADD Fas-associa 23.9 1.1E+02 0.0025 24.0 3.7 28 78-106 4-31 (86)
155 PRK12542 RNA polymerase sigma 23.7 1.7E+02 0.0036 25.3 5.1 29 85-114 136-164 (185)
156 PF08181 DegQ: DegQ (SacQ) fam 23.4 43 0.00094 23.6 1.0 11 279-289 4-14 (46)
157 cd00569 HTH_Hin_like Helix-tur 22.5 1.6E+02 0.0036 16.7 5.0 35 71-107 6-40 (42)
158 PRK15411 rcsA colanic acid cap 22.5 1.7E+02 0.0036 26.3 5.0 45 70-117 137-181 (207)
159 PRK12537 RNA polymerase sigma 21.6 1.9E+02 0.0041 24.9 5.0 29 86-115 148-176 (182)
160 TIGR02960 SigX5 RNA polymerase 21.6 1.6E+02 0.0034 27.9 4.9 28 86-114 157-184 (324)
161 PF13384 HTH_23: Homeodomain-l 21.6 1.1E+02 0.0023 20.9 2.8 30 77-108 8-37 (50)
162 PRK12545 RNA polymerase sigma 21.5 1.9E+02 0.0041 25.6 5.1 26 86-112 154-179 (201)
163 PF05263 DUF722: Protein of un 21.3 92 0.002 27.0 2.9 42 71-115 82-125 (130)
164 PRK09647 RNA polymerase sigma 20.6 2.1E+02 0.0045 25.6 5.2 29 86-115 153-181 (203)
165 PRK11922 RNA polymerase sigma 20.5 1.1E+02 0.0023 27.9 3.3 27 87-114 165-191 (231)
166 cd01670 Death Death Domain: a 20.4 1.2E+02 0.0026 22.5 3.1 26 79-105 2-27 (79)
167 PF09420 Nop16: Ribosome bioge 20.1 2.8E+02 0.006 24.4 5.7 46 67-112 113-162 (164)
No 1
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=2.8e-37 Score=285.49 Aligned_cols=116 Identities=56% Similarity=1.191 Sum_probs=111.9
Q ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccccCCCCCCCCCCHHHHHHHHHH
Q 020997 3 RAPCCDKANVKKGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNINHGEFSDDEDRIICSL 82 (318)
Q Consensus 3 r~~~~~Kp~lkKG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~P~ikk~~WT~EED~~Llel 82 (318)
|+|||.|++++|++||+|||++|+++|++||. .+|..||+.++++|+++|||+||.++|+|.+++++||+|||++|+++
T Consensus 14 ~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~-~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel 92 (249)
T PLN03212 14 TTPCCTKMGMKRGPWTVEEDEILVSFIKKEGE-GRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRL 92 (249)
T ss_pred CCCCcccCCCcCCCCCHHHHHHHHHHHHHhCc-ccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHH
Confidence 68999999999999999999999999999998 69999999987789999999999999999999999999999999999
Q ss_pred HHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHhhhhc
Q 020997 83 FASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKKLIG 119 (318)
Q Consensus 83 v~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrkk~~~ 119 (318)
+.+||++|+.||++|||||+++|||||+.++++++.+
T Consensus 93 ~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r 129 (249)
T PLN03212 93 HRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLR 129 (249)
T ss_pred HHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHh
Confidence 9999999999999999999999999999999988664
No 2
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=3.8e-37 Score=302.76 Aligned_cols=118 Identities=61% Similarity=1.144 Sum_probs=114.8
Q ss_pred CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccccCCCCCCCCCCHHHHHHHH
Q 020997 1 MGRAPCCDKANVKKGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNINHGEFSDDEDRIIC 80 (318)
Q Consensus 1 mgr~~~~~Kp~lkKG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~P~ikk~~WT~EED~~Ll 80 (318)
|||++||.|+.++||+||+|||++|+++|++||. .+|..||+.++++|+++|||+||.++|+|.|++++||+|||++|+
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~-~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLL 79 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGH-GCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLII 79 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCc-CCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHH
Confidence 9999999999999999999999999999999998 699999999877899999999999999999999999999999999
Q ss_pred HHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHhhhhc
Q 020997 81 SLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKKLIG 119 (318)
Q Consensus 81 elv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrkk~~~ 119 (318)
+++++||++|++||++|||||+++|||||+.++|++++.
T Consensus 80 eL~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~ 118 (459)
T PLN03091 80 ELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQ 118 (459)
T ss_pred HHHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999998763
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=2e-35 Score=273.50 Aligned_cols=112 Identities=55% Similarity=0.994 Sum_probs=106.9
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccccCCCCCCCCCCHHHHHHHHHHHHHhCC
Q 020997 9 KANVKKGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNINHGEFSDDEDRIICSLFASIGS 88 (318)
Q Consensus 9 Kp~lkKG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~P~ikk~~WT~EED~~Llelv~k~G~ 88 (318)
|+.+.||+||+|||++|+++|++||. .+|..|++.+|++|++|+||+||.|||+|+|+++.||+|||++|++|+..+|+
T Consensus 4 k~~~~kGpWt~EED~~L~~~V~~~G~-~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GN 82 (238)
T KOG0048|consen 4 NPELVKGPWTQEEDLTQIRSIKSFGK-HNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGN 82 (238)
T ss_pred CccccCCCCChHHHHHHHHHHHHhCC-CCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCc
Confidence 45566899999999999999999999 59999999999999999999999999999999999999999999999999999
Q ss_pred chHHHhhhCCCCCHHHHHHHHHHHHHhhhhccc
Q 020997 89 RWSTIAAQLPGRTDNDIKNYWNTKLKKKLIGIV 121 (318)
Q Consensus 89 kWs~IAk~LpgRT~nq~KnRW~~llrkk~~~~~ 121 (318)
+|+.||++|||||+|.|||+|+..+|+++....
T Consensus 83 rWs~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 83 RWSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 999999999999999999999999999987554
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.79 E-value=7.4e-20 Score=186.49 Aligned_cols=115 Identities=23% Similarity=0.391 Sum_probs=104.8
Q ss_pred CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccccCCCCCCCCCCHHHHHHHH
Q 020997 1 MGRAPCCDKANVKKGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNINHGEFSDDEDRIIC 80 (318)
Q Consensus 1 mgr~~~~~Kp~lkKG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~P~ikk~~WT~EED~~Ll 80 (318)
+||+.....|++++|+||++||.+|+.+|++||. .+|.+|.+.++ +|+..|||+||+|+|+...|++.||-.||+.|+
T Consensus 347 I~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~-kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~ 424 (939)
T KOG0049|consen 347 ITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGA-KDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVERWTLVEDEQLL 424 (939)
T ss_pred hhhheeccCccccCCCCCCHHHHHHHHHHHHhCc-cchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCceeecchHHHH
Confidence 5899999999999999999999999999999998 69999999998 999999999999999999999999999999999
Q ss_pred HHHHHhC-CchHHHhhhCCCCCHHHHHHHHHHHHHhhh
Q 020997 81 SLFASIG-SRWSTIAAQLPGRTDNDIKNYWNTKLKKKL 117 (318)
Q Consensus 81 elv~k~G-~kWs~IAk~LpgRT~nq~KnRW~~llrkk~ 117 (318)
.+|++|| ++|.+||.+||+||..|...|=...++.++
T Consensus 425 ~~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~~~k~ 462 (939)
T KOG0049|consen 425 YAVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLIAAKL 462 (939)
T ss_pred HHHHHHccchHHHHHHHccccchhHHHHHHHHHHHHHH
Confidence 9999999 599999999999999766555444444443
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.67 E-value=5.5e-17 Score=165.72 Aligned_cols=110 Identities=25% Similarity=0.485 Sum_probs=99.3
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCcccc------------------------------
Q 020997 7 CDKANVKKGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRL------------------------------ 56 (318)
Q Consensus 7 ~~Kp~lkKG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCre------------------------------ 56 (318)
...|+++|..|++|||++|+.+...+|. .+|..||..+|.+|+.-||.+
T Consensus 246 ~l~P~~nk~~WS~EE~E~L~AiA~A~~~-~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~~~ 324 (939)
T KOG0049|consen 246 ELNPKWNKEHWSNEEVEKLKALAEAPKF-VSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKITS 324 (939)
T ss_pred hcCCccchhccChHHHHHHHHHHhcccc-ccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHhh
Confidence 4579999999999999999999999998 799999999997799988877
Q ss_pred ------------------------ccccccCCCCCCCCCCHHHHHHHHHHHHHhCC-chHHHhhhCCCCCHHHHHHHHHH
Q 020997 57 ------------------------RWLNYLRPNINHGEFSDDEDRIICSLFASIGS-RWSTIAAQLPGRTDNDIKNYWNT 111 (318)
Q Consensus 57 ------------------------RW~n~L~P~ikk~~WT~EED~~Llelv~k~G~-kWs~IAk~LpgRT~nq~KnRW~~ 111 (318)
||...|+|.++||+||.+||.+|+.+|.+||. .|.+|...+|||++.|||.||.+
T Consensus 325 ~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~n 404 (939)
T KOG0049|consen 325 INSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTN 404 (939)
T ss_pred ccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHH
Confidence 66777999999999999999999999999995 79999999999999999999988
Q ss_pred HHHhhh
Q 020997 112 KLKKKL 117 (318)
Q Consensus 112 llrkk~ 117 (318)
.|...+
T Consensus 405 vL~~s~ 410 (939)
T KOG0049|consen 405 VLNRSA 410 (939)
T ss_pred HHHHhh
Confidence 776543
No 6
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.62 E-value=1.5e-16 Score=117.17 Aligned_cols=60 Identities=40% Similarity=0.830 Sum_probs=55.2
Q ss_pred CCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccccCCCCCCCCCCHHHHHHH
Q 020997 17 WSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNINHGEFSDDEDRII 79 (318)
Q Consensus 17 WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~P~ikk~~WT~EED~~L 79 (318)
||+|||++|+++|.+||. +|..||+.++ .|++.||+.||.++|+|.+++++||.+||.+|
T Consensus 1 WT~eEd~~L~~~~~~~g~--~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN--DWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS---HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc--CHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999997 8999999997 89999999999999999999999999999987
No 7
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.55 E-value=3.8e-15 Score=151.10 Aligned_cols=108 Identities=29% Similarity=0.489 Sum_probs=101.4
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccccCCCCCCCCCCHHHHHHHHHHHHHhCC
Q 020997 9 KANVKKGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNINHGEFSDDEDRIICSLFASIGS 88 (318)
Q Consensus 9 Kp~lkKG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~P~ikk~~WT~EED~~Llelv~k~G~ 88 (318)
.-.++.|.|+..||+.|+.+|+++|+ .+|..||..+. .|+++||+.||.++|+|.+++..|+.|||..|+.+..++|.
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~-nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~ 92 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGP-NNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGT 92 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhccc-ccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCc
Confidence 34678899999999999999999999 68999999998 58999999999999999999999999999999999999999
Q ss_pred chHHHhhhCCCCCHHHHHHHHHHHHHhhhh
Q 020997 89 RWSTIAAQLPGRTDNDIKNYWNTKLKKKLI 118 (318)
Q Consensus 89 kWs~IAk~LpgRT~nq~KnRW~~llrkk~~ 118 (318)
+|+.||..+++||+.+|.+||...+.....
T Consensus 93 ~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 93 QWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 999999999999999999999988876543
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.45 E-value=1.9e-14 Score=144.44 Aligned_cols=104 Identities=29% Similarity=0.545 Sum_probs=99.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccccCCCCCCCCCCHHHHHHHHHHHHHhCCchH
Q 020997 12 VKKGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNINHGEFSDDEDRIICSLFASIGSRWS 91 (318)
Q Consensus 12 lkKG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~P~ikk~~WT~EED~~Llelv~k~G~kWs 91 (318)
++.|.|+--||+.|..+|.+||. ..|.+|+..+. ..+++||+.||..+|+|.|++..|+.|||.+|+.++..+...|.
T Consensus 5 ~kggvwrntEdeilkaav~kyg~-nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwr 82 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGK-NQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWR 82 (617)
T ss_pred EecceecccHHHHHHHHHHHcch-HHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccc
Confidence 57899999999999999999999 69999999988 78999999999999999999999999999999999999999999
Q ss_pred HHhhhCCCCCHHHHHHHHHHHHHhhhh
Q 020997 92 TIAAQLPGRTDNDIKNYWNTKLKKKLI 118 (318)
Q Consensus 92 ~IAk~LpgRT~nq~KnRW~~llrkk~~ 118 (318)
.||..| |||+++|-.||+.++-....
T Consensus 83 tIa~i~-gr~~~qc~eRy~~ll~~~~s 108 (617)
T KOG0050|consen 83 TIADIM-GRTSQQCLERYNNLLDVYVS 108 (617)
T ss_pred hHHHHh-hhhHHHHHHHHHHHHHHHHh
Confidence 999999 99999999999999877655
No 9
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.43 E-value=8.4e-14 Score=142.88 Aligned_cols=101 Identities=25% Similarity=0.558 Sum_probs=92.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccccCCC--CCCCCCCHHHHHHHHHHHH------
Q 020997 13 KKGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPN--INHGEFSDDEDRIICSLFA------ 84 (318)
Q Consensus 13 kKG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~P~--ikk~~WT~EED~~Llelv~------ 84 (318)
.+|.||+||++.|..+|.++|. .|..|+..++ |.+..||+||+++..++ .+++.||.||++.|+++|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~--~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~ 458 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN--DWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREA 458 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc--cHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHh
Confidence 8999999999999999999997 9999999998 99999999999999987 5999999999999999995
Q ss_pred -Hh-------------------CCchHHHhhhCCCCCHHHHHHHHHHHHHhhh
Q 020997 85 -SI-------------------GSRWSTIAAQLPGRTDNDIKNYWNTKLKKKL 117 (318)
Q Consensus 85 -k~-------------------G~kWs~IAk~LpgRT~nq~KnRW~~llrkk~ 117 (318)
++ +-.|+.|++.+..|+..+||.+|..++....
