Query 021486
Match_columns 312
No_of_seqs 309 out of 1444
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 03:21:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021486.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021486hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03091 hypothetical protein; 100.0 3.3E-41 7.3E-46 329.9 14.6 159 1-161 1-159 (459)
2 PLN03212 Transcription repress 100.0 4E-39 8.6E-44 296.4 12.4 128 3-130 14-141 (249)
3 KOG0048 Transcription factor, 100.0 1.1E-36 2.5E-41 281.1 12.0 118 11-128 6-123 (238)
4 KOG0050 mRNA splicing protein 99.8 2.4E-21 5.1E-26 192.5 7.8 156 11-168 4-164 (617)
5 KOG0049 Transcription factor, 99.8 2E-19 4.4E-24 182.5 8.7 114 1-115 347-461 (939)
6 KOG0049 Transcription factor, 99.7 7.5E-17 1.6E-21 164.0 7.6 113 11-124 302-418 (939)
7 COG5147 REB1 Myb superfamily p 99.6 2.5E-16 5.4E-21 159.0 7.9 108 9-117 15-122 (512)
8 PF13921 Myb_DNA-bind_6: Myb-l 99.6 1.9E-16 4.2E-21 116.1 3.6 60 17-78 1-60 (60)
9 KOG0051 RNA polymerase I termi 99.5 2.4E-14 5.1E-19 146.3 6.6 103 13-118 383-513 (607)
10 PF00249 Myb_DNA-binding: Myb- 99.4 4.8E-13 1E-17 94.5 5.2 46 67-112 1-48 (48)
11 PF00249 Myb_DNA-binding: Myb- 99.4 1E-13 2.2E-18 97.9 1.2 48 14-61 1-48 (48)
12 PF13921 Myb_DNA-bind_6: Myb-l 99.3 1.8E-12 4E-17 95.0 3.5 50 70-119 1-50 (60)
13 PLN03212 Transcription repress 99.2 7.4E-12 1.6E-16 116.2 5.5 62 63-124 21-84 (249)
14 smart00717 SANT SANT SWI3, AD 99.2 2.5E-11 5.4E-16 83.1 5.6 47 67-113 1-48 (49)
15 KOG0048 Transcription factor, 99.1 2.6E-11 5.7E-16 112.3 3.5 109 63-197 5-115 (238)
16 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 1.9E-10 4.2E-15 77.6 5.6 44 69-112 1-45 (45)
17 PLN03091 hypothetical protein; 99.1 6.5E-11 1.4E-15 117.4 4.6 93 62-154 9-112 (459)
18 smart00717 SANT SANT SWI3, AD 99.0 1.7E-10 3.7E-15 78.9 2.3 48 14-62 1-48 (49)
19 cd00167 SANT 'SWI3, ADA2, N-Co 98.8 1.4E-09 3.1E-14 73.3 2.0 45 16-61 1-45 (45)
20 KOG0051 RNA polymerase I termi 98.8 6.4E-09 1.4E-13 107.0 5.2 100 12-115 306-431 (607)
21 COG5147 REB1 Myb superfamily p 98.4 1.8E-08 3.9E-13 102.5 -2.2 97 12-111 289-395 (512)
22 KOG0050 mRNA splicing protein 98.2 8.9E-07 1.9E-11 89.5 3.7 96 65-160 5-109 (617)
23 TIGR01557 myb_SHAQKYF myb-like 97.8 1.8E-05 3.8E-10 58.6 2.5 49 13-61 2-54 (57)
24 KOG0457 Histone acetyltransfer 97.5 0.00021 4.5E-09 71.4 6.2 51 64-114 69-120 (438)
25 TIGR01557 myb_SHAQKYF myb-like 97.4 0.00038 8.2E-09 51.5 5.9 46 67-112 3-54 (57)
26 KOG0457 Histone acetyltransfer 97.4 7.7E-05 1.7E-09 74.5 2.0 51 11-62 69-119 (438)
27 TIGR02894 DNA_bind_RsfA transc 97.2 0.00053 1.1E-08 60.6 4.8 51 66-117 3-60 (161)
28 PF13837 Myb_DNA-bind_4: Myb/S 97.1 0.00046 1E-08 53.7 3.4 51 67-117 1-69 (90)
29 PF13325 MCRS_N: N-terminal re 96.8 0.0029 6.2E-08 57.9 6.4 100 16-117 1-131 (199)
30 PF08914 Myb_DNA-bind_2: Rap1 96.6 0.003 6.4E-08 48.0 4.2 51 67-117 2-62 (65)
31 COG5259 RSC8 RSC chromatin rem 96.6 0.0023 5.1E-08 64.7 4.6 45 68-112 280-324 (531)
32 KOG1279 Chromatin remodeling f 96.6 0.0028 6.1E-08 65.1 5.2 47 66-112 252-298 (506)
33 COG5259 RSC8 RSC chromatin rem 96.6 0.0009 2E-08 67.5 1.4 46 13-60 278-323 (531)
34 KOG1279 Chromatin remodeling f 96.4 0.0015 3.3E-08 67.0 1.8 48 11-60 250-297 (506)
35 PRK13923 putative spore coat p 96.2 0.0063 1.4E-07 54.4 4.3 49 66-115 4-59 (170)
36 TIGR02894 DNA_bind_RsfA transc 96.1 0.002 4.3E-08 57.0 0.8 50 12-63 2-57 (161)
37 PF13873 Myb_DNA-bind_5: Myb/S 95.9 0.02 4.4E-07 43.7 5.5 49 67-115 2-72 (78)
38 COG5114 Histone acetyltransfer 95.9 0.022 4.9E-07 55.5 6.9 48 66-113 62-110 (432)
39 PF08914 Myb_DNA-bind_2: Rap1 95.8 0.0039 8.5E-08 47.3 1.1 51 14-64 2-60 (65)
40 PLN03142 Probable chromatin-re 95.1 0.055 1.2E-06 60.2 7.6 102 16-118 826-990 (1033)
41 PF13837 Myb_DNA-bind_4: Myb/S 94.9 0.0084 1.8E-07 46.5 0.3 47 15-61 2-64 (90)
42 PF13873 Myb_DNA-bind_5: Myb/S 94.0 0.016 3.4E-07 44.3 0.1 49 13-61 1-69 (78)
43 PRK13923 putative spore coat p 93.8 0.015 3.3E-07 52.0 -0.3 50 11-62 2-57 (170)
44 COG5114 Histone acetyltransfer 93.8 0.022 4.7E-07 55.6 0.6 48 14-62 63-110 (432)
45 PF09111 SLIDE: SLIDE; InterP 93.5 0.14 2.9E-06 43.3 4.9 53 64-116 46-114 (118)
46 KOG4282 Transcription factor G 92.9 0.19 4E-06 48.9 5.5 51 67-117 54-118 (345)
47 KOG2656 DNA methyltransferase 92.6 0.12 2.5E-06 51.7 3.7 53 68-120 131-189 (445)
48 PF12776 Myb_DNA-bind_3: Myb/S 92.1 0.39 8.6E-06 37.5 5.5 46 69-114 1-64 (96)
49 COG5118 BDP1 Transcription ini 89.6 0.35 7.5E-06 48.4 3.7 49 68-116 366-414 (507)
50 KOG1194 Predicted DNA-binding 88.7 0.9 1.9E-05 46.4 5.9 50 66-115 186-235 (534)
51 PF08281 Sigma70_r4_2: Sigma-7 87.3 1.9 4.2E-05 30.2 5.4 42 72-114 12-53 (54)
52 PF09111 SLIDE: SLIDE; InterP 84.7 0.76 1.6E-05 38.8 2.5 34 11-44 46-82 (118)