T Consensus 459 ~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s 511 (607)
T KOG0051|consen 459 LQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPS 511 (607)
T ss_pred hcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHH
Confidence 33 1269999999999999999999999887653
No 10
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.38 E-value=5.8e-13 Score=94.46 Aligned_cols=46 Identities=26% Similarity=0.616 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCc-hHHHhhhCC-CCCHHHHHHHHHHHH
Q 020997 68 HGEFSDDEDRIICSLFASIGSR-WSTIAAQLP-GRTDNDIKNYWNTKL 113 (318)
Q Consensus 68 k~~WT~EED~~Llelv~k~G~k-Ws~IAk~Lp-gRT~nq~KnRW~~ll 113 (318)
|++||+|||.+|++++.+||.. |..||..|| +||..+|++||+.++
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 5799999999999999999988 999999999 999999999999864
No 11
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.28 E-value=4.5e-13 Score=95.06 Aligned_cols=48 Identities=42% Similarity=0.780 Sum_probs=43.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCcccccccccc
Q 020997 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYL 62 (318)
Q Consensus 14 KG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L 62 (318)
|++||+|||++|+++|.+||. .+|..||..++.+||+.||+.||.++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~-~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGK-DNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTT-THHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCC-cHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 689999999999999999998 359999999998999999999999875
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=99.25 E-value=7.5e-12 Score=92.03 Aligned_cols=46 Identities=30% Similarity=0.675 Sum_probs=39.9
Q ss_pred CCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHhh
Q 020997 71 FSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKK 116 (318)
Q Consensus 71 WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrkk 116 (318)
||+|||++|+++|.+||.+|..||+.|+.||..+|++||+..|+++
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~ 46 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPK 46 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTT
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCccc
Confidence 9999999999999999999999999996699999999999966543
No 13
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.23 E-value=2.1e-11 Score=83.67 Aligned_cols=47 Identities=38% Similarity=0.844 Sum_probs=44.3
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 68 HGEFSDDEDRIICSLFASIG-SRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 68 k~~WT~EED~~Llelv~k~G-~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
+++||++||.+|+.++.+|| .+|..||..|++||+.+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998764
No 14
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.14 E-value=5.3e-11 Score=111.15 Aligned_cols=56 Identities=20% Similarity=0.450 Sum_probs=51.1
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhC-CchHHHhhhC-CCCCHHHHHHHHHHHHHhhhh
Q 020997 63 RPNINHGEFSDDEDRIICSLFASIG-SRWSTIAAQL-PGRTDNDIKNYWNTKLKKKLI 118 (318)
Q Consensus 63 ~P~ikk~~WT~EED~~Llelv~k~G-~kWs~IAk~L-pgRT~nq~KnRW~~llrkk~~ 118 (318)
++.+++++||+|||++|+++|++|| .+|..||+.+ ++||+.|||.||.++|++.+.
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~ 77 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVK 77 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcc
Confidence 3578999999999999999999999 5899999988 699999999999999887664
No 15
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.11 E-value=1.6e-10 Score=78.18 Aligned_cols=43 Identities=28% Similarity=0.705 Sum_probs=41.4
Q ss_pred CCCHHHHHHHHHHHHHhC-CchHHHhhhCCCCCHHHHHHHHHHH
Q 020997 70 EFSDDEDRIICSLFASIG-SRWSTIAAQLPGRTDNDIKNYWNTK 112 (318)
Q Consensus 70 ~WT~EED~~Llelv~k~G-~kWs~IAk~LpgRT~nq~KnRW~~l 112 (318)
+||++||.+|+.++.++| .+|..||+.|++||+.+|++||..+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 599999999999999999 8999999999999999999999875
No 16
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.97 E-value=4.4e-10 Score=104.46 Aligned_cols=55 Identities=18% Similarity=0.334 Sum_probs=50.0
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCC-chHHHhhhCC-CCCHHHHHHHHHHHHHhhhh
Q 020997 64 PNINHGEFSDDEDRIICSLFASIGS-RWSTIAAQLP-GRTDNDIKNYWNTKLKKKLI 118 (318)
Q Consensus 64 P~ikk~~WT~EED~~Llelv~k~G~-kWs~IAk~Lp-gRT~nq~KnRW~~llrkk~~ 118 (318)
+.+.||+||.|||.+|+++|++||. +|..||+.++ +|++.+||-||.++|++.+.
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ik 61 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLK 61 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCcc
Confidence 4455799999999999999999996 6999999998 99999999999999987764
No 17
>PLN03091 hypothetical protein; Provisional
Probab=98.95 E-value=6.2e-10 Score=111.04 Aligned_cols=55 Identities=22% Similarity=0.434 Sum_probs=49.4
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCC-chHHHhhhC-CCCCHHHHHHHHHHHHHhhh
Q 020997 63 RPNINHGEFSDDEDRIICSLFASIGS-RWSTIAAQL-PGRTDNDIKNYWNTKLKKKL 117 (318)
Q Consensus 63 ~P~ikk~~WT~EED~~Llelv~k~G~-kWs~IAk~L-pgRT~nq~KnRW~~llrkk~ 117 (318)
++.+++++||+|||++|+++|++||. +|..||+.+ ++|++.|||.||.++|++.+
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~I 65 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDL 65 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcc
Confidence 35789999999999999999999995 799999988 59999999999998776654
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.91 E-value=3.4e-10 Score=77.56 Aligned_cols=48 Identities=40% Similarity=0.781 Sum_probs=44.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccccC
Q 020997 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLR 63 (318)
Q Consensus 14 KG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~ 63 (318)
+++||++||++|+.++.+||. .+|..||..++ +|++.+|+.||.+.+.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~-~~w~~Ia~~~~-~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGK-NNWEKIAKELP-GRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCc-CCHHHHHHHcC-CCCHHHHHHHHHHHcC
Confidence 578999999999999999995 49999999998 9999999999998764
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.76 E-value=8e-09 Score=106.68 Aligned_cols=102 Identities=23% Similarity=0.343 Sum_probs=82.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCC--------------CC--------ceeecccccccccCCccccccccccCCCC-CCC
Q 020997 13 KKGPWSPEEDAKLKEYIEKNGTG--------------GN--------WIALPHKAGLMRCGKSCRLRWLNYLRPNI-NHG 69 (318)
Q Consensus 13 kKG~WT~EEDe~L~~lV~kyG~~--------------~~--------W~~Ia~~lg~~Rt~kQCreRW~n~L~P~i-kk~ 69 (318)
+-+.|+++||+.|-+.|..|-.. .+ |..|...++ .|+.+....+-++.-.|-- ++|
T Consensus 307 ~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~~rg 385 (607)
T KOG0051|consen 307 NLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFENKRG 385 (607)
T ss_pred hhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCccccccC
Confidence 34899999999999999877211 12 455666676 5888888773334434433 999
Q ss_pred CCCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHhh
Q 020997 70 EFSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKK 116 (318)
Q Consensus 70 ~WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrkk 116 (318)
.||+||++.|..+|.++|+.|+.|++.| ||.+.+|+.||+++++-.
T Consensus 386 ~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g 431 (607)
T KOG0051|consen 386 KWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCG 431 (607)
T ss_pred CCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccc
Confidence 9999999999999999999999999999 999999999999988765
No 20
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.70 E-value=3.6e-09 Score=71.46 Aligned_cols=45 Identities=42% Similarity=0.789 Sum_probs=41.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCcccccccccc
Q 020997 16 PWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYL 62 (318)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L 62 (318)
+||+|||+.|+.++.+||. .+|..||+.++ +|++.+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~-~~w~~Ia~~~~-~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGK-NNWEKIAKELP-GRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCc-CCHHHHHhHcC-CCCHHHHHHHHHHhC
Confidence 5999999999999999995 49999999998 899999999997753
No 21
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.34 E-value=3.9e-08 Score=100.50 Aligned_cols=100 Identities=20% Similarity=0.534 Sum_probs=86.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccccCC--CCCCCCCCHHHHHHHHHHHHHhC-
Q 020997 11 NVKKGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRP--NINHGEFSDDEDRIICSLFASIG- 87 (318)
Q Consensus 11 ~lkKG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~P--~ikk~~WT~EED~~Llelv~k~G- 87 (318)
--.+|.||+||++.|...|.++|. .|..|...++ |-+..||+||+++..+ .+++.+|+.||+.+|...+.+.-
T Consensus 288 f~~~~~wt~e~~~eL~~~~~~~~~--~w~~ig~~~~--rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e~~~ 363 (512)
T COG5147 288 FEQRGKWTKEEEQELAKLVVEHGG--SWTEIGKLLG--RMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNEMRL 363 (512)
T ss_pred HhhhccCccccccccccccccccc--hhhHhhhhhc--cCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHHHHH
Confidence 345799999999999999999997 8999998776 9999999999999988 68899999999999998887442
Q ss_pred -------CchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 88 -------SRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 88 -------~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
-.|..|++++++|..-.|+.++..+..
T Consensus 364 ~~~~~~~~~~~li~~~~~~~~~~~~~~~~~~~~~ 397 (512)
T COG5147 364 EAQQSSRILWLLIAQNIRNRLQHHCRDKYGVLIS 397 (512)
T ss_pred HHhhhhhhhHHHHHHhhhccccCCCCCccccccc
Confidence 279999999998888888777655443
No 22
>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=97.62 E-value=7.4e-05 Score=66.22 Aligned_cols=52 Identities=19% Similarity=0.373 Sum_probs=46.5
Q ss_pred CCCCCCHHHHHHHHHHHHHh---CC----chHHHhhhCCCCCHHHHHHHHHHHHHhhhhc
Q 020997 67 NHGEFSDDEDRIICSLFASI---GS----RWSTIAAQLPGRTDNDIKNYWNTKLKKKLIG 119 (318)
Q Consensus 67 kk~~WT~EED~~Llelv~k~---G~----kWs~IAk~LpgRT~nq~KnRW~~llrkk~~~ 119 (318)
..+.||.|||.+|.+.|-+| |+ -...+++.| +||+.+|.=|||..+|+.+..
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~ 61 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEE 61 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHH
Confidence 45789999999999999988 43 588999999 999999999999999998864
No 23
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.56 E-value=0.00028 Score=70.88 Aligned_cols=50 Identities=18% Similarity=0.371 Sum_probs=45.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 65 NINHGEFSDDEDRIICSLFASIG-SRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 65 ~ikk~~WT~EED~~Llelv~k~G-~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
.+-...||.+|+.+|++++..|| ++|..||.++..||..+||.+|.++.-
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHh
Confidence 45566799999999999999999 799999999999999999999986643
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=97.50 E-value=0.00031 Score=52.27 Aligned_cols=46 Identities=11% Similarity=0.210 Sum_probs=40.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-ch---HHHhhhCC-CC-CHHHHHHHHHHHH
Q 020997 68 HGEFSDDEDRIICSLFASIGS-RW---STIAAQLP-GR-TDNDIKNYWNTKL 113 (318)
Q Consensus 68 k~~WT~EED~~Llelv~k~G~-kW---s~IAk~Lp-gR-T~nq~KnRW~~ll 113 (318)
+-.||+||..+++++++.+|. .| ..|++.+. .| |..+|+.|...+.
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 457999999999999999997 99 99999873 45 9999999987654
No 25
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.47 E-value=4.2e-05 Score=56.86 Aligned_cols=49 Identities=10% Similarity=0.211 Sum_probs=42.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCc---eeecccccccc-cCCcccccccccc
Q 020997 13 KKGPWSPEEDAKLKEYIEKNGTGGNW---IALPHKAGLMR-CGKSCRLRWLNYL 62 (318)
Q Consensus 13 kKG~WT~EEDe~L~~lV~kyG~~~~W---~~Ia~~lg~~R-t~kQCreRW~n~L 62 (318)
++-.||+||.++++++|+.+|. ++| +.|++.++..| |..||+.+.+.|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~-g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGG-PDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCC-CcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 4678999999999999999997 589 99999887567 9999999887664
No 26
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.25 E-value=0.0004 Score=63.70 Aligned_cols=99 Identities=20% Similarity=0.395 Sum_probs=70.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCceeecccccc--cccCCcccccccccc-CCCC--------------------CCCCCC
Q 020997 16 PWSPEEDAKLKEYIEKNGTGGNWIALPHKAGL--MRCGKSCRLRWLNYL-RPNI--------------------NHGEFS 72 (318)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~--~Rt~kQCreRW~n~L-~P~i--------------------kk~~WT 72 (318)
+|++++|-.|+.+|..-. +...|+..+.. .-|-+...+||+..| +|.+ .+.+||
T Consensus 1 rW~~~DDl~Li~av~~~~---~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS 77 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN---DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFS 77 (199)
T ss_pred CCCchhhHHHHHHHHHhc---CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCC
Confidence 699999999999998754 46555554431 234566778998876 3332 467899
Q ss_pred HHHHHHHHHHHHHhCC---chHHHhh-----hCCCCCHHHHHHHHHHHHHhhh
Q 020997 73 DDEDRIICSLFASIGS---RWSTIAA-----QLPGRTDNDIKNYWNTKLKKKL 117 (318)
Q Consensus 73 ~EED~~Llelv~k~G~---kWs~IAk-----~LpgRT~nq~KnRW~~llrkk~ 117 (318)
.+|+++|......... .+.+|=. +-++||+.++.++|..+.+..+
T Consensus 78 ~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~L 130 (199)
T PF13325_consen 78 KEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHL 130 (199)
T ss_pred HHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhch
Confidence 9999999987765543 5666632 2378999999999996544443
No 27
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.18 E-value=0.00031 Score=71.93 Aligned_cols=53 Identities=26% Similarity=0.499 Sum_probs=48.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC-CchHHHhhhCCCCCHHHHHHHHHHHHHhhhh
Q 020997 66 INHGEFSDDEDRIICSLFASIG-SRWSTIAAQLPGRTDNDIKNYWNTKLKKKLI 118 (318)
Q Consensus 66 ikk~~WT~EED~~Llelv~k~G-~kWs~IAk~LpgRT~nq~KnRW~~llrkk~~ 118 (318)
++-+-|+.-||++|..+|.+|| +.|++|++.|+-.|+.||++||...+.+.+.
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~ 58 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIK 58 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHh
Confidence 5667899999999999999999 5899999999999999999999988777654
No 28
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.12 E-value=0.00049 Score=53.66 Aligned_cols=50 Identities=26% Similarity=0.532 Sum_probs=35.6
Q ss_pred CCCCCHHHHHHHHHHHHH------hC--C------chHHHhhhC----CCCCHHHHHHHHHHHHHhhh
Q 020997 68 HGEFSDDEDRIICSLFAS------IG--S------RWSTIAAQL----PGRTDNDIKNYWNTKLKKKL 117 (318)
Q Consensus 68 k~~WT~EED~~Llelv~k------~G--~------kWs~IAk~L----pgRT~nq~KnRW~~llrkk~ 117 (318)
+..||.+|...||+++.+ ++ + .|..||..| ..||+.||++||+++.+.-.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk 68 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYK 68 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence 357999999999999887 21 1 599999886 36999999999999766543
No 29
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=96.92 E-value=0.00027 Score=70.99 Aligned_cols=51 Identities=24% Similarity=0.547 Sum_probs=46.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccccC
Q 020997 11 NVKKGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLR 63 (318)
Q Consensus 11 ~lkKG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~ 63 (318)
.+-..-||.+|+-.|++++..||- +||..||.++| .|+..+|+++|.+++-
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~-GNW~dIA~hIG-tKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGF-GNWQDIADHIG-TKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCC-CcHHHHHHHHc-ccchHHHHHHHHHHHh
Confidence 455678999999999999999999 69999999999 9999999999988863
No 30
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.75 E-value=0.0016 Score=58.45 Aligned_cols=53 Identities=13% Similarity=0.293 Sum_probs=44.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC-------chHHHhhhCCCCCHHHHHHHHHHHHHhhhhc
Q 020997 66 INHGEFSDDEDRIICSLFASIGS-------RWSTIAAQLPGRTDNDIKNYWNTKLKKKLIG 119 (318)
Q Consensus 66 ikk~~WT~EED~~Llelv~k~G~-------kWs~IAk~LpgRT~nq~KnRW~~llrkk~~~ 119 (318)
.+.+.||.|+|.+|.+.|-+|+. -...++..| +||..+|..|||..+|+++..
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Yee 62 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQE 62 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHHH
Confidence 34678999999999999988864 356667788 999999999999999988763
No 31
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.71 E-value=0.0021 Score=66.26 Aligned_cols=46 Identities=9% Similarity=0.263 Sum_probs=42.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHH
Q 020997 67 NHGEFSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTK 112 (318)
Q Consensus 67 kk~~WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~l 112 (318)
.+..||++|..+|++++..||-.|.+||.++.+||..+|--|+..+
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhc
Confidence 4668999999999999999999999999999999999999988654
No 32
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.63 E-value=0.00093 Score=68.90 Aligned_cols=49 Identities=24% Similarity=0.554 Sum_probs=44.9
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccc
Q 020997 10 ANVKKGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNY 61 (318)
Q Consensus 10 p~lkKG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~ 61 (318)
-...++.||.+|+.+|+++|++||. +|.+||.+++ +|+..||-.++.+.
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie~y~d--dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIEMYGD--DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred cccCCCCccHHHHHHHHHHHHHhcc--cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 4456789999999999999999998 9999999999 99999999998764
No 33
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.58 E-value=0.0026 Score=64.63 Aligned_cols=45 Identities=13% Similarity=0.203 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHH
Q 020997 68 HGEFSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTK 112 (318)
Q Consensus 68 k~~WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~l 112 (318)
...||.+|..+|++.++.||-.|.+||+++..||..||--||-++
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 448999999999999999999999999999999999999988654
No 34
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.48 E-value=0.0046 Score=47.19 Aligned_cols=50 Identities=12% Similarity=0.314 Sum_probs=32.7
Q ss_pred CCCCCHHHHHHHHHHHHHhC--------C-chHHHhhhCC-CCCHHHHHHHHHHHHHhhh
Q 020997 68 HGEFSDDEDRIICSLFASIG--------S-RWSTIAAQLP-GRTDNDIKNYWNTKLKKKL 117 (318)
Q Consensus 68 k~~WT~EED~~Llelv~k~G--------~-kWs~IAk~Lp-gRT~nq~KnRW~~llrkk~ 117 (318)
+.++|.|||.+|++.|.++. + =|.++++.-+ .+|-...|+||...|+.+.
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 45899999999999997652 2 3999998876 9999999999988877654
No 35
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.43 E-value=0.00081 Score=68.22 Aligned_cols=46 Identities=28% Similarity=0.535 Sum_probs=43.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccc
Q 020997 13 KKGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNY 61 (318)
Q Consensus 13 kKG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~ 61 (318)
....||.+|-.+|++.|+.||. +|.+||.++| +|+..||..|+.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD--dW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD--DWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh--hHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 4568999999999999999998 9999999999 99999999999765
No 36
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=95.84 E-value=0.0018 Score=57.49 Aligned_cols=50 Identities=26% Similarity=0.577 Sum_probs=41.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCC-----CceeecccccccccCCccccccccccC
Q 020997 12 VKKGPWSPEEDAKLKEYIEKNGTGG-----NWIALPHKAGLMRCGKSCRLRWLNYLR 63 (318)
Q Consensus 12 lkKG~WT~EEDe~L~~lV~kyG~~~-----~W~~Ia~~lg~~Rt~kQCreRW~n~L~ 63 (318)
.+...||.|||..|...|-+|-..+ .+..++..++ ||+..|.-||.-+++
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VR 56 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVR 56 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHH
Confidence 4567899999999999999994322 4777888886 999999999998876
No 37
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=95.83 E-value=0.0027 Score=48.50 Aligned_cols=53 Identities=30% Similarity=0.454 Sum_probs=32.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCC-------CCceeecccccccccCCccccccccccCCCC
Q 020997 14 KGPWSPEEDAKLKEYIEKNGTG-------GNWIALPHKAGLMRCGKSCRLRWLNYLRPNI 66 (318)
Q Consensus 14 KG~WT~EEDe~L~~lV~kyG~~-------~~W~~Ia~~lg~~Rt~kQCreRW~n~L~P~i 66 (318)
+.+||.|||+.|+++|..+... .-|..+++.-+..++-.+-|+||..+|.+..
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 4689999999999999766321 1388888776657888888999999987643
No 38
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.77 E-value=0.022 Score=43.68 Aligned_cols=49 Identities=27% Similarity=0.499 Sum_probs=40.2
Q ss_pred CCCCCHHHHHHHHHHHHHh-----CC------------chHHHhhhC-----CCCCHHHHHHHHHHHHHhh
Q 020997 68 HGEFSDDEDRIICSLFASI-----GS------------RWSTIAAQL-----PGRTDNDIKNYWNTKLKKK 116 (318)
Q Consensus 68 k~~WT~EED~~Llelv~k~-----G~------------kWs~IAk~L-----pgRT~nq~KnRW~~llrkk 116 (318)
+..||.+|..+|++++.+| |. .|..|+..| +.||..++|.+|.++....
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~ 72 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKA 72 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHH
Confidence 3469999999999999987 31 499999875 3699999999999876543
No 39
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.31 E-value=0.025 Score=55.49 Aligned_cols=48 Identities=19% Similarity=0.447 Sum_probs=43.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhC-CchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 67 NHGEFSDDEDRIICSLFASIG-SRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 67 kk~~WT~EED~~Llelv~k~G-~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
--..|+.+|+.+|++.....| ++|..||.++..|+...||.+|..+..
T Consensus 62 ~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 62 GEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred cCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 345699999999999999999 799999999999999999999876554
No 40
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.10 E-value=0.07 Score=59.66 Aligned_cols=99 Identities=15% Similarity=0.338 Sum_probs=73.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCcccc---------------------------------------
Q 020997 16 PWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRL--------------------------------------- 56 (318)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCre--------------------------------------- 56 (318)
-|+.-+=..++.+.++||. .+...||..+. +++...+++
T Consensus 826 ~w~~~~f~~f~~~~~~~gr-~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~ 903 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGR-NDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAI 903 (1033)
T ss_pred cccHHHHHHHHHHHHHhCH-hHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4888888888888999997 68888998886 677644442
Q ss_pred ---------ccccc-c-CCCCCCCCCCHHHHHHHHHHHHHhC-CchHHHhhhC------------CCCCHHHHHHHHHHH
Q 020997 57 ---------RWLNY-L-RPNINHGEFSDDEDRIICSLFASIG-SRWSTIAAQL------------PGRTDNDIKNYWNTK 112 (318)
Q Consensus 57 ---------RW~n~-L-~P~ikk~~WT~EED~~Llelv~k~G-~kWs~IAk~L------------pgRT~nq~KnRW~~l 112 (318)
-|... + .+.-++..+|+|||+.|+-.+.+|| .+|.+|...+ ..||+..+..|.+.+
T Consensus 904 ~~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l 983 (1033)
T PLN03142 904 GKKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTL 983 (1033)
T ss_pred HHHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHH
Confidence 22111 0 1233455699999999999999999 6899984432 379999999999988
Q ss_pred HHhh
Q 020997 113 LKKK 116 (318)
Q Consensus 113 lrkk 116 (318)
++-.
T Consensus 984 ~~~~ 987 (1033)
T PLN03142 984 IRLI 987 (1033)
T ss_pred HHHH
Confidence 7654
No 41
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.04 E-value=0.0027 Score=49.48 Aligned_cols=48 Identities=25% Similarity=0.540 Sum_probs=32.4
Q ss_pred CCCCCHHHHHHHHHHHHH--h----C---C-CC--Cceeecccc---cccccCCccccccccc
Q 020997 14 KGPWSPEEDAKLKEYIEK--N----G---T-GG--NWIALPHKA---GLMRCGKSCRLRWLNY 61 (318)
Q Consensus 14 KG~WT~EEDe~L~~lV~k--y----G---~-~~--~W~~Ia~~l---g~~Rt~kQCreRW~n~ 61 (318)
+-.||.+|...|++++.. + + . .. -|..||..| |..|++.||+.||.+.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 357999999999999987 1 1 1 11 499999886 4569999999999775
No 42
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=93.80 E-value=0.01 Score=53.29 Aligned_cols=50 Identities=22% Similarity=0.520 Sum_probs=38.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCC-----ceeecccccccccCCccccccccccC
Q 020997 12 VKKGPWSPEEDAKLKEYIEKNGTGGN-----WIALPHKAGLMRCGKSCRLRWLNYLR 63 (318)
Q Consensus 12 lkKG~WT~EEDe~L~~lV~kyG~~~~-----W~~Ia~~lg~~Rt~kQCreRW~n~L~ 63 (318)
.+...||.|||..|.+.|-.|+..+. ...++..+. |+..+|..||.-+++
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 46789999999999999999976332 444555555 999999999965554
No 43
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=92.94 E-value=0.19 Score=48.98 Aligned_cols=51 Identities=18% Similarity=0.276 Sum_probs=41.6
Q ss_pred CCCCCHHHHHHHHHHHHHh----------CCchHHHhhhC----CCCCHHHHHHHHHHHHHhhhh
Q 020997 68 HGEFSDDEDRIICSLFASI----------GSRWSTIAAQL----PGRTDNDIKNYWNTKLKKKLI 118 (318)
Q Consensus 68 k~~WT~EED~~Llelv~k~----------G~kWs~IAk~L----pgRT~nq~KnRW~~llrkk~~ 118 (318)
...|+.+|-..||++..+. +..|..||+.+ --||+.+||++|.++.++-..
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~ 118 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKK 118 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Confidence 4689999999999998654 34699999854 359999999999998876544
No 44
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=92.85 E-value=0.19 Score=51.31 Aligned_cols=48 Identities=19% Similarity=0.318 Sum_probs=42.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 67 NHGEFSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 67 kk~~WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
-++.||.||-.++-+++..||+...+|.+.||.|+-..+...|...-+
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK 233 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKK 233 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHH
Confidence 456899999999999999999999999999999999999988765433
No 45
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=92.62 E-value=0.24 Score=42.00 Aligned_cols=52 Identities=25% Similarity=0.478 Sum_probs=41.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC----chHHHhhhC------------CCCCHHHHHHHHHHHHHhh
Q 020997 65 NINHGEFSDDEDRIICSLFASIGS----RWSTIAAQL------------PGRTDNDIKNYWNTKLKKK 116 (318)
Q Consensus 65 ~ikk~~WT~EED~~Llelv~k~G~----kWs~IAk~L------------pgRT~nq~KnRW~~llrkk 116 (318)
+-++..||++||+-|+-++.+||- .|..|...+ ..||+..+..|-+.+++-.
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i 113 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLI 113 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHH
Confidence 456678999999999999999996 899887543 2699999999999988643
No 46
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=92.21 E-value=0.23 Score=49.88 Aligned_cols=86 Identities=20% Similarity=0.310 Sum_probs=65.2
Q ss_pred CceeecccccccccCCccccccccccCCC-------------------------CCCCCCCHHHHHHHHHHHHHhCCchH
Q 020997 37 NWIALPHKAGLMRCGKSCRLRWLNYLRPN-------------------------INHGEFSDDEDRIICSLFASIGSRWS 91 (318)
Q Consensus 37 ~W~~Ia~~lg~~Rt~kQCreRW~n~L~P~-------------------------ikk~~WT~EED~~Llelv~k~G~kWs 91 (318)
.|..+.-.-. .|.+.--..+|.+.-++. ++...||.||-+-|++|++.|.-+|-
T Consensus 75 ~W~w~pFtn~-aRkD~~~l~HWvr~~d~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf~ 153 (445)
T KOG2656|consen 75 PWKWVPFTNS-ARKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRFF 153 (445)
T ss_pred CceeeccCCc-cccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeEE
Confidence 5666554333 577777778887774332 12346999999999999999999999
Q ss_pred HHhhh-----CCC-CCHHHHHHHHHHHHHhhhhccccc
Q 020997 92 TIAAQ-----LPG-RTDNDIKNYWNTKLKKKLIGIVNQ 123 (318)
Q Consensus 92 ~IAk~-----Lpg-RT~nq~KnRW~~llrkk~~~~~~~ 123 (318)
.||.. ++. ||-.++|.||....++.+..+.+.
T Consensus 154 VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~s 191 (445)
T KOG2656|consen 154 VIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARAPS 191 (445)
T ss_pred EEeeccchhhccccccHHHHHHHHHHHHHHHHHccCCC
Confidence 99976 655 999999999998888776654443
No 47
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=92.16 E-value=0.02 Score=43.94 Aligned_cols=50 Identities=26% Similarity=0.393 Sum_probs=38.6
Q ss_pred CCCCCCHHHHHHHHHHHHHh-----CC----------CCCceeeccccc----ccccCCcccccccccc
Q 020997 13 KKGPWSPEEDAKLKEYIEKN-----GT----------GGNWIALPHKAG----LMRCGKSCRLRWLNYL 62 (318)
Q Consensus 13 kKG~WT~EEDe~L~~lV~ky-----G~----------~~~W~~Ia~~lg----~~Rt~kQCreRW~n~L 62 (318)
++..||++|.+.|+++|++| |. ..-|..|+..+. ..|+..|++.+|.+..
T Consensus 1 R~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 1 RKPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 35689999999999999988 31 124888887662 2599999999998753
No 48
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=92.15 E-value=0.41 Score=37.58 Aligned_cols=46 Identities=26% Similarity=0.556 Sum_probs=35.6
Q ss_pred CCCHHHHHHHHHHHHHh---CC----------chHHHhhhC---C--CCCHHHHHHHHHHHHHh
Q 020997 70 EFSDDEDRIICSLFASI---GS----------RWSTIAAQL---P--GRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 70 ~WT~EED~~Llelv~k~---G~----------kWs~IAk~L---p--gRT~nq~KnRW~~llrk 115 (318)
.||+++++.|++++.+. |+ .|..|+..| + ..|..+|++||..+.+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~ 64 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKD 64 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHH
Confidence 59999999999998654 22 499999876 2 35789999999876554
No 49
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=90.00 E-value=0.072 Score=52.33 Aligned_cols=48 Identities=23% Similarity=0.513 Sum_probs=44.6
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccccC
Q 020997 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLR 63 (318)
Q Consensus 14 KG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~ 63 (318)
---|+.+|+-.|++.....|- ++|.-||..+| .|+...|+++|..++.