53 smart00595 MADF subfamily of S 83.0 1.6 3.5E-05 33.7 3.6 25 89-114 30-54 (89)
54 KOG4167 Predicted DNA-binding 82.3 2.3 4.9E-05 45.9 5.4 46 68-113 620-665 (907)
55 COG5118 BDP1 Transcription ini 77.1 1.3 2.9E-05 44.3 1.6 45 13-59 364-408 (507)
56 PF11626 Rap1_C: TRF2-interact 76.4 2.5 5.3E-05 33.4 2.7 29 11-42 44-80 (87)
57 KOG4468 Polycomb-group transcr 75.6 5.7 0.00012 42.1 5.8 53 67-119 88-150 (782)
58 PF04545 Sigma70_r4: Sigma-70, 71.9 12 0.00025 25.9 5.0 41 73-114 7-47 (50)
59 KOG4282 Transcription factor G 69.2 2.1 4.6E-05 41.6 1.0 47 15-61 55-113 (345)
60 PF13404 HTH_AsnC-type: AsnC-t 69.0 2 4.3E-05 29.6 0.5 38 20-59 3-40 (42)
61 PF13404 HTH_AsnC-type: AsnC-t 65.7 17 0.00036 25.0 4.6 38 73-111 3-41 (42)
62 PF12776 Myb_DNA-bind_3: Myb/S 63.5 5.9 0.00013 30.8 2.3 44 16-59 1-60 (96)
63 PF11035 SnAPC_2_like: Small n 61.6 32 0.00069 34.0 7.3 48 67-115 21-72 (344)
64 PRK11179 DNA-binding transcrip 60.4 20 0.00043 30.8 5.3 45 73-118 9-54 (153)
65 PRK11179 DNA-binding transcrip 60.2 4 8.7E-05 35.1 0.9 45 19-65 8-52 (153)
66 KOG4329 DNA-binding protein [G 58.7 17 0.00036 36.7 4.9 47 68-114 278-325 (445)
67 TIGR02985 Sig70_bacteroi1 RNA 58.6 22 0.00047 29.3 5.1 36 78-114 121-156 (161)
68 PF07750 GcrA: GcrA cell cycle 57.9 13 0.00028 32.9 3.7 40 69-109 2-41 (162)
69 PRK11169 leucine-responsive tr 54.0 26 0.00056 30.4 5.0 46 72-118 13-59 (164)
70 PRK11169 leucine-responsive tr 54.0 4.3 9.3E-05 35.4 0.0 45 19-65 13-57 (164)
71 PF01388 ARID: ARID/BRIGHT DNA 52.7 32 0.0007 26.7 4.9 39 76-114 39-90 (92)
72 KOG1194 Predicted DNA-binding 52.3 14 0.0003 38.1 3.3 42 69-111 472-513 (534)
73 PF11626 Rap1_C: TRF2-interact 50.8 8.1 0.00018 30.4 1.2 17 63-79 43-59 (87)
74 smart00501 BRIGHT BRIGHT, ARID 50.3 38 0.00082 26.6 4.9 39 76-114 35-86 (93)
75 PF10545 MADF_DNA_bdg: Alcohol 49.7 18 0.00039 26.9 2.9 27 88-114 28-55 (85)
76 PF13325 MCRS_N: N-terminal re 47.6 36 0.00078 31.4 5.0 44 69-113 1-47 (199)
77 TIGR02937 sigma70-ECF RNA poly 46.5 51 0.0011 26.1 5.3 34 80-114 120-153 (158)
78 cd08319 Death_RAIDD Death doma 46.5 27 0.00059 27.6 3.5 29 75-104 2-30 (83)
79 KOG0384 Chromodomain-helicase 45.9 23 0.0005 40.7 4.0 73 13-94 1132-1207(1373)
80 PRK12523 RNA polymerase sigma 44.4 68 0.0015 27.3 6.1 42 81-123 130-171 (172)
81 KOG2009 Transcription initiati 44.2 18 0.00039 38.3 2.8 50 66-115 408-457 (584)
82 cd06171 Sigma70_r4 Sigma70, re 43.9 66 0.0014 20.9 4.8 40 70-111 11-50 (55)
83 KOG4167 Predicted DNA-binding 41.3 13 0.00028 40.4 1.2 44 14-59 619-662 (907)
84 PRK09652 RNA polymerase sigma 41.2 54 0.0012 27.5 4.9 31 83-114 141-171 (182)
85 PF09420 Nop16: Ribosome bioge 40.4 55 0.0012 28.7 4.9 47 66-112 113-163 (164)
86 PRK11924 RNA polymerase sigma 39.3 58 0.0012 27.3 4.7 30 84-114 139-168 (179)
87 PF07638 Sigma70_ECF: ECF sigm 38.8 83 0.0018 27.6 5.8 38 76-114 141-178 (185)
88 cd08803 Death_ank3 Death domai 38.5 49 0.0011 26.1 3.9 31 75-106 4-34 (84)
89 PRK04217 hypothetical protein; 38.2 83 0.0018 26.2 5.3 46 68-115 41-86 (110)
90 KOG2656 DNA methyltransferase 37.2 16 0.00034 37.0 1.0 50 11-61 127-181 (445)
91 PRK12512 RNA polymerase sigma 35.9 98 0.0021 26.5 5.7 34 85-119 146-179 (184)
92 PRK09643 RNA polymerase sigma 35.3 75 0.0016 27.8 5.0 30 84-114 148-177 (192)
93 COG2197 CitB Response regulato 35.1 72 0.0016 28.8 4.9 44 68-114 147-190 (211)
94 PF04504 DUF573: Protein of un 34.9 65 0.0014 26.1 4.1 49 68-116 5-66 (98)
95 PF11035 SnAPC_2_like: Small n 34.5 1.1E+02 0.0024 30.3 6.3 87 14-114 21-128 (344)
96 smart00344 HTH_ASNC helix_turn 33.5 1E+02 0.0022 24.3 5.0 45 73-118 3-48 (108)
97 PRK12532 RNA polymerase sigma 33.4 1.1E+02 0.0024 26.6 5.8 35 85-120 151-188 (195)
98 KOG4468 Polycomb-group transcr 33.3 36 0.00078 36.4 2.9 47 14-61 88-143 (782)
99 PRK09641 RNA polymerase sigma 33.2 80 0.0017 26.9 4.7 29 85-114 151-179 (187)
100 TIGR02939 RpoE_Sigma70 RNA pol 32.9 68 0.0015 27.5 4.2 30 85-115 153-182 (190)
101 TIGR02954 Sig70_famx3 RNA poly 31.8 90 0.0019 26.4 4.8 30 85-115 134-163 (169)
102 PRK09047 RNA polymerase factor 31.1 1E+02 0.0023 25.5 5.0 29 85-114 121-149 (161)
103 smart00005 DEATH DEATH domain, 31.0 75 0.0016 24.1 3.8 30 74-104 4-34 (88)
104 cd08317 Death_ank Death domain 30.8 55 0.0012 25.3 3.0 30 75-105 4-33 (84)
105 PRK12529 RNA polymerase sigma 30.6 1.5E+02 0.0033 25.5 6.1 34 84-118 141-174 (178)
106 PF13936 HTH_38: Helix-turn-he 30.3 66 0.0014 22.0 3.0 36 69-106 4-39 (44)
107 PF00196 GerE: Bacterial regul 29.8 84 0.0018 22.2 3.6 43 69-114 3-45 (58)
108 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 29.6 1.1E+02 0.0024 22.1 4.1 35 73-108 7-41 (50)
109 PF02954 HTH_8: Bacterial regu 29.6 1E+02 0.0023 20.6 3.9 34 74-108 6-39 (42)