T Consensus 63 ~e~WgadEEllli~~~~TlGl-GNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGL-GNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCC-CcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 346999999999999999999 69999999999 9999999999988876
No 50
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=89.44 E-value=0.61 Score=46.97 Aligned_cols=48 Identities=21% Similarity=0.262 Sum_probs=43.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 68 HGEFSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 68 k~~WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
..+|+.+|-++...+...+|..++.|+..+|.|...|||.+|.+--|+
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~ 412 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKV 412 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhh
Confidence 447999999999999999999999999999999999999999765443
No 51
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=87.09 E-value=1.8 Score=30.53 Aligned_cols=41 Identities=24% Similarity=0.270 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 73 DDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 73 ~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
+++++.++.++...|-.|.+||+.+ |.|...|+.+...-++
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 4677888889889999999999999 9999999998765543
No 52
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=82.53 E-value=5.5 Score=43.31 Aligned_cols=54 Identities=9% Similarity=0.129 Sum_probs=44.0
Q ss_pred ccccccCCCC---CCCCCCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHH
Q 020997 57 RWLNYLRPNI---NHGEFSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWN 110 (318)
Q Consensus 57 RW~n~L~P~i---kk~~WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~ 110 (318)
||..|+--+. ....||..|-.+.-+++..|-+.+-.|++.++++|-.+|-..|+
T Consensus 605 ~~~~h~la~Y~Y~gSd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYY 661 (907)
T KOG4167|consen 605 RLKCHPLANYHYAGSDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYY 661 (907)
T ss_pred CccccccceeeecCcccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHH
Confidence 4555543322 34579999999999999999999999999999999999987643
No 53
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=81.49 E-value=1.4 Score=34.96 Aligned_cols=25 Identities=36% Similarity=0.759 Sum_probs=14.6
Q ss_pred CCCCCCCCCHHHHHHH--------HHHHHHhCC
Q 020997 10 ANVKKGPWSPEEDAKL--------KEYIEKNGT 34 (318)
Q Consensus 10 p~lkKG~WT~EEDe~L--------~~lV~kyG~ 34 (318)
|.-..|-||+|+|+.| .+++++||.
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG~ 75 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHGE 75 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH-H
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhCH
Confidence 4455799999999999 456678874
No 54
>smart00595 MADF subfamily of SANT domain.
Probab=79.59 E-value=3 Score=32.24 Aligned_cols=26 Identities=27% Similarity=0.615 Sum_probs=22.1
Q ss_pred chHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 89 RWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 89 kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
-|..||..| |-|..+|+.+|+++...
T Consensus 29 aW~~Ia~~l-~~~~~~~~~kw~~LR~~ 54 (89)
T smart00595 29 AWEEIAEEL-GLSVEECKKRWKNLRDR 54 (89)
T ss_pred HHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 499999999 55999999999977543
No 55
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=78.43 E-value=4.2 Score=35.09 Aligned_cols=46 Identities=20% Similarity=0.221 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHhCC-chHHHhhhCCCCCHHHHHHHHHHHHHhhhhc
Q 020997 73 DDEDRIICSLFASIGS-RWSTIAAQLPGRTDNDIKNYWNTKLKKKLIG 119 (318)
Q Consensus 73 ~EED~~Llelv~k~G~-kWs~IAk~LpgRT~nq~KnRW~~llrkk~~~ 119 (318)
++-|..|+++..+-|. .|++||+.+ |-|...|+.|++.+......+
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 3578889988888885 899999999 999999999999998776553
No 56
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=77.83 E-value=5.8 Score=27.46 Aligned_cols=38 Identities=21% Similarity=0.386 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHhCC-chHHHhhhCCCCCHHHHHHHHHHH
Q 020997 74 DEDRIICSLFASIGS-RWSTIAAQLPGRTDNDIKNYWNTK 112 (318)
Q Consensus 74 EED~~Llelv~k~G~-kWs~IAk~LpgRT~nq~KnRW~~l 112 (318)
+=|..|+.+..+-|. .|.+||+.+ |=|...|..|++.+
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 457888888888885 899999999 99999999998764
No 57
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=74.14 E-value=4.9 Score=35.13 Aligned_cols=46 Identities=15% Similarity=0.125 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHhCC-chHHHhhhCCCCCHHHHHHHHHHHHHhhhhc
Q 020997 73 DDEDRIICSLFASIGS-RWSTIAAQLPGRTDNDIKNYWNTKLKKKLIG 119 (318)
Q Consensus 73 ~EED~~Llelv~k~G~-kWs~IAk~LpgRT~nq~KnRW~~llrkk~~~ 119 (318)
++-|.+|+.+.++-|. .|++||+.+ |=+...|+.|++.+.+..+..
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCeE
Confidence 5678888888888875 899999999 999999999999998887653
No 58
>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=73.64 E-value=2.3 Score=36.13 Aligned_cols=36 Identities=36% Similarity=0.455 Sum_probs=28.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCC--CCCceeecccc
Q 020997 10 ANVKKGPWSPEEDAKLKEYIEKNGT--GGNWIALPHKA 45 (318)
Q Consensus 10 p~lkKG~WT~EEDe~L~~lV~kyG~--~~~W~~Ia~~l 45 (318)
|+-++..||.|||.-|+-++.+||- .+.|..|.+.+
T Consensus 45 ~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 45 PNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp STSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 3677899999999999999999997 23788876654
No 59
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=70.84 E-value=11 Score=26.19 Aligned_cols=41 Identities=24% Similarity=0.298 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 74 DEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 74 EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
++++.++.+.--.|..+.+||..| |-|...|+.+-+..+++
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~k 47 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKK 47 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHH
Confidence 455666666666677999999999 89999999987766654
No 60
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=70.55 E-value=50 Score=33.64 Aligned_cols=80 Identities=18% Similarity=0.259 Sum_probs=48.5
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHhCCCCCceeeccccc--ccccCCccccccccccCCCCCCCCCCHHHHHHHHHHHH
Q 020997 7 CDKANVKKGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAG--LMRCGKSCRLRWLNYLRPNINHGEFSDDEDRIICSLFA 84 (318)
Q Consensus 7 ~~Kp~lkKG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg--~~Rt~kQCreRW~n~L~P~ikk~~WT~EED~~Llelv~ 84 (318)
-++.....|.|+++=|+...++.+-|-+-+.-++|-..-| -||+ .|+..+-
T Consensus 69 ~D~~~daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRN---------------------------ELIarYI 121 (455)
T KOG3841|consen 69 TDNQRDAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRN---------------------------ELIARYI 121 (455)
T ss_pred CccccccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchH---------------------------HHHHHHH
Confidence 3444567899999999999999998865322333221111 0121 1444333
Q ss_pred HhCCchHHHhhhCCCCCHHHHHHHHHHHHHhhhhccc
Q 020997 85 SIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKKLIGIV 121 (318)
Q Consensus 85 k~G~kWs~IAk~LpgRT~nq~KnRW~~llrkk~~~~~ 121 (318)
++.. =..||..||-.|-..+-|++++...
T Consensus 122 Klrt--------gktRTrKQVSSHIQVlarrk~reiq 150 (455)
T KOG3841|consen 122 KLRT--------GKTRTRKQVSSHIQVLARRKLREIQ 150 (455)
T ss_pred HHhc--------CCchhHHHHHHHHHHHHHHHHHHHH
Confidence 3310 1369999999998877777776543
No 61
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=69.61 E-value=1.5 Score=42.73 Aligned_cols=48 Identities=31% Similarity=0.481 Sum_probs=36.9
Q ss_pred CCCCHHHHHHHHHHHHHh------CC--CCCceeecccc---cccccCCcccccccccc
Q 020997 15 GPWSPEEDAKLKEYIEKN------GT--GGNWIALPHKA---GLMRCGKSCRLRWLNYL 62 (318)
Q Consensus 15 G~WT~EEDe~L~~lV~ky------G~--~~~W~~Ia~~l---g~~Rt~kQCreRW~n~L 62 (318)
..|+.+|-..|+.+..+. |. ...|..||..+ |.-|++.||+.||.+..
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 689999999999988643 11 12699999844 34599999999997753
No 62
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=68.40 E-value=7.9 Score=41.32 Aligned_cols=49 Identities=8% Similarity=0.421 Sum_probs=39.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchHHHhh----------hCCCCCHHHHHHHHHHHHHh
Q 020997 67 NHGEFSDDEDRIICSLFASIGSRWSTIAA----------QLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 67 kk~~WT~EED~~Llelv~k~G~kWs~IAk----------~LpgRT~nq~KnRW~~llrk 115 (318)
+|..||-.|+.-...+.+++|+.+.+|-. ...-+|..+++.+|+.++++
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~ 145 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRR 145 (782)
T ss_pred cccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHH
Confidence 36789999999999999999999998822 23346778888888766554
No 63
>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=67.76 E-value=12 Score=30.85 Aligned_cols=36 Identities=25% Similarity=0.286 Sum_probs=27.7
Q ss_pred HHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 79 ICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 79 Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
++.+.-..|-.+.+||+.| |.+...|++++....++
T Consensus 121 il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 121 IFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3444334577999999999 99999999999876544
No 64
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=67.74 E-value=2.2 Score=43.10 Aligned_cols=62 Identities=18% Similarity=0.228 Sum_probs=48.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCcccccccccc--CCC-----C-CCCCCCHHHHHH
Q 020997 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYL--RPN-----I-NHGEFSDDEDRI 78 (318)
Q Consensus 14 KG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L--~P~-----i-kk~~WT~EED~~ 78 (318)
--+||.+|-++..++....|+ ++..|+..++ +|..+|+..+|.+-- +|. + .+-|+..+|-..
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGt--dF~LIs~lfP-~R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k 434 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGT--DFSLISSLFP-NRERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNK 434 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcc--hHHHHHHhcC-chhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhh
Confidence 368999999999999999998 9999999888 999999999887642 221 1 244666666543
No 65
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=66.20 E-value=7.2 Score=34.69 Aligned_cols=41 Identities=24% Similarity=0.284 Sum_probs=35.1
Q ss_pred CCCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHH
Q 020997 70 EFSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNT 111 (318)
Q Consensus 70 ~WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~ 111 (318)
.||+|+.++|.+|. .-|-.=++||+.|.+.|.|+|.-+-+.
T Consensus 2 ~Wtde~~~~L~~lw-~~G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHhCCcchhhhhhhhhc
Confidence 59999999999988 448889999999977999999776543
No 66
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=65.39 E-value=13 Score=34.53 Aligned_cols=46 Identities=11% Similarity=0.208 Sum_probs=36.6
Q ss_pred CCCHHHHHHHHHHHHHhCCchHHHhhh--C-CCCCHHHHHHHHHHHHHhh
Q 020997 70 EFSDDEDRIICSLFASIGSRWSTIAAQ--L-PGRTDNDIKNYWNTKLKKK 116 (318)
Q Consensus 70 ~WT~EED~~Llelv~k~G~kWs~IAk~--L-pgRT~nq~KnRW~~llrkk 116 (318)
.|++++|-+|+.+| +.|+.-..|+.- | -.-|-..|..||..++-..
T Consensus 1 rW~~~DDl~Li~av-~~~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~ 49 (199)
T PF13325_consen 1 RWKPEDDLLLINAV-EQTNDLESVHLGVKFSCKFTLQEIEERWYALLYDP 49 (199)
T ss_pred CCCchhhHHHHHHH-HHhcCHHHHHccCCcCCcCcHHHHHHHHHHHHcCh
Confidence 59999999999999 457777788764 3 3458899999999887543
No 67
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=64.54 E-value=9 Score=30.35 Aligned_cols=16 Identities=19% Similarity=0.580 Sum_probs=9.5
Q ss_pred CCCCCCCCCHHHHHHH
Q 020997 64 PNINHGEFSDDEDRII 79 (318)
Q Consensus 64 P~ikk~~WT~EED~~L 79 (318)
|.-..|-||+|+|..|
T Consensus 43 P~n~~GiWT~eDD~~L 58 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEML 58 (87)
T ss_dssp -TT-TT---HHHHHHH
T ss_pred CCCCCCCcCHHHHHHH
Confidence 5556788999999999
No 68
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=63.17 E-value=60 Score=33.02 Aligned_cols=43 Identities=19% Similarity=0.306 Sum_probs=38.0
Q ss_pred CCCCHHHHHHHHHHHHHhCCchHHHhh-hCCCCCHHHHHHHHHH
Q 020997 69 GEFSDDEDRIICSLFASIGSRWSTIAA-QLPGRTDNDIKNYWNT 111 (318)
Q Consensus 69 ~~WT~EED~~Llelv~k~G~kWs~IAk-~LpgRT~nq~KnRW~~ 111 (318)
..|+++|-+..-+-++.||+.+..|.+ .++.|+--.|-..|.-
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYl 321 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYL 321 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHH
Confidence 469999999999999999999999976 6899999999877653
No 69
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=58.22 E-value=36 Score=33.82 Aligned_cols=46 Identities=24% Similarity=0.485 Sum_probs=36.3
Q ss_pred CCCCCHHHHHHHHHHHHHh-CC---chHHHhhhCCCCCHHHHHHHHHHHH
Q 020997 68 HGEFSDDEDRIICSLFASI-GS---RWSTIAAQLPGRTDNDIKNYWNTKL 113 (318)
Q Consensus 68 k~~WT~EED~~Llelv~k~-G~---kWs~IAk~LpgRT~nq~KnRW~~ll 113 (318)
-..||.-|.+.|+++.+-. |. .-.+|++.|+||+...|++.-..+-
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK 70 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLK 70 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHH
Confidence 4469999999999887654 54 4578999999999999998655443
No 70
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=56.33 E-value=24 Score=28.08 Aligned_cols=45 Identities=16% Similarity=0.185 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHhCC-chHHHhhhCCCCCHHHHHHHHHHHHHhhhhc
Q 020997 74 DEDRIICSLFASIGS-RWSTIAAQLPGRTDNDIKNYWNTKLKKKLIG 119 (318)
Q Consensus 74 EED~~Llelv~k~G~-kWs~IAk~LpgRT~nq~KnRW~~llrkk~~~ 119 (318)
+.|..|+.+..+.|. .+++||+.+ |-+...|+.+.+.+....+..
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 568888888888874 899999999 999999999999988876543
No 71
>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=54.93 E-value=18 Score=28.76 Aligned_cols=29 Identities=31% Similarity=0.637 Sum_probs=23.6
Q ss_pred HHHHHHHHHHhCCchHHHhhhCCCCCHHHH
Q 020997 76 DRIICSLFASIGSRWSTIAAQLPGRTDNDI 105 (318)
Q Consensus 76 D~~Llelv~k~G~kWs~IAk~LpgRT~nq~ 105 (318)
|+.|..+....|..|..+|.+| |=|..+|
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 4568889999999999999999 6555544
No 72
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=52.82 E-value=15 Score=39.11 Aligned_cols=49 Identities=20% Similarity=0.372 Sum_probs=43.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 66 INHGEFSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 66 ikk~~WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
...++|+.+|-.+.-.+..+.|.+.+.|+..+|+|...+||.++...-+
T Consensus 407 ~~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE~ 455 (584)
T KOG2009|consen 407 LETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEEK 455 (584)
T ss_pred cccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhhh
Confidence 3467899999999999999999999999999999999999998865433
No 73
>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=52.50 E-value=41 Score=21.99 Aligned_cols=40 Identities=18% Similarity=0.281 Sum_probs=28.6
Q ss_pred CCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHH
Q 020997 71 FSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTK 112 (318)
Q Consensus 71 WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~l 112 (318)
++++ +..++.++-.-|-.+..||+.+ |=+...|+.+....
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 4444 4555566556788999999998 78888887766554
No 74
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=52.42 E-value=35 Score=26.63 Aligned_cols=37 Identities=16% Similarity=0.325 Sum_probs=26.9
Q ss_pred HHHHHHHHhCC--------chHHHhhhCCC---CC--HHHHHHHHHHHHH
Q 020997 78 IICSLFASIGS--------RWSTIAAQLPG---RT--DNDIKNYWNTKLK 114 (318)
Q Consensus 78 ~Llelv~k~G~--------kWs~IAk~Lpg---RT--~nq~KnRW~~llr 114 (318)
.|..+|.+.|+ +|..||+.|.- -+ ..++|..|..+|.
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 47788888885 69999998822 12 3678888877664
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=52.35 E-value=30 Score=27.58 Aligned_cols=34 Identities=26% Similarity=0.212 Sum_probs=26.0
Q ss_pred HHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 81 SLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 81 elv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
.++-..|..+.+||+.+ |=+...|+++.+..+++
T Consensus 120 ~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 120 VLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred hhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34334578999999999 77999999988775544
No 76
>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=52.05 E-value=15 Score=27.35 Aligned_cols=27 Identities=26% Similarity=0.498 Sum_probs=21.8
Q ss_pred chHHHhhhCCC-CCHHHHHHHHHHHHHh
Q 020997 89 RWSTIAAQLPG-RTDNDIKNYWNTKLKK 115 (318)
Q Consensus 89 kWs~IAk~Lpg-RT~nq~KnRW~~llrk 115 (318)
-|..||..|.. -+..+|+.+|+++...
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~ 55 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDR 55 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHH
Confidence 59999999943 6788999999986543
No 77
>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=50.95 E-value=25 Score=28.00 Aligned_cols=31 Identities=19% Similarity=0.424 Sum_probs=24.9
Q ss_pred HHHHHHHHHHhCCchHHHhhhCCCCCHHHHHH
Q 020997 76 DRIICSLFASIGSRWSTIAAQLPGRTDNDIKN 107 (318)
Q Consensus 76 D~~Llelv~k~G~kWs~IAk~LpgRT~nq~Kn 107 (318)
|..|..+....|..|..+|..| |=+...|..
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI~~ 34 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEINQ 34 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHHHH
Confidence 5678888999999999999999 666655443
No 78
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=50.45 E-value=33 Score=28.95 Aligned_cols=34 Identities=15% Similarity=0.127 Sum_probs=25.6
Q ss_pred HHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 81 SLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 81 elv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
.+....|-.+.+||+.| |.+...|+.+....+++
T Consensus 138 ~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 138 TLREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREA 171 (182)
T ss_pred HHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33334577999999999 89999999987754433
No 79
>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=49.45 E-value=82 Score=31.40 Aligned_cols=87 Identities=18% Similarity=0.352 Sum_probs=62.7
Q ss_pred CCCCCHHHHHHHHHHHHHh-CC-CCCceeecccccccccCCccccccccccCCCCCCCCCCHHHHHHHHHHHHH-h----
Q 020997 14 KGPWSPEEDAKLKEYIEKN-GT-GGNWIALPHKAGLMRCGKSCRLRWLNYLRPNINHGEFSDDEDRIICSLFAS-I---- 86 (318)
Q Consensus 14 KG~WT~EEDe~L~~lV~ky-G~-~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~P~ikk~~WT~EED~~Llelv~k-~---- 86 (318)
-..||.-|...|+.+.... |. .-+-.+|++.+. +|+..++++ |.+.|+ ++.+.+++++ |
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g~ 86 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRD-FLQQLK------------GRVAREAIQKVHPGGL 86 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHH-HHHHHH------------HHHHHHHHHHhccccc
Confidence 4579999999999988755 43 114456777777 898888876 444443 3556666665 2
Q ss_pred -CC------------chHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 87 -GS------------RWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 87 -G~------------kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
|. -|..+|+.+.|.-...+-.-|-++|-
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 22 29999999999999999988877654
No 80
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=49.21 E-value=5.8 Score=43.16 Aligned_cols=42 Identities=12% Similarity=0.283 Sum_probs=37.9
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccc
Q 020997 15 GPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWL 59 (318)
Q Consensus 15 G~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~ 59 (318)
.+||+.|-....+++..|.. ++..|++.+. +++.+||-+-|.
T Consensus 620 d~WTp~E~~lF~kA~y~~~K--DF~~v~km~~-~KtVaqCVeyYY 661 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSK--DFIFVQKMVK-SKTVAQCVEYYY 661 (907)
T ss_pred ccccHHHHHHHHHHHHHhcc--cHHHHHHHhc-cccHHHHHHHHH
Confidence 57999999999999999987 8999998888 999999988653
No 81
>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=48.69 E-value=21 Score=27.82 Aligned_cols=30 Identities=30% Similarity=0.623 Sum_probs=23.7
Q ss_pred HHHHHHHHHHhCCchHHHhhhCCCCCHHHHH
Q 020997 76 DRIICSLFASIGSRWSTIAAQLPGRTDNDIK 106 (318)
Q Consensus 76 D~~Llelv~k~G~kWs~IAk~LpgRT~nq~K 106 (318)
|..|..+.+..|..|.++|..| |=+..+|.
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI~ 33 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDID 33 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHHH
Confidence 4567888899999999999999 66655443
No 82
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=48.16 E-value=42 Score=26.46 Aligned_cols=38 Identities=18% Similarity=0.355 Sum_probs=27.7
Q ss_pred HHHHHHHHhCC--------chHHHhhhCCC-----CCHHHHHHHHHHHHHh
Q 020997 78 IICSLFASIGS--------RWSTIAAQLPG-----RTDNDIKNYWNTKLKK 115 (318)
Q Consensus 78 ~Llelv~k~G~--------kWs~IAk~Lpg-----RT~nq~KnRW~~llrk 115 (318)
.|..+|.+.|+ .|..||..|.- .....+|..|..+|.+
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 47778888875 79999998732 2356778888777654
No 83
>PRK04217 hypothetical protein; Provisional
Probab=47.92 E-value=42 Score=28.15 Aligned_cols=45 Identities=13% Similarity=0.048 Sum_probs=36.3
Q ss_pred CCCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHhh
Q 020997 70 EFSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKK 116 (318)
Q Consensus 70 ~WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrkk 116 (318)
.-|.+| ..++.+....|-...+||+.+ |-+...|+.+|+...++.
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 456666 677788877888999999999 999999999998655443
No 84
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=47.35 E-value=38 Score=28.48 Aligned_cols=30 Identities=20% Similarity=0.187 Sum_probs=24.1
Q ss_pred HhCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 85 SIGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 85 k~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
..|-.+.+||+.| |-|...|++++...+++
T Consensus 139 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 139 VEGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3467899999999 99999999988764433
No 85
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=46.11 E-value=37 Score=27.65 Aligned_cols=47 Identities=15% Similarity=0.225 Sum_probs=31.2
Q ss_pred CCCCHHHHHHHHHHHHHh----CC----chHHHh----hhCC-CCCHHHHHHHHHHHHHh
Q 020997 69 GEFSDDEDRIICSLFASI----GS----RWSTIA----AQLP-GRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 69 ~~WT~EED~~Llelv~k~----G~----kWs~IA----k~Lp-gRT~nq~KnRW~~llrk 115 (318)
.-||+|+|..|++.+..| |. .|..+- ..|. .=+.+|+.++-+.+-++
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~K 64 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKK 64 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHH
Confidence 359999999999998776 62 454443 3332 23777888876655443
No 86
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=45.96 E-value=42 Score=29.55 Aligned_cols=30 Identities=17% Similarity=0.140 Sum_probs=24.3
Q ss_pred HHHhCCchHHHhhhCCCCCHHHHHHHHHHHH
Q 020997 83 FASIGSRWSTIAAQLPGRTDNDIKNYWNTKL 113 (318)
Q Consensus 83 v~k~G~kWs~IAk~LpgRT~nq~KnRW~~ll 113 (318)
..-.|....+||..| |-+...|++|+..-.
T Consensus 146 ~~~~g~s~~EIA~~l-g~s~~tV~~rl~rar 175 (192)
T PRK09643 146 VDMQGYSVADAARML-GVAEGTVKSRCARGR 175 (192)
T ss_pred HHHcCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 334577899999999 999999999995443
No 87
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=44.20 E-value=45 Score=28.60 Aligned_cols=29 Identities=10% Similarity=-0.011 Sum_probs=23.7
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
.|..+.+||..| |-|...|+++.....++
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 467899999999 99999999987755443
No 88
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=43.96 E-value=47 Score=29.35 Aligned_cols=36 Identities=19% Similarity=0.206 Sum_probs=28.0
Q ss_pred HHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHH
Q 020997 77 RIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKL 113 (318)
Q Consensus 77 ~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~ll 113 (318)
..++++..-.|-.+.+||+.| |-+...|+.+|...-
T Consensus 141 ~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR 176 (185)
T PF07638_consen 141 RRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR 176 (185)
T ss_pred HHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 334444444577999999999 999999999998654
No 89
>PLN03162 golden-2 like transcription factor; Provisional
Probab=43.50 E-value=2.4e+02 Score=28.95 Aligned_cols=45 Identities=13% Similarity=0.110 Sum_probs=36.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCC---chHHHhhhC--CCCCHHHHHHHHHHH
Q 020997 68 HGEFSDDEDRIICSLFASIGS---RWSTIAAQL--PGRTDNDIKNYWNTK 112 (318)
Q Consensus 68 k~~WT~EED~~Llelv~k~G~---kWs~IAk~L--pgRT~nq~KnRW~~l 112 (318)
|-.||+|--++.+++|.++|. .=+.|-+.| +|=|...|+.+...+
T Consensus 237 RLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKY 286 (526)
T PLN03162 237 KVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKY 286 (526)
T ss_pred cccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 346999999999999999994 346676654 889999999987543
No 90
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=41.44 E-value=78 Score=25.65 Aligned_cols=47 Identities=15% Similarity=0.191 Sum_probs=37.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchHHHhhhCCCC-CHHHHHHHHHHHHHh
Q 020997 68 HGEFSDDEDRIICSLFASIGSRWSTIAAQLPGR-TDNDIKNYWNTKLKK 115 (318)
Q Consensus 68 k~~WT~EED~~Llelv~k~G~kWs~IAk~LpgR-T~nq~KnRW~~llrk 115 (318)
+..||.|.-..+++++.+-|..=+.||+.+ |- ..++++.+|+.+...
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l~~W~~~~~~~ 52 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQLYKWRIQLQKG 52 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHHHHHHHHHHHc
Confidence 568999999999999999999889999999 75 666666655544443
No 91
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=41.30 E-value=16 Score=39.16 Aligned_cols=47 Identities=11% Similarity=0.263 Sum_probs=34.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCCceeecccccc---------cccCCcccccccccc
Q 020997 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGL---------MRCGKSCRLRWLNYL 62 (318)
Q Consensus 14 KG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~---------~Rt~kQCreRW~n~L 62 (318)
|..||-.|.+....+++.+|. ++.+|-..+.. .++-.|.|.+|.+.+
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK--dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK--DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV 143 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc--cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence 678999999999999999998 88887222211 345567777776544
No 92
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=40.78 E-value=44 Score=30.38 Aligned_cols=46 Identities=20% Similarity=0.148 Sum_probs=37.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHhhh
Q 020997 69 GEFSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKKL 117 (318)
Q Consensus 69 ~~WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrkk~ 117 (318)
...|+.|-++|.-+. -|-.=.+||..| +.+...||+|..++++|-.
T Consensus 147 ~~LT~RE~eVL~lla--~G~snkeIA~~L-~iS~~TVk~h~~~i~~KL~ 192 (211)
T COG2197 147 ELLTPRELEVLRLLA--EGLSNKEIAEEL-NLSEKTVKTHVSNILRKLG 192 (211)
T ss_pred CCCCHHHHHHHHHHH--CCCCHHHHHHHH-CCCHhHHHHHHHHHHHHcC
Confidence 368888877765444 366779999999 9999999999999998754
No 93
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=40.11 E-value=41 Score=26.53 Aligned_cols=33 Identities=24% Similarity=0.575 Sum_probs=23.4
Q ss_pred CCCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHH
Q 020997 70 EFSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIK 106 (318)
Q Consensus 70 ~WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~K 106 (318)
+-|+++ |..+....|..|.++|..| |=+..+|.
T Consensus 4 ~~t~~~---l~~ia~~iG~~Wk~Lar~L-Gls~~dI~ 36 (86)
T cd08318 4 PVTGEQ---ITVFANKLGEDWKTLAPHL-EMKDKEIR 36 (86)
T ss_pred CCCHHH---HHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 345544 3335578899999999999 77766663
No 94
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=39.69 E-value=16 Score=37.20 Aligned_cols=49 Identities=14% Similarity=0.285 Sum_probs=41.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCCceeeccc-----ccccccCCccccccccc
Q 020997 11 NVKKGPWSPEEDAKLKEYIEKNGTGGNWIALPHK-----AGLMRCGKSCRLRWLNY 61 (318)
Q Consensus 11 ~lkKG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~-----lg~~Rt~kQCreRW~n~ 61 (318)
++.-..||.||-+.|++++++|-- .|..||.. .+..||.....+||..+
T Consensus 127 ~l~dn~WskeETD~LF~lck~fDL--Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 127 HLNDNSWSKEETDYLFDLCKRFDL--RFFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred hhccccccHHHHHHHHHHHHhcCe--eEEEEeeccchhhccccccHHHHHHHHHHH
Confidence 345578999999999999999987 79999887 55559999999998654
No 95
>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=39.62 E-value=60 Score=27.60 Aligned_cols=29 Identities=24% Similarity=0.377 Sum_probs=23.5
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
.|-...+||..| |-|...|++++...+++
T Consensus 134 ~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~ 162 (169)
T TIGR02954 134 HDLTIKEIAEVM-NKPEGTVKTYLHRALKK 162 (169)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466889999999 88999999998765544
No 96
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=39.38 E-value=64 Score=23.49 Aligned_cols=35 Identities=20% Similarity=0.457 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHH
Q 020997 74 DEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYW 109 (318)
Q Consensus 74 EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW 109 (318)
++|+..+.++.+.|-+-.+||+.+ ||+.+.|++.-
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 445666788889999999999999 99999888753
No 97
>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=39.00 E-value=48 Score=28.51 Aligned_cols=29 Identities=10% Similarity=0.072 Sum_probs=23.4
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
.|-...+||..| |=|...|+++....+++
T Consensus 153 ~~~s~~EIA~~l-gis~~tv~~~l~rar~~ 181 (190)
T TIGR02939 153 EGLSYEDIARIM-DCPVGTVRSRIFRAREA 181 (190)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 366899999999 88899999998765544
No 98
>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=38.55 E-value=44 Score=26.38 Aligned_cols=31 Identities=19% Similarity=0.479 Sum_probs=24.7
Q ss_pred HHHHHHHHHHhCCchHHHhhhCCCCCHHHHHH
Q 020997 76 DRIICSLFASIGSRWSTIAAQLPGRTDNDIKN 107 (318)
Q Consensus 76 D~~Llelv~k~G~kWs~IAk~LpgRT~nq~Kn 107 (318)
|..|..+....|..|..+|+.| |=+...|.+
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI~~ 34 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQIHQ 34 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 4567778889999999999999 667666654
No 99
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=38.21 E-value=58 Score=27.90 Aligned_cols=28 Identities=11% Similarity=0.020 Sum_probs=22.9
Q ss_pred CCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 87 GSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 87 G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
|....+||..| |-+...|+++.....++
T Consensus 152 g~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T TIGR02948 152 DLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 66789999999 88999999988755443
No 100
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=38.17 E-value=33 Score=39.67 Aligned_cols=74 Identities=20% Similarity=0.249 Sum_probs=49.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccccCCCCCCCCCCHHHHHHHHHHHHHh-CCchH
Q 020997 13 KKGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNINHGEFSDDEDRIICSLFASI-GSRWS 91 (318)
Q Consensus 13 kKG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~P~ikk~~WT~EED~~Llelv~k~-G~kWs 91 (318)
.---|..+||.+|+-.|-+||- ++|.+|-.-..++=+.+ ..|...+-.+.|=...-..|+.+...+ +.+|.