110 PRK09637 RNA polymerase sigma 29.5 1.1E+02 0.0023 26.7 4.9 29 85-114 121-149 (181)
111 PRK12547 RNA polymerase sigma 28.5 1.5E+02 0.0033 25.0 5.6 33 85-118 127-159 (164)
112 PRK09648 RNA polymerase sigma 28.3 1.5E+02 0.0032 25.6 5.6 29 85-114 154-182 (189)
113 TIGR02948 SigW_bacill RNA poly 28.1 1E+02 0.0022 26.2 4.5 28 86-114 152-179 (187)
114 cd08318 Death_NMPP84 Death dom 28.1 78 0.0017 24.8 3.4 27 78-105 10-36 (86)
115 PRK11923 algU RNA polymerase s 28.0 1.1E+02 0.0023 26.5 4.7 28 86-114 154-181 (193)
116 COG1522 Lrp Transcriptional re 28.0 25 0.00054 29.4 0.6 43 20-64 8-50 (154)
117 PRK12515 RNA polymerase sigma 27.9 1.2E+02 0.0027 26.2 5.0 29 85-114 146-174 (189)
118 smart00344 HTH_ASNC helix_turn 27.8 32 0.00069 27.2 1.2 43 20-64 3-45 (108)
119 cd08804 Death_ank2 Death domai 27.6 78 0.0017 24.8 3.4 31 75-106 4-34 (84)
120 cd08779 Death_PIDD Death Domai 27.1 39 0.00084 26.6 1.5 21 76-96 3-23 (86)
121 cd08311 Death_p75NR Death doma 26.9 88 0.0019 24.3 3.5 33 72-106 2-34 (77)
122 TIGR02943 Sig70_famx1 RNA poly 26.6 1.3E+02 0.0029 26.2 5.1 30 84-114 145-174 (188)
123 PRK09642 RNA polymerase sigma 26.4 1.4E+02 0.003 24.9 5.0 29 85-114 121-149 (160)
124 COG2963 Transposase and inacti 25.7 2.2E+02 0.0047 22.9 5.8 44 67-111 5-49 (116)
125 PF07750 GcrA: GcrA cell cycle 24.9 53 0.0012 29.0 2.2 33 16-50 2-35 (162)
126 PRK12530 RNA polymerase sigma 24.8 1.5E+02 0.0032 25.9 5.0 28 85-113 149-176 (189)
127 PRK09645 RNA polymerase sigma 24.7 2.1E+02 0.0045 24.2 5.8 29 85-114 133-161 (173)
128 cd08777 Death_RIP1 Death Domai 24.2 88 0.0019 24.7 3.1 30 76-106 3-32 (86)
129 PRK12524 RNA polymerase sigma 24.1 1.5E+02 0.0033 25.8 5.0 29 85-114 151-179 (196)
130 PRK12531 RNA polymerase sigma 24.1 1.8E+02 0.0039 25.4 5.4 29 85-114 156-184 (194)
131 PRK12514 RNA polymerase sigma 22.8 1.7E+02 0.0037 24.9 4.9 28 86-114 145-172 (179)
132 PRK09649 RNA polymerase sigma 22.7 2.4E+02 0.0053 24.4 5.9 32 85-117 145-176 (185)
133 PRK09651 RNA polymerase sigma 22.6 1.5E+02 0.0033 25.3 4.5 29 85-114 134-162 (172)
134 PRK06759 RNA polymerase factor 22.6 1.9E+02 0.0041 23.8 5.0 29 85-114 121-149 (154)
135 PF09905 DUF2132: Uncharacteri 22.3 64 0.0014 24.6 1.8 22 22-46 12-33 (64)
136 PRK12527 RNA polymerase sigma 21.7 2E+02 0.0044 23.9 5.1 29 85-114 120-148 (159)
137 TIGR02950 SigM_subfam RNA poly 21.5 69 0.0015 26.4 2.1 28 86-114 121-148 (154)
138 TIGR02999 Sig-70_X6 RNA polyme 21.5 2E+02 0.0043 24.5 5.1 29 85-114 149-177 (183)
139 PRK00118 putative DNA-binding 21.3 2.2E+02 0.0047 23.5 4.9 40 72-112 19-58 (104)
140 PRK12528 RNA polymerase sigma 21.3 2.1E+02 0.0045 23.9 5.1 29 84-113 127-155 (161)
141 PRK13919 putative RNA polymera 21.2 2E+02 0.0042 24.6 5.0 28 86-114 151-178 (186)
142 TIGR02952 Sig70_famx2 RNA poly 21.2 2E+02 0.0043 24.0 5.0 28 86-114 138-165 (170)
143 PRK12536 RNA polymerase sigma 21.1 2E+02 0.0043 24.7 5.0 30 84-114 143-172 (181)
144 PRK12516 RNA polymerase sigma 20.9 2E+02 0.0042 25.2 5.0 32 82-114 128-159 (187)
145 PRK10100 DNA-binding transcrip 20.7 2.3E+02 0.0049 25.8 5.5 43 69-114 155-197 (216)
146 TIGR02984 Sig-70_plancto1 RNA 20.6 2E+02 0.0044 24.4 5.0 29 85-114 155-183 (189)
147 PRK05602 RNA polymerase sigma 20.4 2.3E+02 0.0049 24.3 5.3 29 85-114 143-171 (186)
148 PRK01905 DNA-binding protein F 20.4 2.4E+02 0.0053 21.4 4.8 35 72-107 36-70 (77)
149 TIGR02983 SigE-fam_strep RNA p 20.3 2.4E+02 0.0053 23.4 5.3 39 77-116 117-155 (162)
150 PRK11922 RNA polymerase sigma 20.2 1.1E+02 0.0024 27.7 3.4 28 86-114 165-192 (231)
151 KOG2009 Transcription initiati 20.1 65 0.0014 34.3 2.0 49 9-59 404-452 (584)
152 PRK12537 RNA polymerase sigma 20.0 2.6E+02 0.0057 24.0 5.6 30 85-115 148-177 (182)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=3.3e-41 Score=329.90 Aligned_cols=159 Identities=57% Similarity=1.056 Sum_probs=142.9
Q ss_pred CCCCCCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccccCCCCCCCCCCHHHHHHHHH
Q 021486 1 MGRTPCCDKKGLKKGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLRPDIKRGPFTEEEEKLVIQ 80 (312)
Q Consensus 1 mgr~pcc~k~~lkKG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~p~ikrg~WT~EED~~Ll~ 80 (312)
|||+|||+|++++||+||+|||++|+++|++||.++|..||+.++.+|+++|||+||.+||+|.+++++||.|||++|++
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999998766999999999999999999999999999999999
Q ss_pred HHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCCCCCCCCCCcchHHHHHHHHHHHHh
Q 021486 81 LHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKRMLLMGLDPQTHEPFSSSGPAIKAPATPTTRHMAQWESARLEAEAR 160 (312)
Q Consensus 81 lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkkl~~~g~~p~~~~p~ss~~~~~~~~~sp~~~~~~q~Es~~LEAear 160 (312)
+|++||++|..||++|||||+++|||||+.+++++++..++++.++++....... ....|...++++++++++++|..
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~kpl~e~E~~--~d~~p~~~~~~~~~s~~~~~el~ 158 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPLSEVENG--EDKNPPTDDKSDKASSVVSNELN 158 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCCCCccccccc--cccCCccccccccchhhhhhhhh
Confidence 9999999999999999999999999999999999999999999999988763322 22335555667777777666665
Q ss_pred h
Q 021486 161 L 161 (312)
Q Consensus 161 l 161 (312)
+
T Consensus 159 ~ 159 (459)
T PLN03091 159 L 159 (459)
T ss_pred h
Confidence 3
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=4e-39 Score=296.40 Aligned_cols=128 Identities=67% Similarity=1.322 Sum_probs=123.4
Q ss_pred CCCCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccccCCCCCCCCCCHHHHHHHHHHH
Q 021486 3 RTPCCDKKGLKKGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLRPDIKRGPFTEEEEKLVIQLH 82 (312)
Q Consensus 3 r~pcc~k~~lkKG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~p~ikrg~WT~EED~~Ll~lv 82 (312)
++|||+|+++|+++||+|||++|+++|++||..+|..||+.++.+|+++|||+||.|||+|.+++++||.|||++|++++
T Consensus 14 ~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~ 93 (249)
T PLN03212 14 TTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLH 93 (249)
T ss_pred CCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHH
Confidence 67999999999999999999999999999999999999999875699999999999999999999999999999999999
Q ss_pred hhcCCchHHHhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCCCCCCCCC
Q 021486 83 GILGNRWAAIASQLPGRTDNEIKNLWNTHLKKRMLLMGLDPQTHEPFS 130 (312)
Q Consensus 83 ~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkkl~~~g~~p~~~~p~s 130 (312)
.+||++|..||++|||||+++|||||+.++++++.+.++.|++++|..
T Consensus 94 ~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~~~kp~~ 141 (249)
T PLN03212 94 RLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTHKPLD 141 (249)
T ss_pred HhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCCCCCCCC
Confidence 999999999999999999999999999999999999999999888754
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=1.1e-36 Score=281.06 Aligned_cols=118 Identities=66% Similarity=1.186 Sum_probs=111.4
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccccCCCCCCCCCCHHHHHHHHHHHhhcCCchH
Q 021486 11 GLKKGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLRPDIKRGPFTEEEEKLVIQLHGILGNRWA 90 (312)
Q Consensus 11 ~lkKG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~p~ikrg~WT~EED~~Ll~lv~~~G~kWs 90 (312)
.+.||+||+|||++|+++|++||+++|..|++.+|+.|++|+||+||.|||+|++++|.||+|||.+|+++|.++||+|+
T Consensus 6 ~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrWs 85 (238)
T KOG0048|consen 6 ELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRWS 85 (238)
T ss_pred cccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHHH
Confidence 35589999999999999999999999999999999679999999999999999999999999999999999999999999
Q ss_pred HHhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCCCCCCC
Q 021486 91 AIASQLPGRTDNEIKNLWNTHLKKRMLLMGLDPQTHEP 128 (312)
Q Consensus 91 ~IA~~LpgRT~~qcKnRW~~lLkkkl~~~g~~p~~~~p 128 (312)
.||++|||||+++|||+|++++|+|+..+++++.+..+
T Consensus 86 ~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~~~~~~~~~ 123 (238)
T KOG0048|consen 86 LIAGRLPGRTDNEVKNHWNTHLKKKLLKMGIDPSTHRP 123 (238)
T ss_pred HHHhhCCCcCHHHHHHHHHHHHHHHHHHcCCCCCcccc
Confidence 99999999999999999999999999998866655443
No 4
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.84 E-value=2.4e-21 Score=192.51 Aligned_cols=156 Identities=26% Similarity=0.445 Sum_probs=136.4
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccccCCCCCCCCCCHHHHHHHHHHHhhcCCchH
Q 021486 11 GLKKGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLRPDIKRGPFTEEEEKLVIQLHGILGNRWA 90 (312)
Q Consensus 11 ~lkKG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~p~ikrg~WT~EED~~Ll~lv~~~G~kWs 90 (312)
-+|.|.|+.-||++|..+|++||.+.|.+|++.+.. .+++||+.||..+|+|.|++..|+.+||++|+.+...+.+.|.
T Consensus 4 ~~kggvwrntEdeilkaav~kyg~nqws~i~sll~~-kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwr 82 (617)
T KOG0050|consen 4 EIKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNR-KTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWR 82 (617)
T ss_pred EEecceecccHHHHHHHHHHHcchHHHHHHHHHHhh-cchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccc
Confidence 367899999999999999999999999999999986 9999999999999999999999999999999999999999999
Q ss_pred HHhhhCCCCCHHHHHHHHHHHHHHHHHhCCC-CCCC---CCCCCCCCCCCCCCCCCCCcchHHHHHHHH-HHHHhhcccc
Q 021486 91 AIASQLPGRTDNEIKNLWNTHLKKRMLLMGL-DPQT---HEPFSSSGPAIKAPATPTTRHMAQWESARL-EAEARLSRES 165 (312)
Q Consensus 91 ~IA~~LpgRT~~qcKnRW~~lLkkkl~~~g~-~p~~---~~p~ss~~~~~~~~~sp~~~~~~q~Es~~L-EAearls~~s 165 (312)
.|+..| ||+.+||-.||+.++......... ++.. -.+....+.+...+++|+...|++.|.+|| ||+|||+|.+
T Consensus 83 tIa~i~-gr~~~qc~eRy~~ll~~~~s~~~~~~~~~D~rLk~gE~ePn~e~~~aRpd~~dmdEde~eMl~eaRarlaNt~ 161 (617)
T KOG0050|consen 83 TIADIM-GRTSQQCLERYNNLLDVYVSYHYHSEPYIDAKLKEGEIEPNQETNPARPDGFDMDEDEGEMLSEARARLANTQ 161 (617)
T ss_pred hHHHHh-hhhHHHHHHHHHHHHHHHHhhhcccccccccccCCCcCCCccccccccCCcccchHHHHHHHHHHHHHHhccc
Confidence 999999 999999999999999887655433 2222 133333334456789999999999999999 9999999998
Q ss_pred CCC
Q 021486 166 LLF 168 (312)
Q Consensus 166 ~l~ 168 (312)
+--
T Consensus 162 gkk 164 (617)
T KOG0050|consen 162 GKK 164 (617)
T ss_pred chH
Confidence 643
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.79 E-value=2e-19 Score=182.46 Aligned_cols=114 Identities=25% Similarity=0.426 Sum_probs=104.6
Q ss_pred CCCCCCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccccCCCCCCCCCCHHHHHHHHH
Q 021486 1 MGRTPCCDKKGLKKGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLRPDIKRGPFTEEEEKLVIQ 80 (312)
Q Consensus 1 mgr~pcc~k~~lkKG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~p~ikrg~WT~EED~~Ll~ 80 (312)
+||+.....|++|+|+||++||.+|+.+|.+||..+|.+|-+.+++ |+..|||+||.|.|+...|.+.|+-.||+.||.