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGy-gswe~Ir~Dp~L~l~dK-------i~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~ 1203 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGY-GSWEAIRLDPDLGLTDK-------IFLVETVPQAKHLQRRADYLLSLLRKHDKGNTP 1203 (1373)
T ss_pred cccCCCchhhhhHhhhhhhccc-ccHHHhccCccccchhh-------hcccccCCchHHHHHHHHHHHHHHhhcccCCCc
Confidence 4566999999999999999999 69998854333222222 122222455667777777788777776 44555
Q ss_pred HHh
Q 020997 92 TIA 94 (318)
Q Consensus 92 ~IA 94 (318)
...
T Consensus 1204 ~~~ 1206 (1373)
T KOG0384|consen 1204 KKL 1206 (1373)
T ss_pred hhh
Confidence 443
No 101
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=37.67 E-value=66 Score=28.10 Aligned_cols=30 Identities=23% Similarity=0.104 Sum_probs=24.0
Q ss_pred HhCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 85 SIGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 85 k~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
-.|-...+||..| |-+...|+++....+++
T Consensus 120 ~~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 120 LEGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred hcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3477899999999 99999999998654433
No 102
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=37.66 E-value=80 Score=27.20 Aligned_cols=29 Identities=17% Similarity=0.226 Sum_probs=23.9
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
.|....+||..| |-+...|+.++..-+++
T Consensus 146 ~g~s~~eIA~~l-~is~~tV~~~l~ra~~~ 174 (184)
T PRK12512 146 EGASIKETAAKL-SMSEGAVRVALHRGLAA 174 (184)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 467889999999 99999999998765544
No 103
>smart00351 PAX Paired Box domain.
Probab=37.20 E-value=74 Score=26.69 Aligned_cols=70 Identities=14% Similarity=0.131 Sum_probs=45.6
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCCceeeccccccccc-CCcccccccc--ccCCCC----CCCCCCHHHHHHHHHHHHHh
Q 020997 14 KGPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRC-GKSCRLRWLN--YLRPNI----NHGEFSDDEDRIICSLFASI 86 (318)
Q Consensus 14 KG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt-~kQCreRW~n--~L~P~i----kk~~WT~EED~~Llelv~k~ 86 (318)
..+++.|+-++++.++. -|. ....||+.++..|. ...+..||.. .+.|.- ....-+++++..|++++.+.
T Consensus 15 ~~~~s~~~R~riv~~~~-~G~--s~~~iA~~~gvs~~tV~kwi~r~~~~G~~~pk~~gg~rp~~~~~~~~~~I~~~~~~~ 91 (125)
T smart00351 15 GRPLPDEERQRIVELAQ-NGV--RPCDISRQLCVSHGCVSKILGRYYETGSIRPGAIGGSKPKVATPKVVKKIADYKQEN 91 (125)
T ss_pred CCCCCHHHHHHHHHHHH-cCC--CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCcCCCCCCCCccCHHHHHHHHHHHHHC
Confidence 35689999999998886 454 67899999885543 4445555543 244421 22235666677777777766
No 104
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=37.10 E-value=80 Score=26.32 Aligned_cols=29 Identities=14% Similarity=0.154 Sum_probs=23.6
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
.|-.-.+||..| |-+...|+++...-+++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 121 EDMDVAETAAAM-GCSEGSVKTHCSRATHA 149 (161)
T ss_pred hcCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466889999999 99999999997755443
No 105
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=35.61 E-value=80 Score=27.39 Aligned_cols=30 Identities=17% Similarity=0.226 Sum_probs=24.0
Q ss_pred HhCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 85 SIGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 85 k~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
..|....+||..| |-+...|+.+...-+++
T Consensus 153 ~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 153 VVGLSAEETAEAV-GSTPGAVRVAQHRALAR 182 (189)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3477899999999 89999999987655443
No 106
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=34.77 E-value=85 Score=26.69 Aligned_cols=29 Identities=28% Similarity=0.338 Sum_probs=23.5
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
.|-.-.+||+.| |.+...|+.+...-+++
T Consensus 133 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 161 (173)
T PRK09645 133 RGWSTAQIAADL-GIPEGTVKSRLHYALRA 161 (173)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 466789999999 99999999998755443
No 107
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=34.73 E-value=73 Score=27.67 Aligned_cols=28 Identities=11% Similarity=0.119 Sum_probs=22.8
Q ss_pred CCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 87 GSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 87 G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
|-...+||..| |-|...|++++...+++
T Consensus 154 g~s~~eIA~~l-gis~~tv~~~l~Rar~~ 181 (193)
T PRK11923 154 GLSYEDIASVM-QCPVGTVRSRIFRAREA 181 (193)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 56789999999 88999999998755443
No 108
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=34.54 E-value=85 Score=27.27 Aligned_cols=28 Identities=11% Similarity=0.067 Sum_probs=23.3
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
.|-...+||..| |-|...|++++...++
T Consensus 146 ~~~s~~eIA~~l-gis~~tV~~~l~Rar~ 173 (189)
T PRK12515 146 HEKSVEEVGEIV-GIPESTVKTRMFYARK 173 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 466899999999 8899999999876443
No 109
>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=34.22 E-value=88 Score=27.45 Aligned_cols=34 Identities=9% Similarity=0.033 Sum_probs=25.6
Q ss_pred HHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 81 SLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 81 elv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
.+..-.|....+||..| |-+.+.|+.|....+++
T Consensus 141 ~l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~ 174 (188)
T TIGR02943 141 MMREVLGFESDEICQEL-EISTSNCHVLLYRARLS 174 (188)
T ss_pred HHHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 33334477899999999 99999999987655433
No 110
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=34.14 E-value=53 Score=26.21 Aligned_cols=26 Identities=15% Similarity=0.351 Sum_probs=21.1
Q ss_pred HHHHHHHHHHhCCchHHHhhhCCCCCH
Q 020997 76 DRIICSLFASIGSRWSTIAAQLPGRTD 102 (318)
Q Consensus 76 D~~Llelv~k~G~kWs~IAk~LpgRT~ 102 (318)
|..|..+.+..|..|.++|..| |=+.
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L-~vs~ 29 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL-QFSV 29 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc-CCCH
Confidence 5667888899999999999998 4444
No 111
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=34.06 E-value=97 Score=26.81 Aligned_cols=36 Identities=19% Similarity=0.147 Sum_probs=28.1
Q ss_pred HHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHhhhh
Q 020997 82 LFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKKLI 118 (318)
Q Consensus 82 lv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrkk~~ 118 (318)
|....|-...+||..| |-+...||.|...-+++-+.
T Consensus 138 L~~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~ 173 (178)
T PRK12529 138 MATLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLS 173 (178)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 3334477899999999 99999999998876665543
No 112
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=34.05 E-value=54 Score=24.99 Aligned_cols=29 Identities=28% Similarity=0.631 Sum_probs=21.1
Q ss_pred HHHHHHHHHH-hCCchHHHhhhCCCCCHHHH
Q 020997 76 DRIICSLFAS-IGSRWSTIAAQLPGRTDNDI 105 (318)
Q Consensus 76 D~~Llelv~k-~G~kWs~IAk~LpgRT~nq~ 105 (318)
+..|..++.. .|..|..+|+.| |=+..+|
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 4556677777 899999999999 4444443
No 113
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=33.62 E-value=94 Score=26.03 Aligned_cols=29 Identities=14% Similarity=-0.041 Sum_probs=23.2
Q ss_pred HhCCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 85 SIGSRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 85 k~G~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
..|-.-.+||+.| |-+...|+++....++
T Consensus 120 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 148 (160)
T PRK09642 120 LEEKSYQEIALQE-KIEVKTVEMKLYRARK 148 (160)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3466889999999 9999999998764443
No 114
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=33.56 E-value=83 Score=26.33 Aligned_cols=45 Identities=20% Similarity=0.230 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHHhCC-chHHHhhhCCCCCHHHHHHHHHHHHHhhhh
Q 020997 73 DDEDRIICSLFASIGS-RWSTIAAQLPGRTDNDIKNYWNTKLKKKLI 118 (318)
Q Consensus 73 ~EED~~Llelv~k~G~-kWs~IAk~LpgRT~nq~KnRW~~llrkk~~ 118 (318)
++-|.+|+++.++-|. .++.||+.+ |-|...|++|-+.+.+..+.
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI 52 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVI 52 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCce
Confidence 3567788888877775 899999999 99999999999888877654
No 115
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=33.56 E-value=90 Score=27.37 Aligned_cols=29 Identities=10% Similarity=0.038 Sum_probs=23.5
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
.|-...+||..| |-+...|+.|....+++
T Consensus 156 eg~s~~EIA~~l-gis~~tVk~rl~ra~~~ 184 (194)
T PRK12531 156 EELPHQQVAEMF-DIPLGTVKSRLRLAVEK 184 (194)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 466889999999 99999999987755544
No 116
>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=33.27 E-value=54 Score=26.08 Aligned_cols=28 Identities=29% Similarity=0.596 Sum_probs=22.2
Q ss_pred HHHHHHHhCCchHHHhhhCCCCCHHHHHH
Q 020997 79 ICSLFASIGSRWSTIAAQLPGRTDNDIKN 107 (318)
Q Consensus 79 Llelv~k~G~kWs~IAk~LpgRT~nq~Kn 107 (318)
|-.+....|..|..+|..| |=++.+|..
T Consensus 5 l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 5 LDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 4455678899999999999 777777655
No 117
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=33.19 E-value=1.7e+02 Score=20.42 Aligned_cols=46 Identities=17% Similarity=0.409 Sum_probs=36.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC----chHHHhhhCCCCCHHHHHHHHHHHH
Q 020997 67 NHGEFSDDEDRIICSLFASIGS----RWSTIAAQLPGRTDNDIKNYWNTKL 113 (318)
Q Consensus 67 kk~~WT~EED~~Llelv~k~G~----kWs~IAk~LpgRT~nq~KnRW~~ll 113 (318)
.+..+|.++-..|.+.+..... .-..||..+ |=+..+|+++|.+.-
T Consensus 3 ~r~~~t~~q~~~L~~~f~~~~~p~~~~~~~la~~l-~l~~~~V~~WF~nrR 52 (57)
T PF00046_consen 3 KRTRFTKEQLKVLEEYFQENPYPSKEEREELAKEL-GLTERQVKNWFQNRR 52 (57)
T ss_dssp SSSSSSHHHHHHHHHHHHHSSSCHHHHHHHHHHHH-TSSHHHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHHHHhccccccccccccccc-cccccccccCHHHhH
Confidence 3567899999999999987432 467888888 999999999887543
No 118
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=33.17 E-value=95 Score=26.52 Aligned_cols=36 Identities=19% Similarity=0.235 Sum_probs=27.1
Q ss_pred HHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHhh
Q 020997 80 CSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKK 116 (318)
Q Consensus 80 lelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrkk 116 (318)
+.|..-.|-...+||+.| |-+...|+.+-..-+++-
T Consensus 128 ~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~ 163 (172)
T PRK12523 128 FLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQC 163 (172)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 333444577899999999 999999999876655543
No 119
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=32.73 E-value=90 Score=21.12 Aligned_cols=34 Identities=21% Similarity=0.202 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHH
Q 020997 74 DEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNY 108 (318)
Q Consensus 74 EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnR 108 (318)
-|...|.++..++|++.++.|+.| |=+...+..+
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~k 38 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRK 38 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHH
Confidence 367889999999999999999998 5555555444
No 120
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=32.24 E-value=95 Score=27.22 Aligned_cols=27 Identities=4% Similarity=-0.001 Sum_probs=22.8
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHH
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKL 113 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~ll 113 (318)
.|-...+||..| |-+...||.|...-+
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~RAr 175 (189)
T PRK12530 149 LELSSEQICQEC-DISTSNLHVLLYRAR 175 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 467899999999 999999999876443
No 121
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=31.45 E-value=54 Score=22.57 Aligned_cols=36 Identities=25% Similarity=0.391 Sum_probs=18.3
Q ss_pred CCCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHH
Q 020997 70 EFSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKN 107 (318)
Q Consensus 70 ~WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~Kn 107 (318)
.+|.+|=..|..+ .+-|..=.+||+.| ||+...|.+
T Consensus 4 ~Lt~~eR~~I~~l-~~~G~s~~~IA~~l-g~s~sTV~r 39 (44)
T PF13936_consen 4 HLTPEERNQIEAL-LEQGMSIREIAKRL-GRSRSTVSR 39 (44)
T ss_dssp --------HHHHH-HCS---HHHHHHHT-T--HHHHHH
T ss_pred chhhhHHHHHHHH-HHcCCCHHHHHHHH-CcCcHHHHH
Confidence 4677766666555 46788889999999 999988866
No 122
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=31.31 E-value=14 Score=31.89 Aligned_cols=45 Identities=16% Similarity=0.171 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccccCCCC
Q 020997 19 PEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNI 66 (318)
Q Consensus 19 ~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~P~i 66 (318)
.+-|.+|+++..+.|. ..|..||+.++ -+...|+.|+.+..+.++
T Consensus 8 D~~D~~Il~~Lq~d~R-~s~~eiA~~lg--lS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 8 DNLDRGILEALMENAR-TPYAELAKQFG--VSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred CHHHHHHHHHHHHcCC-CCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 3579999999999987 79999999998 888899999987765543
No 123
>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=30.36 E-value=25 Score=31.25 Aligned_cols=33 Identities=18% Similarity=0.420 Sum_probs=26.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCceeeccccc-ccccC
Q 020997 16 PWSPEEDAKLKEYIEKNGTGGNWIALPHKAG-LMRCG 51 (318)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg-~~Rt~ 51 (318)
.||.|+.++|.++... |. .-.+||..+| ..|+.