T Consensus 347 I~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPn-RSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~ 425 (939)
T KOG0049|consen 347 ITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPN-RSDSQCRERYTNVLNRSAKVERWTLVEDEQLLY 425 (939)
T ss_pred hhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCC-ccHHHHHHHHHHHHHHhhccCceeecchHHHHH
Confidence 4788888999999999999999999999999999999999999997 999999999999999999999999999999999
Q ss_pred HHhhcC-CchHHHhhhCCCCCHHHHHHHHHHHHHHH
Q 021486 81 LHGILG-NRWAAIASQLPGRTDNEIKNLWNTHLKKR 115 (312)
Q Consensus 81 lv~~~G-~kWs~IA~~LpgRT~~qcKnRW~~lLkkk 115 (312)
+|.+|| ++|.+||.+||.||..|...|=...+.-+
T Consensus 426 ~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~~~k 461 (939)
T KOG0049|consen 426 AVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLIAAK 461 (939)
T ss_pred HHHHHccchHHHHHHHccccchhHHHHHHHHHHHHH
Confidence 999999 78999999999999977665544444333
No 6
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.67 E-value=7.5e-17 Score=163.98 Aligned_cols=113 Identities=22% Similarity=0.451 Sum_probs=104.1
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhC---CCCcchhchhhcCcccccccccccccccCCCCCCCCCCHHHHHHHHHHHhhcCC
Q 021486 11 GLKKGPWAPEEDEILVEYIKRNG---HGSWRSLPKLAGLLRCGKSCRLRWTNYLRPDIKRGPFTEEEEKLVIQLHGILGN 87 (312)
Q Consensus 11 ~lkKG~WT~EED~~L~~lV~kyG---~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~p~ikrg~WT~EED~~Ll~lv~~~G~ 87 (312)
-++...||.|||.+|.++|+... +.+|++|-..|++ |+..|...||.+.|+|.+++|+||.+||.+|+.+|.+||.
T Consensus 302 ~L~ekeWsEEed~kL~alV~~~~~nShI~w~kVV~Ympg-r~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~ 380 (939)
T KOG0049|consen 302 QLSEKEWSEEEDTKLIALVKITSINSHIQWDKVVQYMPG-RTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGA 380 (939)
T ss_pred HHHhhhcchhhhHHHHHHHHHhhccCccchHHHHHhcCC-cchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCc
Confidence 36678999999999999999874 4589999999997 9999999999999999999999999999999999999996
Q ss_pred c-hHHHhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCCC
Q 021486 88 R-WAAIASQLPGRTDNEIKNLWNTHLKKRMLLMGLDPQ 124 (312)
Q Consensus 88 k-Ws~IA~~LpgRT~~qcKnRW~~lLkkkl~~~g~~p~ 124 (312)
+ |..|...+|||++.||+.||.+.|..+.+...|.-+
T Consensus 381 kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~l~ 418 (939)
T KOG0049|consen 381 KDWAKVRQAVPNRSDSQCRERYTNVLNRSAKVERWTLV 418 (939)
T ss_pred cchhhHHHhcCCccHHHHHHHHHHHHHHhhccCceeec
Confidence 5 999999999999999999999999998877776544
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=99.64 E-value=2.5e-16 Score=159.00 Aligned_cols=108 Identities=30% Similarity=0.511 Sum_probs=103.3
Q ss_pred CCCCCcCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccccCCCCCCCCCCHHHHHHHHHHHhhcCCc
Q 021486 9 KKGLKKGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLRPDIKRGPFTEEEEKLVIQLHGILGNR 88 (312)
Q Consensus 9 k~~lkKG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~p~ikrg~WT~EED~~Ll~lv~~~G~k 88 (312)
...++.|.|+..||+.|..+|++||.++|..||..+.. |+++||+.||.++++|.++++.|+.+||+.|+.+..++|++
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~-~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ 93 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLIS-STGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcc-cccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch
Confidence 35688999999999999999999999999999999996 99999999999999999999999999999999999999999
Q ss_pred hHHHhhhCCCCCHHHHHHHHHHHHHHHHH
Q 021486 89 WAAIASQLPGRTDNEIKNLWNTHLKKRML 117 (312)
Q Consensus 89 Ws~IA~~LpgRT~~qcKnRW~~lLkkkl~ 117 (312)
|+.||..+++||..+|.+||...+.....
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 99999999999999999999999887665
No 8
>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=1.9e-16 Score=116.15 Aligned_cols=60 Identities=47% Similarity=0.979 Sum_probs=54.8
Q ss_pred CCHHHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccccCCCCCCCCCCHHHHHHH
Q 021486 17 WAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLRPDIKRGPFTEEEEKLV 78 (312)
Q Consensus 17 WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~p~ikrg~WT~EED~~L 78 (312)
||+|||++|+++|++|| .+|..||+.+|. |++.||+.||.++|++.+++++||.+||++|
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~l~~-Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEHLGN-RTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHHSTT-S-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHHHCc-CCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 99999999999999999 599999999974 9999999999999999999999999999987
No 9
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.50 E-value=2.4e-14 Score=146.30 Aligned_cols=103 Identities=26% Similarity=0.563 Sum_probs=94.5
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccccCCC--CCCCCCCHHHHHHHHHHHh-------
Q 021486 13 KKGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLRPD--IKRGPFTEEEEKLVIQLHG------- 83 (312)
Q Consensus 13 kKG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~p~--ikrg~WT~EED~~Ll~lv~------- 83 (312)
++|.||+||++.|..+|.++| ++|..|++.+| |.+..||+||++|..+. .+++.||.||+++|+++|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g-~~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~ 459 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHG-NDWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREAL 459 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhc-ccHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhh
Confidence 899999999999999999999 69999999999 99999999999999987 4999999999999999995
Q ss_pred hc-------------------CCchHHHhhhCCCCCHHHHHHHHHHHHHHHHHh
Q 021486 84 IL-------------------GNRWAAIASQLPGRTDNEIKNLWNTHLKKRMLL 118 (312)
Q Consensus 84 ~~-------------------G~kWs~IA~~LpgRT~~qcKnRW~~lLkkkl~~ 118 (312)
++ +-+|..|++.+..|+..||+.+|+.++......
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n 513 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFN 513 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhh
Confidence 33 125999999999999999999999999887653
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=99.39 E-value=4.8e-13 Score=94.50 Aligned_cols=46 Identities=35% Similarity=0.725 Sum_probs=42.1
Q ss_pred CCCCCHHHHHHHHHHHhhcCCc-hHHHhhhCC-CCCHHHHHHHHHHHH
Q 021486 67 RGPFTEEEEKLVIQLHGILGNR-WAAIASQLP-GRTDNEIKNLWNTHL 112 (312)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~G~k-Ws~IA~~Lp-gRT~~qcKnRW~~lL 112 (312)
|++||+|||++|++++.+||.. |..||..|| |||..||++||++++
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 999999999999875
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=99.38 E-value=1e-13 Score=97.92 Aligned_cols=48 Identities=42% Similarity=0.808 Sum_probs=42.9
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCccccccccccccccc
Q 021486 14 KGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYL 61 (312)
Q Consensus 14 KG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L 61 (312)
|++||+|||++|+++|.+||.++|..||..++.+|++.||+.||+++|
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 689999999999999999998679999999995599999999999875
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=99.29 E-value=1.8e-12 Score=94.98 Aligned_cols=50 Identities=34% Similarity=0.656 Sum_probs=41.9
Q ss_pred CCHHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHHHHHhC
Q 021486 70 FTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKRMLLM 119 (312)
Q Consensus 70 WT~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkkl~~~ 119 (312)
||+|||++|+++|.+||++|..||++|+.||+.+|++||+..|++++...
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~ 50 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRG 50 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSS
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCC
Confidence 99999999999999999999999999966999999999999776554433
No 13
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.24 E-value=7.4e-12 Score=116.25 Aligned_cols=62 Identities=23% Similarity=0.457 Sum_probs=56.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHhhcC-CchHHHhhhC-CCCCHHHHHHHHHHHHHHHHHhCCCCCC
Q 021486 63 PDIKRGPFTEEEEKLVIQLHGILG-NRWAAIASQL-PGRTDNEIKNLWNTHLKKRMLLMGLDPQ 124 (312)
Q Consensus 63 p~ikrg~WT~EED~~Ll~lv~~~G-~kWs~IA~~L-pgRT~~qcKnRW~~lLkkkl~~~g~~p~ 124 (312)
+.+++++||+|||++|+++|++|| ++|..||+.+ ++||+.||+.||.++|++.+.+..|...
T Consensus 21 ~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~E 84 (249)
T PLN03212 21 MGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSD 84 (249)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChH
Confidence 578999999999999999999999 5799999998 6999999999999999999887766543
No 14
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.21 E-value=2.5e-11 Score=83.07 Aligned_cols=47 Identities=47% Similarity=0.882 Sum_probs=44.4
Q ss_pred CCCCCHHHHHHHHHHHhhcC-CchHHHhhhCCCCCHHHHHHHHHHHHH
Q 021486 67 RGPFTEEEEKLVIQLHGILG-NRWAAIASQLPGRTDNEIKNLWNTHLK 113 (312)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~G-~kWs~IA~~LpgRT~~qcKnRW~~lLk 113 (312)
+++||++||.+|+.++.+|| .+|..||..|++||+.+|++||+.+++
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 15
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.13 E-value=2.6e-11 Score=112.31 Aligned_cols=109 Identities=17% Similarity=0.293 Sum_probs=80.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHhhcCC-chHHHhhhCC-CCCHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCCCCCC
Q 021486 63 PDIKRGPFTEEEEKLVIQLHGILGN-RWAAIASQLP-GRTDNEIKNLWNTHLKKRMLLMGLDPQTHEPFSSSGPAIKAPA 140 (312)
Q Consensus 63 p~ikrg~WT~EED~~Ll~lv~~~G~-kWs~IA~~Lp-gRT~~qcKnRW~~lLkkkl~~~g~~p~~~~p~ss~~~~~~~~~ 140 (312)
+.+.+|+||.|||++|+++|++||. +|..|++.++ +|+..+||-||.++|++.+++..|.
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT------------------ 66 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFS------------------ 66 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCC------------------
Confidence 4456799999999999999999995 5999999999 9999999999999999999866544
Q ss_pred CCCCcchHHHHHHHHHHHHhhccccCCCCCCCCCCCCchhhhhhccccccccccccc
Q 021486 141 TPTTRHMAQWESARLEAEARLSRESLLFNTPSMGKTDSDHFLRMWNSEVGESFRKFN 197 (312)
Q Consensus 141 sp~~~~~~q~Es~~LEAearls~~s~l~~~~~~~~~~~d~~l~~w~~~~~~~~r~~~ 197 (312)
.+.|...+++-+.+.|-=..... -.++-.+..+..-||+.+-..++...
T Consensus 67 -------~eEe~~Ii~lH~~~GNrWs~IA~-~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 67 -------DEEEDLIIKLHALLGNRWSLIAG-RLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred -------HHHHHHHHHHHHHHCcHHHHHHh-hCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 33444555666666554111111 12334467778889988866665543
No 16
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.09 E-value=1.9e-10 Score=77.57 Aligned_cols=44 Identities=41% Similarity=0.830 Sum_probs=41.9
Q ss_pred CCCHHHHHHHHHHHhhcC-CchHHHhhhCCCCCHHHHHHHHHHHH
Q 021486 69 PFTEEEEKLVIQLHGILG-NRWAAIASQLPGRTDNEIKNLWNTHL 112 (312)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G-~kWs~IA~~LpgRT~~qcKnRW~~lL 112 (312)
+||.+|+..|++++.+|| .+|..||..|++||..+|++||++++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999998763
No 17
>PLN03091 hypothetical protein; Provisional
Probab=99.09 E-value=6.5e-11 Score=117.42 Aligned_cols=93 Identities=14% Similarity=0.267 Sum_probs=71.1
Q ss_pred CCCCCCCCCCHHHHHHHHHHHhhcC-CchHHHhhhC-CCCCHHHHHHHHHHHHHHHHHhCCCCCCCCC--------CCCC
Q 021486 62 RPDIKRGPFTEEEEKLVIQLHGILG-NRWAAIASQL-PGRTDNEIKNLWNTHLKKRMLLMGLDPQTHE--------PFSS 131 (312)
Q Consensus 62 ~p~ikrg~WT~EED~~Ll~lv~~~G-~kWs~IA~~L-pgRT~~qcKnRW~~lLkkkl~~~g~~p~~~~--------p~ss 131 (312)
++.+++++||+|||++|+++|.+|| .+|..||+.+ +||++.|||.||+++|++.+++..|.+.... ....
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnK 88 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcc
Confidence 4678999999999999999999999 4799999998 4999999999999999999998888775432 1122
Q ss_pred CCCCCC-CCCCCCCcchHHHHHHH
Q 021486 132 SGPAIK-APATPTTRHMAQWESAR 154 (312)
Q Consensus 132 ~~~~~~-~~~sp~~~~~~q~Es~~ 154 (312)
+..++. -+++++...-..|...+
T Consensus 89 WskIAk~LPGRTDnqIKNRWnslL 112 (459)
T PLN03091 89 WSQIAAQLPGRTDNEIKNLWNSCL 112 (459)
T ss_pred hHHHHHhcCCCCHHHHHHHHHHHH
Confidence 322222 34666665556666543
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.00 E-value=1.7e-10 Score=78.85 Aligned_cols=48 Identities=42% Similarity=0.896 Sum_probs=44.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccccC
Q 021486 14 KGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLR 62 (312)
Q Consensus 14 KG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~ 62 (312)
+++||++||++|+.++.+||..+|..|++.++. |++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~-rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPG-RTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCC-CCHHHHHHHHHHHcC
Confidence 578999999999999999997799999999995 999999999998764
No 19
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.83 E-value=1.4e-09 Score=73.29 Aligned_cols=45 Identities=44% Similarity=0.891 Sum_probs=41.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcchhchhhcCccccccccccccccc
Q 021486 16 PWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYL 61 (312)
Q Consensus 16 ~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L 61 (312)
+||++||+.|+.++.+||..+|..|++.++. |+..+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~-rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPG-RTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCC-CCHHHHHHHHHHhC
Confidence 5999999999999999997799999999987 99999999998753
No 20
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.77 E-value=6.4e-09 Score=106.96 Aligned_cols=100 Identities=28% Similarity=0.371 Sum_probs=83.1
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCC----C-------------------CcchhchhhcCccccccccc---ccccccCCCC
Q 021486 12 LKKGPWAPEEDEILVEYIKRNGH----G-------------------SWRSLPKLAGLLRCGKSCRL---RWTNYLRPDI 65 (312)
Q Consensus 12 lkKG~WT~EED~~L~~lV~kyG~----~-------------------~W~~IAk~lg~~Rs~kQCr~---Rw~n~L~p~i 65 (312)
++-+.|+++||+.|...|..|-. . -|..|.+.++- |+.+.++. |-.+.+.+
T Consensus 306 ~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp~-R~~~siy~~~rR~y~~FE~-- 382 (607)
T KOG0051|consen 306 INLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLPY-RDRKSIYHHLRRAYTPFEN-- 382 (607)
T ss_pred hhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcCc-ccchhHHHHHHhcCCcccc--
Confidence 44589999999999999887621 1 25666778886 99988877 43444444
Q ss_pred CCCCCCHHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHHH
Q 021486 66 KRGPFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKR 115 (312)
Q Consensus 66 krg~WT~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkk 115 (312)
++|.||++|++.|..+|.++|+.|..|++.| ||.+..|+.||+++.+..