T Consensus 2 ~Wtde~~~~L~~lw~~-G~--SasqIA~~lg~vsRnA 35 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GL--SASQIARQLGGVSRNA 35 (162)
T ss_pred CCCHHHHHHHHHHHHc-CC--CHHHHHHHhCCcchhh
Confidence 5999999999999754 44 6788999998 45554
No 124
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=29.20 E-value=1.3e+02 Score=25.23 Aligned_cols=29 Identities=21% Similarity=0.237 Sum_probs=23.0
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
.|-.-.+||..| |-+...|+.|...-+++
T Consensus 120 ~~~s~~eIA~~l-gis~~tv~~~l~ra~~~ 148 (159)
T PRK12527 120 EGLSHQQIAEHL-GISRSLVEKHIVNAMKH 148 (159)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 355779999999 99999999987755443
No 125
>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=28.94 E-value=1.2e+02 Score=25.87 Aligned_cols=28 Identities=21% Similarity=0.292 Sum_probs=23.0
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
.|-...+||..| |-+...|+.|...-++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 176 (183)
T TIGR02999 149 AGLTVEEIAELL-GVSVRTVERDWRFARA 176 (183)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 466899999999 9999999998875443
No 126
>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=28.40 E-value=1.2e+02 Score=25.86 Aligned_cols=30 Identities=17% Similarity=0.457 Sum_probs=23.9
Q ss_pred HhCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 85 SIGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 85 k~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
-.|-...+||..| |-|...|+.+....+++
T Consensus 154 ~~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~ 183 (189)
T TIGR02984 154 LEGLSFAEVAERM-DRSEGAVSMLWVRGLAR 183 (189)
T ss_pred hcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3467889999999 99999999988765544
No 127
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=28.23 E-value=1.2e+02 Score=25.90 Aligned_cols=27 Identities=15% Similarity=0.278 Sum_probs=22.4
Q ss_pred CCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 87 GSRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 87 G~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
|-.-.+||+.| |.+...|+++...-++
T Consensus 145 g~s~~eIA~~l-gis~~tV~~~l~Rar~ 171 (179)
T PRK12514 145 GLSYKELAERH-DVPLNTMRTWLRRSLL 171 (179)
T ss_pred CCCHHHHHHHH-CCChHHHHHHHHHHHH
Confidence 66789999999 9999999998765443
No 128
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=27.76 E-value=1.2e+02 Score=26.52 Aligned_cols=29 Identities=17% Similarity=0.180 Sum_probs=23.8
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
.|-...+||..| |-+...|+.+...-+++
T Consensus 145 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 173 (185)
T PRK09649 145 LGLSYADAAAVC-GCPVGTIRSRVARARDA 173 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466789999999 99999999998765544
No 129
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=27.42 E-value=1.3e+02 Score=26.44 Aligned_cols=29 Identities=10% Similarity=-0.017 Sum_probs=22.8
Q ss_pred HhCCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 85 SIGSRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 85 k~G~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
-.|-.+.+||+.| |=+...|+++-..-++
T Consensus 150 ~~g~s~~eIA~~l-gis~~tV~~~l~Ra~~ 178 (196)
T PRK12524 150 IEGLSNPEIAEVM-EIGVEAVESLTARGKR 178 (196)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 3467899999999 8899999988764433
No 130
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=27.38 E-value=1.2e+02 Score=26.45 Aligned_cols=28 Identities=11% Similarity=0.106 Sum_probs=22.9
Q ss_pred HhCCchHHHhhhCCCCCHHHHHHHHHHHH
Q 020997 85 SIGSRWSTIAAQLPGRTDNDIKNYWNTKL 113 (318)
Q Consensus 85 k~G~kWs~IAk~LpgRT~nq~KnRW~~ll 113 (318)
-.|-.-.+||..| |-+...|+.+...-+
T Consensus 150 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar 177 (195)
T PRK12532 150 ILGFSSDEIQQMC-GISTSNYHTIMHRAR 177 (195)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3467889999999 999999999876543
No 131
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=27.36 E-value=1.1e+02 Score=26.34 Aligned_cols=29 Identities=28% Similarity=0.399 Sum_probs=23.9
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
.|-...+||+.| |-+...|+++...-++.
T Consensus 134 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 162 (172)
T PRK09651 134 DGLTYSEIAHKL-GVSVSSVKKYVAKATEH 162 (172)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 356789999999 99999999998765544
No 132
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=27.35 E-value=1.3e+02 Score=25.81 Aligned_cols=28 Identities=21% Similarity=0.189 Sum_probs=22.8
Q ss_pred CCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 87 GSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 87 G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
|-.-.+||..| |-|...|+.+.+..+++
T Consensus 151 ~~s~~eIA~~l-gis~~~V~~~l~ra~~~ 178 (186)
T PRK13919 151 GYTHREAAQLL-GLPLGTLKTRARRALSR 178 (186)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 55789999999 99999999988765544
No 133
>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=27.19 E-value=70 Score=25.29 Aligned_cols=21 Identities=24% Similarity=0.506 Sum_probs=18.6
Q ss_pred HHHHHHHHHhCCchHHHhhhC
Q 020997 77 RIICSLFASIGSRWSTIAAQL 97 (318)
Q Consensus 77 ~~Llelv~k~G~kWs~IAk~L 97 (318)
.-|..+..+.|..|..+|.+|
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L 23 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL 23 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc
Confidence 347788899999999999998
No 134
>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=27.16 E-value=1.3e+02 Score=25.20 Aligned_cols=39 Identities=18% Similarity=0.167 Sum_probs=28.1
Q ss_pred HHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 76 DRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 76 D~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
++.++.+.--.|-.-.+||..| |-+...|+.+....+++
T Consensus 115 ~r~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~ 153 (162)
T TIGR02983 115 QRAVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALAR 153 (162)
T ss_pred HHHHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3334444444567789999999 99999999998765544
No 135
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=27.11 E-value=1.4e+02 Score=24.62 Aligned_cols=28 Identities=18% Similarity=0.262 Sum_probs=21.6
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
.|-...+||+.| |-+...|+++-...++
T Consensus 121 ~~~s~~EIA~~l-~is~~tV~~~~~ra~~ 148 (154)
T PRK06759 121 VGKTMGEIALET-EMTYYQVRWIYRQALE 148 (154)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 356789999999 9999999887665443
No 136
>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.
Probab=27.03 E-value=1.9e+02 Score=24.30 Aligned_cols=47 Identities=21% Similarity=0.473 Sum_probs=32.6
Q ss_pred CCCHHHHHHHHHHHHHh------------CCc-------------------hHHHhhhCCCCCHHHHHHHHHHHHHhh
Q 020997 70 EFSDDEDRIICSLFASI------------GSR-------------------WSTIAAQLPGRTDNDIKNYWNTKLKKK 116 (318)
Q Consensus 70 ~WT~EED~~Llelv~k~------------G~k-------------------Ws~IAk~LpgRT~nq~KnRW~~llrkk 116 (318)
.+|.+||-.|...|.++ |.. ....+...|..|.+.-|+|++..+...
T Consensus 1 kfTA~dDY~Lc~~i~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~fF~~~~~~~p~HT~~sWRDR~RKfv~~~ 78 (105)
T PF09197_consen 1 KFTADDDYALCKAIKKQFYRDIYQKDPDTGSSLISDGDSKEFIPKRDMRSFFKDLARKNPRHTENSWRDRYRKFVSEY 78 (105)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHSB-TTSS-B----------------TTHHHHHHHHTTTS-HHHHHHHHHHTHHHH
T ss_pred CCChHHHHHHHHHHHHHHHHHHHhhCcccccccccCCCccccccchhhHHHHHHHHHcCCccchhHHHHHHHHHHHHc
Confidence 47999999999888664 111 456677889999999999998766543
No 137
>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=27.00 E-value=47 Score=27.48 Aligned_cols=28 Identities=18% Similarity=0.105 Sum_probs=23.1
Q ss_pred CCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 87 GSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 87 G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
|-.+.+||..| |-+...|++++....++
T Consensus 121 g~s~~eIA~~l-gis~~tv~~~l~Ra~~~ 148 (154)
T TIGR02950 121 EFSYKEIAELL-NLSLAKVKSNLFRARKE 148 (154)
T ss_pred cCcHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 45799999999 99999999998765443
No 138
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=26.84 E-value=1.5e+02 Score=24.94 Aligned_cols=32 Identities=25% Similarity=0.335 Sum_probs=24.8
Q ss_pred HHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 83 FASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 83 v~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
..-.|-...+||..| |-+...|+.|...-+++
T Consensus 125 ~~~~g~s~~EIA~~l-~is~~tV~~~l~ra~~~ 156 (161)
T PRK12528 125 AQVDGLGYGEIATEL-GISLATVKRYLNKAAMR 156 (161)
T ss_pred HHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333477899999999 99999999987765543
No 139
>PRK00118 putative DNA-binding protein; Validated
Probab=26.53 E-value=1.5e+02 Score=24.55 Aligned_cols=39 Identities=10% Similarity=0.128 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHH
Q 020997 73 DDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTK 112 (318)
Q Consensus 73 ~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~l 112 (318)
++.++.++.+....|-..++||+.+ |-|...|+.+-...
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RA 57 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRT 57 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 4456667788878899999999999 99999998876543
No 140
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=26.45 E-value=15 Score=32.15 Aligned_cols=45 Identities=18% Similarity=0.254 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccccCCCC
Q 020997 19 PEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNI 66 (318)
Q Consensus 19 ~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~P~i 66 (318)
.+-|.+|+.+..+.|. ..|..||+.++ -+...|+.|+.+..+.++
T Consensus 13 D~~D~~IL~~Lq~d~R-~s~~eiA~~lg--lS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGR-ISNVELSKRVG--LSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCC-CCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 4569999999999987 69999999998 778889999887766554
No 141
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=26.18 E-value=1.5e+02 Score=27.05 Aligned_cols=45 Identities=22% Similarity=0.236 Sum_probs=35.8
Q ss_pred CCCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHhhh
Q 020997 70 EFSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKKL 117 (318)
Q Consensus 70 ~WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrkk~ 117 (318)
..|+-|-+.| +++.+ |....+||+.| +-+...||++...+++|-.
T Consensus 155 ~Lt~rE~~Vl-~l~~~-G~s~~eIA~~L-~iS~~TVk~~~~~i~~Kl~ 199 (216)
T PRK10100 155 LLTHREKEIL-NKLRI-GASNNEIARSL-FISENTVKTHLYNLFKKIA 199 (216)
T ss_pred CCCHHHHHHH-HHHHc-CCCHHHHHHHh-CCCHHHHHHHHHHHHHHhC
Confidence 4787666655 45545 99999999999 9999999999988877653
No 142
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=26.11 E-value=1.3e+02 Score=25.98 Aligned_cols=28 Identities=11% Similarity=0.044 Sum_probs=21.9
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
.|-...+||+.| |-+...|+.+....++
T Consensus 143 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 170 (186)
T PRK05602 143 QGLSNIEAAAVM-DISVDALESLLARGRR 170 (186)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHH
Confidence 466789999998 8899999988765443
No 143
>TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in a limited number of Gram-positive bacterial lineages.
Probab=26.11 E-value=1.4e+02 Score=24.90 Aligned_cols=27 Identities=22% Similarity=0.265 Sum_probs=21.3
Q ss_pred CCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 87 GSRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 87 G~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
|-...+||+.| |-+...|+.+-...++
T Consensus 138 g~s~~eIA~~l-~is~~tv~~~l~ra~~ 164 (170)
T TIGR02952 138 NLPIAEVARIL-GKTEGAVKILQFRAIK 164 (170)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 66789999999 8899999888654443
No 144
>PRK15201 fimbriae regulatory protein FimW; Provisional
Probab=26.05 E-value=1.7e+02 Score=27.12 Aligned_cols=45 Identities=24% Similarity=0.282 Sum_probs=36.1
Q ss_pred CCCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHhhh
Q 020997 70 EFSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKKL 117 (318)
Q Consensus 70 ~WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrkk~ 117 (318)
..|+-|-++|.-+. + |....+||+.| +-+...|+++...+++|-.
T Consensus 133 ~LSpRErEVLrLLA-q-GkTnKEIAe~L-~IS~rTVkth~srImkKLg 177 (198)
T PRK15201 133 HFSVTERHLLKLIA-S-GYHLSETAALL-SLSEEQTKSLRRSIMRKLH 177 (198)
T ss_pred CCCHHHHHHHHHHH-C-CCCHHHHHHHh-CCCHHHHHHHHHHHHHHhC
Confidence 47887776665444 3 88999999999 9999999999988887753
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=25.88 E-value=76 Score=24.82 Aligned_cols=33 Identities=24% Similarity=0.483 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHH
Q 020997 73 DDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKN 107 (318)
Q Consensus 73 ~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~Kn 107 (318)
.||-++|+.. ...|..|...|..| |=++..|++
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 5677777632 25688999999999 777777765
No 146
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=25.68 E-value=1.3e+02 Score=26.48 Aligned_cols=30 Identities=27% Similarity=0.316 Sum_probs=25.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCCceeecc
Q 020997 12 VKKGPWSPEEDAKLKEYIEKNGTGGNWIALPH 43 (318)
Q Consensus 12 lkKG~WT~EEDe~L~~lV~kyG~~~~W~~Ia~ 43 (318)
.+..+-|+.|.+-|..+|++||. ++..++.
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGd--Dy~aMar 141 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGD--DYKAMAR 141 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCc--cHHHHhc
Confidence 55678899999999999999997 8887653
No 147
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=25.61 E-value=1.5e+02 Score=25.60 Aligned_cols=31 Identities=19% Similarity=0.114 Sum_probs=24.5
Q ss_pred HHhCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 84 ASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 84 ~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
...|-...+||+.| |.+...|+++-..-+++
T Consensus 142 ~~~g~s~~EIA~~l-~is~~tV~~~l~rar~~ 172 (181)
T PRK12536 142 KLEGLSVAETAQLT-GLSESAVKVGIHRGLKA 172 (181)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34477899999999 99999999987654433
No 148
>PRK01905 DNA-binding protein Fis; Provisional
Probab=25.44 E-value=1.7e+02 Score=22.48 Aligned_cols=36 Identities=22% Similarity=0.238 Sum_probs=27.6
Q ss_pred CHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHH
Q 020997 72 SDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNY 108 (318)
Q Consensus 72 T~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnR 108 (318)
..-|...|.+++...|.++++.|+.| |=+...++.+
T Consensus 35 ~~~E~~~i~~aL~~~~gn~s~aAr~L-GIsrstL~rk 70 (77)
T PRK01905 35 SCVEKPLLEVVMEQAGGNQSLAAEYL-GINRNTLRKK 70 (77)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHH
Confidence 34467788999999999999999998 5555555544
No 149
>PF07555 NAGidase: beta-N-acetylglucosaminidase ; InterPro: IPR011496 This family consists of both eukaryotic and prokaryotic hyaluronidases. Human Q9HAR0 from SWISSPROT is expressed during meningioma []. Clostridium perfringens, P26831 from SWISSPROT, is involved in pathogenesis and is likely to act on connectivity tissue during gas gangrene []. It catalyses the random hydrolysis of 1->4-linkages between N-acetyl-beta-D-glucosamine and D-glucuronate residues in hyaluronate.; PDB: 2WB5_B 2V5C_B 2VUR_A 2V5D_A 2YDS_A 2CBI_A 2XPK_A 2CBJ_B 2J62_A 2X0Y_A ....