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g 431 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCG 431 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccc
Confidence 9999999999999999999999999999999 999999999999998664
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=98.44 E-value=1.8e-08 Score=102.54 Aligned_cols=97 Identities=29% Similarity=0.626 Sum_probs=85.2
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccccCC--CCCCCCCCHHHHHHHHHHHhhcC---
Q 021486 12 LKKGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLRP--DIKRGPFTEEEEKLVIQLHGILG--- 86 (312)
Q Consensus 12 lkKG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~p--~ikrg~WT~EED~~Ll~lv~~~G--- 86 (312)
-.+|.||+||++.|...+.++| ..|..|.+.++ |-+..||+||++|..+ .+++++|+.||+.+|...+...-
T Consensus 289 ~~~~~wt~e~~~eL~~~~~~~~-~~w~~ig~~~~--rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e~~~~~ 365 (512)
T COG5147 289 EQRGKWTKEEEQELAKLVVEHG-GSWTEIGKLLG--RMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNEMRLEA 365 (512)
T ss_pred hhhccCcccccccccccccccc-chhhHhhhhhc--cCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHHHHHHH
Confidence 3579999999999999999999 59999999998 9999999999999998 68899999999999998886432
Q ss_pred -----CchHHHhhhCCCCCHHHHHHHHHHH
Q 021486 87 -----NRWAAIASQLPGRTDNEIKNLWNTH 111 (312)
Q Consensus 87 -----~kWs~IA~~LpgRT~~qcKnRW~~l 111 (312)
-.|..|+.++++|...+|+.++..+
T Consensus 366 ~~~~~~~~~li~~~~~~~~~~~~~~~~~~~ 395 (512)
T COG5147 366 QQSSRILWLLIAQNIRNRLQHHCRDKYGVL 395 (512)
T ss_pred hhhhhhhHHHHHHhhhccccCCCCCccccc
Confidence 3599999999888888887766554
No 22
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.21 E-value=8.9e-07 Score=89.53 Aligned_cols=96 Identities=16% Similarity=0.200 Sum_probs=81.6
Q ss_pred CCCCCCCHHHHHHHHHHHhhcC-CchHHHhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCCCC--------CCCCCCCCCC
Q 021486 65 IKRGPFTEEEEKLVIQLHGILG-NRWAAIASQLPGRTDNEIKNLWNTHLKKRMLLMGLDPQT--------HEPFSSSGPA 135 (312)
Q Consensus 65 ikrg~WT~EED~~Ll~lv~~~G-~kWs~IA~~LpgRT~~qcKnRW~~lLkkkl~~~g~~p~~--------~~p~ss~~~~ 135 (312)
++.|.|+.-||++|...|.+|| ++|+.|++.++-.|+.||++||+.++.+.+++.+|+... .....++.++
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrtI 84 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRTI 84 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccchH
Confidence 5678999999999999999999 679999999999999999999999999999999887653 2334567777
Q ss_pred CCCCCCCCCcchHHHHHHHHHHHHh
Q 021486 136 IKAPATPTTRHMAQWESARLEAEAR 160 (312)
Q Consensus 136 ~~~~~sp~~~~~~q~Es~~LEAear 160 (312)
++.-+++...+...++.....+...
T Consensus 85 a~i~gr~~~qc~eRy~~ll~~~~s~ 109 (617)
T KOG0050|consen 85 ADIMGRTSQQCLERYNNLLDVYVSY 109 (617)
T ss_pred HHHhhhhHHHHHHHHHHHHHHHHhh
Confidence 7778888888999888877655544
No 23
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.76 E-value=1.8e-05 Score=58.56 Aligned_cols=49 Identities=10% Similarity=0.285 Sum_probs=43.4
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCc---chhchhhcCcc-ccccccccccccc
Q 021486 13 KKGPWAPEEDEILVEYIKRNGHGSW---RSLPKLAGLLR-CGKSCRLRWTNYL 61 (312)
Q Consensus 13 kKG~WT~EED~~L~~lV~kyG~~~W---~~IAk~lg~~R-s~kQCr~Rw~n~L 61 (312)
++-.||+||..+++++|+.+|.++| ..|++.++..| +..||+.+++.|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 3567999999999999999998899 99999988657 9999999988764
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.46 E-value=0.00021 Score=71.42 Aligned_cols=51 Identities=25% Similarity=0.454 Sum_probs=45.8
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcC-CchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 64 DIKRGPFTEEEEKLVIQLHGILG-NRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 64 ~ikrg~WT~EED~~Ll~lv~~~G-~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.+-...||.+|+.+|++++..|| ++|..||.++..||..+|+.+|.++.-.
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv~ 120 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFVN 120 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHhc
Confidence 34557899999999999999999 8999999999889999999999887643
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=97.45 E-value=0.00038 Score=51.49 Aligned_cols=46 Identities=20% Similarity=0.263 Sum_probs=40.9
Q ss_pred CCCCCHHHHHHHHHHHhhcCC-ch---HHHhhhCC-CC-CHHHHHHHHHHHH
Q 021486 67 RGPFTEEEEKLVIQLHGILGN-RW---AAIASQLP-GR-TDNEIKNLWNTHL 112 (312)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~G~-kW---s~IA~~Lp-gR-T~~qcKnRW~~lL 112 (312)
+-.||+||..+.+++++.+|. +| ..|++.|. .| |..||+.+.+.+.
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 557999999999999999996 99 99999984 45 9999999988764
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.38 E-value=7.7e-05 Score=74.45 Aligned_cols=51 Identities=18% Similarity=0.530 Sum_probs=46.3
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccccC
Q 021486 11 GLKKGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLR 62 (312)
Q Consensus 11 ~lkKG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~ 62 (312)
.+-..-||.+|+-.|++++..||.|||..||.++|. |+..+|+++|.+++.
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGt-Ktkeeck~hy~k~fv 119 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGT-KTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcc-cchHHHHHHHHHHHh
Confidence 355678999999999999999999999999999995 999999999988753
No 27
>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=97.17 E-value=0.00053 Score=60.56 Aligned_cols=51 Identities=22% Similarity=0.350 Sum_probs=44.8
Q ss_pred CCCCCCHHHHHHHHHHHhhc---CC----chHHHhhhCCCCCHHHHHHHHHHHHHHHHH
Q 021486 66 KRGPFTEEEEKLVIQLHGIL---GN----RWAAIASQLPGRTDNEIKNLWNTHLKKRML 117 (312)
Q Consensus 66 krg~WT~EED~~Ll~lv~~~---G~----kWs~IA~~LpgRT~~qcKnRW~~lLkkkl~ 117 (312)
+...||.|||.+|.+.|-.| |. -+..++..| +||+..|.-|||..++++..
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~ 60 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYE 60 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHH
Confidence 45789999999999999887 32 389999999 99999999999999998753
No 28
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.10 E-value=0.00046 Score=53.66 Aligned_cols=51 Identities=35% Similarity=0.535 Sum_probs=36.0
Q ss_pred CCCCCHHHHHHHHHHHhh------cC--C------chHHHhhhC----CCCCHHHHHHHHHHHHHHHHH
Q 021486 67 RGPFTEEEEKLVIQLHGI------LG--N------RWAAIASQL----PGRTDNEIKNLWNTHLKKRML 117 (312)
Q Consensus 67 rg~WT~EED~~Ll~lv~~------~G--~------kWs~IA~~L----pgRT~~qcKnRW~~lLkkkl~ 117 (312)
|..||.+|...||+++.. ++ + -|..||..| ..||+.||+++|+++.+.-..