Probab=25.33 E-value=1.6e+02 Score=28.91 Aligned_cols=54 Identities=19% Similarity=0.354 Sum_probs=28.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCCceeecccccccccCCccccccccccCCCCCCCCCCHHHHHHHHHHHH
Q 020997 15 GPWSPEEDAKLKEYIEKNGTGGNWIALPHKAGLMRCGKSCRLRWLNYLRPNINHGEFSDDEDRIICSLFA 84 (318)
Q Consensus 15 G~WT~EEDe~L~~lV~kyG~~~~W~~Ia~~lg~~Rt~kQCreRW~n~L~P~ikk~~WT~EED~~Llelv~ 84 (318)
.|||.|+...|++...++|. +.=.-| + +.+.--|.+| +.+++++|-..|.+|+.
T Consensus 10 ~PWs~e~R~~l~~f~~~~km--N~YiYA---P--KdDpyhr~~W---------re~Yp~~el~~l~~L~~ 63 (306)
T PF07555_consen 10 RPWSHEDRLDLIRFLGRYKM--NTYIYA---P--KDDPYHRSKW---------REPYPEEELAELKELAD 63 (306)
T ss_dssp S---HHHHHHHHHHHHHTT----EEEE-------TT-TTTTTTT---------TS---HHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHcCC--ceEEEC---C--CCChHHHhhh---------cccCCHHHHHHHHHHHH
Confidence 49999999999999999997 322222 2 3333334455 33566666666655554
No 150
>PRK10360 DNA-binding transcriptional activator UhpA; Provisional
Probab=25.29 E-value=1.8e+02 Score=24.32 Aligned_cols=45 Identities=20% Similarity=0.242 Sum_probs=35.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHhh
Q 020997 69 GEFSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKK 116 (318)
Q Consensus 69 ~~WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrkk 116 (318)
...|+.|-++|.-+.. |-...+||..| +-+...|+.+.+++++|-
T Consensus 136 ~~Lt~~E~~il~~l~~--g~~~~~Ia~~l-~~s~~tv~~~~~~l~~Kl 180 (196)
T PRK10360 136 DPLTKRERQVAEKLAQ--GMAVKEIAAEL-GLSPKTVHVHRANLMEKL 180 (196)
T ss_pred cCCCHHHHHHHHHHHC--CCCHHHHHHHh-CCCHHHHHHHHHHHHHHh
Confidence 4688888777665554 56889999999 789999999988877653
No 151
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=24.99 E-value=1.6e+02 Score=24.89 Aligned_cols=30 Identities=20% Similarity=0.175 Sum_probs=23.3
Q ss_pred HhCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 85 SIGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 85 k~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
-.|-...+||..| |-+...|+++-...+++
T Consensus 126 ~~g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 155 (164)
T PRK12547 126 ASGFSYEDAAAIC-GCAVGTIKSRVSRARNR 155 (164)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3466889999999 89999999987654443
No 152
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=24.28 E-value=1.6e+02 Score=25.55 Aligned_cols=29 Identities=10% Similarity=-0.017 Sum_probs=23.1
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
.|-.-.+||..| |-+...|++|...-+++
T Consensus 146 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 174 (191)
T PRK12520 146 LELETEEICQEL-QITATNAWVLLYRARMR 174 (191)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 366789999999 99999999997655443
No 153
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=23.92 E-value=1.6e+02 Score=25.83 Aligned_cols=34 Identities=21% Similarity=0.130 Sum_probs=25.3
Q ss_pred HHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHH
Q 020997 79 ICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKL 113 (318)
Q Consensus 79 Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~ll 113 (318)
++.|....|-...+||+.| |-+...|+.|-..-+
T Consensus 124 i~~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar 157 (187)
T PRK12516 124 AIILVGASGFAYEEAAEIC-GCAVGTIKSRVNRAR 157 (187)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3334444577899999999 999999999866444
No 154
>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=23.91 E-value=1.1e+02 Score=24.03 Aligned_cols=28 Identities=21% Similarity=0.561 Sum_probs=20.2
Q ss_pred HHHHHHHHhCCchHHHhhhCCCCCHHHHH
Q 020997 78 IICSLFASIGSRWSTIAAQLPGRTDNDIK 106 (318)
Q Consensus 78 ~Llelv~k~G~kWs~IAk~LpgRT~nq~K 106 (318)
.+--+.+..|..|..+|+.| |=|+.+|.
T Consensus 4 ~f~~i~~~lG~~Wk~laR~L-Glse~~Id 31 (86)
T cd08306 4 AFDVICENVGRDWRKLARKL-GLSETKIE 31 (86)
T ss_pred HHHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 34445567799999999999 66666554
No 155
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=23.71 E-value=1.7e+02 Score=25.33 Aligned_cols=29 Identities=14% Similarity=0.316 Sum_probs=23.1
Q ss_pred HhCCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 85 SIGSRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 85 k~G~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
-.|-...+||..| |-+...|+++...-++
T Consensus 136 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 164 (185)
T PRK12542 136 FYNLTYQEISSVM-GITEANVRKQFERARK 164 (185)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3466889999999 9999999998764433
No 156
>PF08181 DegQ: DegQ (SacQ) family; InterPro: IPR012554 This family consists of the DegQ (formerly sacQ) regulatory peptides. The DegQ family of peptides control the rates of synthesis of a class of both secreted and intracellular degradative enzymes in Bacillus subtilis. DegQ is 46 amino acids long and activates the synthesis of degradative enzymes. The expression of this peptide was shown to be subjected both to catabolite repression and DegS-DegU-mediated control. Thus allowing an increase in the rate of synthesis of degQ under conditions of nitrogen starvation [].
Probab=23.40 E-value=43 Score=23.64 Aligned_cols=11 Identities=45% Similarity=0.576 Sum_probs=9.2
Q ss_pred CCHHHHHHHHh
Q 020997 279 YGLEEIKQLIS 289 (318)
Q Consensus 279 ~~~~~~~~~~~ 289 (318)
|.+||+|||+=
T Consensus 4 ~~ieelkqll~ 14 (46)
T PF08181_consen 4 KKIEELKQLLW 14 (46)
T ss_pred hHHHHHHHHHH
Confidence 67899999974
No 157
>cd00569 HTH_Hin_like Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a D
Probab=22.51 E-value=1.6e+02 Score=16.71 Aligned_cols=35 Identities=17% Similarity=0.270 Sum_probs=22.4
Q ss_pred CCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHH
Q 020997 71 FSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKN 107 (318)
Q Consensus 71 WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~Kn 107 (318)
++.++-..+++++ .-|..+..||+.+ |.+...+.+
T Consensus 6 ~~~~~~~~i~~~~-~~~~s~~~ia~~~-~is~~tv~~ 40 (42)
T cd00569 6 LTPEQIEEARRLL-AAGESVAEIARRL-GVSRSTLYR 40 (42)
T ss_pred CCHHHHHHHHHHH-HcCCCHHHHHHHH-CCCHHHHHH
Confidence 5555544555554 4566889999988 667666554
No 158
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=22.49 E-value=1.7e+02 Score=26.33 Aligned_cols=45 Identities=16% Similarity=0.144 Sum_probs=36.1
Q ss_pred CCCHHHHHHHHHHHHHhCCchHHHhhhCCCCCHHHHHHHHHHHHHhhh
Q 020997 70 EFSDDEDRIICSLFASIGSRWSTIAAQLPGRTDNDIKNYWNTKLKKKL 117 (318)
Q Consensus 70 ~WT~EED~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnRW~~llrkk~ 117 (318)
..|+-|-+.|.-+.+ |...++||+.| +-+...|+++-+++++|-.
T Consensus 137 ~LT~RE~eVL~lla~--G~snkeIA~~L-~iS~~TVk~h~~~I~~KL~ 181 (207)
T PRK15411 137 SLSRTESSMLRMWMA--GQGTIQISDQM-NIKAKTVSSHKGNIKRKIK 181 (207)
T ss_pred cCCHHHHHHHHHHHc--CCCHHHHHHHc-CCCHHHHHHHHHHHHHHhC
Confidence 488888777654443 77889999999 9999999999888887653
No 159
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=21.64 E-value=1.9e+02 Score=24.95 Aligned_cols=29 Identities=28% Similarity=0.380 Sum_probs=22.9
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
.|-.-.+||+.| |-|...|+++...-+++
T Consensus 148 ~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 176 (182)
T PRK12537 148 DGCSHAEIAQRL-GAPLGTVKAWIKRSLKA 176 (182)
T ss_pred cCCCHHHHHHHH-CCChhhHHHHHHHHHHH
Confidence 456778999999 88999999988765543
No 160
>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=21.60 E-value=1.6e+02 Score=27.87 Aligned_cols=28 Identities=18% Similarity=0.239 Sum_probs=23.0
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
.|-.-.+||+.| |.+...||+|...-++
T Consensus 157 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 184 (324)
T TIGR02960 157 LGWRAAETAELL-GTSTASVNSALQRARA 184 (324)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 466789999999 9999999998765443
No 161
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=21.60 E-value=1.1e+02 Score=20.86 Aligned_cols=30 Identities=23% Similarity=0.339 Sum_probs=20.1
Q ss_pred HHHHHHHHHhCCchHHHhhhCCCCCHHHHHHH
Q 020997 77 RIICSLFASIGSRWSTIAAQLPGRTDNDIKNY 108 (318)
Q Consensus 77 ~~Llelv~k~G~kWs~IAk~LpgRT~nq~KnR 108 (318)
..++.++.+ |....+||+.| |-+...|.+.
T Consensus 8 ~~ii~l~~~-G~s~~~ia~~l-gvs~~Tv~~w 37 (50)
T PF13384_consen 8 AQIIRLLRE-GWSIREIAKRL-GVSRSTVYRW 37 (50)
T ss_dssp --HHHHHHH-T--HHHHHHHH-TS-HHHHHHH
T ss_pred HHHHHHHHC-CCCHHHHHHHH-CcCHHHHHHH
Confidence 446677777 99999999999 7888777664
No 162
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=21.45 E-value=1.9e+02 Score=25.59 Aligned_cols=26 Identities=15% Similarity=0.095 Sum_probs=21.5
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHH
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTK 112 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~l 112 (318)
.|-.-.+||..| |.+...||.|...-
T Consensus 154 eg~s~~EIA~~l-gis~~tVk~~l~RA 179 (201)
T PRK12545 154 LDFEIDDICTEL-TLTANHCSVLLYRA 179 (201)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 366789999999 99999999987543
No 163
>PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=21.34 E-value=92 Score=26.96 Aligned_cols=42 Identities=21% Similarity=0.453 Sum_probs=22.2
Q ss_pred CCHHHHHHHHHHHHH-h-CCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 71 FSDDEDRIICSLFAS-I-GSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 71 WT~EED~~Llelv~k-~-G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
++++ ++.+++|.-. + |..|..||..| +-+..+|+ ||+.-+|.
T Consensus 82 l~de-~k~Ii~lry~~r~~~TW~~IA~~l-~i~erta~-r~~~~fK~ 125 (130)
T PF05263_consen 82 LIDE-EKRIIKLRYDRRSRRTWYQIAQKL-HISERTAR-RWRDRFKN 125 (130)
T ss_pred hCHH-HHHHHHHHHcccccchHHHHHHHh-CccHHHHH-HHHHHHHH
Confidence 3344 4444444432 3 46899999987 34444443 34444443
No 164
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=20.61 E-value=2.1e+02 Score=25.64 Aligned_cols=29 Identities=21% Similarity=0.272 Sum_probs=23.2
Q ss_pred hCCchHHHhhhCCCCCHHHHHHHHHHHHHh
Q 020997 86 IGSRWSTIAAQLPGRTDNDIKNYWNTKLKK 115 (318)
Q Consensus 86 ~G~kWs~IAk~LpgRT~nq~KnRW~~llrk 115 (318)
.|-+-.+||+.| |-+...|++++...+++
T Consensus 153 ~g~s~~EIA~~L-gis~~tV~~~l~RArk~ 181 (203)
T PRK09647 153 EGLSYEEIAATL-GVKLGTVRSRIHRGRQQ 181 (203)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 366789999999 99999999998765443
No 165
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=20.49 E-value=1.1e+02 Score=27.91 Aligned_cols=27 Identities=15% Similarity=0.166 Sum_probs=22.2
Q ss_pred CCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 020997 87 GSRWSTIAAQLPGRTDNDIKNYWNTKLK 114 (318)
Q Consensus 87 G~kWs~IAk~LpgRT~nq~KnRW~~llr 114 (318)
|-...+||+.| |-+...|+++....++
T Consensus 165 g~s~~EIAe~l-gis~~tVk~~l~Rar~ 191 (231)
T PRK11922 165 ELSVEETAQAL-GLPEETVKTRLHRARR 191 (231)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 55789999999 9999999999875443
No 166
>cd01670 Death Death Domain: a protein-protein interaction domain. Death Domains (DDs) are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. Structural analysis of DD-DD complexes show that the domains interact with each other in many different ways. DD-containing proteins serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes. In mammals, they are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways. In invertebrates, they are involved in transcriptional regulation of zygotic patterning genes in insect embryogenesis, and are components of the ToII/NF-kappaB pathway, a conserved innate immune pathway in a
Probab=20.35 E-value=1.2e+02 Score=22.46 Aligned_cols=26 Identities=31% Similarity=0.673 Sum_probs=18.5
Q ss_pred HHHHHHHhCCchHHHhhhCCCCCHHHH
Q 020997 79 ICSLFASIGSRWSTIAAQLPGRTDNDI 105 (318)
Q Consensus 79 Llelv~k~G~kWs~IAk~LpgRT~nq~ 105 (318)
+..+....|..|..+|..| |=+..+|
T Consensus 2 ~~~ia~~lg~~W~~la~~L-gl~~~~I 27 (79)
T cd01670 2 LDKLAKKLGKDWKKLARKL-GLSDGEI 27 (79)
T ss_pred HHHHHHHHhhHHHHHHHHh-CCCHHHH
Confidence 4456678899999999998 3333333
No 167
>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=20.05 E-value=2.8e+02 Score=24.37 Aligned_cols=46 Identities=15% Similarity=0.164 Sum_probs=36.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchHHHhhhC----CCCCHHHHHHHHHHH
Q 020997 67 NHGEFSDDEDRIICSLFASIGSRWSTIAAQL----PGRTDNDIKNYWNTK 112 (318)
Q Consensus 67 kk~~WT~EED~~Llelv~k~G~kWs~IAk~L----pgRT~nq~KnRW~~l 112 (318)
....-|..|..-|..|+.+||..+...|.-. --.|..+|+.+....
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 3456899999999999999999999998643 247999998876543
Done!