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~ 69 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKK 69 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHC
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence 357999999999999877 21 1 399999998 359999999999997665443
No 29
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=96.82 E-value=0.0029 Score=57.86 Aligned_cols=100 Identities=21% Similarity=0.398 Sum_probs=73.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcchhchhhcCc--ccccccccccccccC-CCC--------------------CCCCCCH
Q 021486 16 PWAPEEDEILVEYIKRNGHGSWRSLPKLAGLL--RCGKSCRLRWTNYLR-PDI--------------------KRGPFTE 72 (312)
Q Consensus 16 ~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~--Rs~kQCr~Rw~n~L~-p~i--------------------krg~WT~ 72 (312)
+|++++|-.|+.+|..- ++-..|+.-+... -|-..+.+||+..|- |.+ .+-+||.
T Consensus 1 rW~~~DDl~Li~av~~~--~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~ 78 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQT--NDLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSK 78 (199)
T ss_pred CCCchhhHHHHHHHHHh--cCHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCH
Confidence 69999999999999984 3677777655442 455667789988763 222 3568999
Q ss_pred HHHHHHHHHHhhcCC---chHHHhhh-----CCCCCHHHHHHHHHHHHHHHHH
Q 021486 73 EEEKLVIQLHGILGN---RWAAIASQ-----LPGRTDNEIKNLWNTHLKKRML 117 (312)
Q Consensus 73 EED~~Ll~lv~~~G~---kWs~IA~~-----LpgRT~~qcKnRW~~lLkkkl~ 117 (312)
+|+++|........+ .+.+|=.. -++||+.++.++|..+.+..+.
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~LL 131 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHLL 131 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhchh
Confidence 999999997765543 36666322 3789999999999976666554
No 30
>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=96.62 E-value=0.003 Score=47.96 Aligned_cols=51 Identities=27% Similarity=0.505 Sum_probs=33.4
Q ss_pred CCCCCHHHHHHHHHHHhhc--------CCc-hHHHhhhCC-CCCHHHHHHHHHHHHHHHHH
Q 021486 67 RGPFTEEEEKLVIQLHGIL--------GNR-WAAIASQLP-GRTDNEIKNLWNTHLKKRML 117 (312)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~--------G~k-Ws~IA~~Lp-gRT~~qcKnRW~~lLkkkl~ 117 (312)
|.+||.+||..|++.|.++ ||+ |.+++..-+ .+|-...|+||...|+.+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~ 62 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR 62 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence 4689999999999999654 232 999999988 89999999999999887653
No 31
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.60 E-value=0.0023 Score=64.66 Aligned_cols=45 Identities=13% Similarity=0.250 Sum_probs=42.5
Q ss_pred CCCCHHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHH
Q 021486 68 GPFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHL 112 (312)
Q Consensus 68 g~WT~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lL 112 (312)
..||.+|..+|++.++.||..|.+||.++..||..||.-||-++=
T Consensus 280 k~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~LP 324 (531)
T COG5259 280 KNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQLP 324 (531)
T ss_pred ccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcCC
Confidence 489999999999999999999999999999999999999998763
No 32
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.58 E-value=0.0028 Score=65.12 Aligned_cols=47 Identities=17% Similarity=0.335 Sum_probs=43.7
Q ss_pred CCCCCCHHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHH
Q 021486 66 KRGPFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHL 112 (312)
Q Consensus 66 krg~WT~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lL 112 (312)
-+..||.+|.-+|++.+..||-.|.+||.++.+||..||.-++.++=
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~LP 298 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRLP 298 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhcC
Confidence 45789999999999999999999999999999999999999987664
No 33
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.57 E-value=0.0009 Score=67.55 Aligned_cols=46 Identities=22% Similarity=0.533 Sum_probs=42.6
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccc
Q 021486 13 KKGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNY 60 (312)
Q Consensus 13 kKG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~ 60 (312)
....||.+|-.+|++.|+.||. +|.+||.++|. |+.-||..||.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVgt-Kt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVGT-KTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhCC-CCHHHHHHHHHcC
Confidence 5679999999999999999995 99999999995 9999999999874
No 34
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.38 E-value=0.0015 Score=67.05 Aligned_cols=48 Identities=21% Similarity=0.526 Sum_probs=43.3
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccc
Q 021486 11 GLKKGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNY 60 (312)
Q Consensus 11 ~lkKG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~ 60 (312)
.--++.||.+|+.+|+++|+.||. +|.+|+.++|. |+..||..++.+.
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg~-ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYGD-DWNKVADHVGT-KSQEQCILKFLRL 297 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhcc-cHHHHHhccCC-CCHHHHHHHHHhc
Confidence 345788999999999999999995 99999999995 9999999998764
No 35
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.16 E-value=0.0063 Score=54.37 Aligned_cols=49 Identities=18% Similarity=0.329 Sum_probs=42.3
Q ss_pred CCCCCCHHHHHHHHHHHhhcCCc-------hHHHhhhCCCCCHHHHHHHHHHHHHHH
Q 021486 66 KRGPFTEEEEKLVIQLHGILGNR-------WAAIASQLPGRTDNEIKNLWNTHLKKR 115 (312)
Q Consensus 66 krg~WT~EED~~Ll~lv~~~G~k-------Ws~IA~~LpgRT~~qcKnRW~~lLkkk 115 (312)
+...||.|+|.+|-+.|-.|+.. ...++..| +||..+|..|||..++++
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~ 59 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQ 59 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHH
Confidence 56789999999998888887632 77888888 999999999999999875
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=96.11 E-value=0.002 Score=56.97 Aligned_cols=50 Identities=26% Similarity=0.634 Sum_probs=42.4
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCC------CCcchhchhhcCcccccccccccccccCC
Q 021486 12 LKKGPWAPEEDEILVEYIKRNGH------GSWRSLPKLAGLLRCGKSCRLRWTNYLRP 63 (312)
Q Consensus 12 lkKG~WT~EED~~L~~lV~kyG~------~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~p 63 (312)
.+...||.|||.+|.+.|-+|-. ..+..+++.++ ||+..|..||..+++.
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VRk 57 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVRK 57 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHHH
Confidence 46788999999999999999832 14778888888 9999999999998873
No 37
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.89 E-value=0.02 Score=43.67 Aligned_cols=49 Identities=29% Similarity=0.523 Sum_probs=40.6
Q ss_pred CCCCCHHHHHHHHHHHhhcC----C-------------chHHHhhhC-----CCCCHHHHHHHHHHHHHHH
Q 021486 67 RGPFTEEEEKLVIQLHGILG----N-------------RWAAIASQL-----PGRTDNEIKNLWNTHLKKR 115 (312)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~G----~-------------kWs~IA~~L-----pgRT~~qcKnRW~~lLkkk 115 (312)
...||.+|...|++++.+|. + -|..|+..| +.||..|++.+|..+...-
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 45799999999999998862 1 299999987 3599999999999887553
No 38
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.87 E-value=0.022 Score=55.47 Aligned_cols=48 Identities=27% Similarity=0.443 Sum_probs=43.5
Q ss_pred CCCCCCHHHHHHHHHHHhhcC-CchHHHhhhCCCCCHHHHHHHHHHHHH
Q 021486 66 KRGPFTEEEEKLVIQLHGILG-NRWAAIASQLPGRTDNEIKNLWNTHLK 113 (312)
Q Consensus 66 krg~WT~EED~~Ll~lv~~~G-~kWs~IA~~LpgRT~~qcKnRW~~lLk 113 (312)
--..|+.+|+.+|++...-+| ++|..||.++..|+..+||.+|.....
T Consensus 62 ~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 62 GEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred cCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 345799999999999999999 899999999988999999999877654
No 39
>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=95.80 E-value=0.0039 Score=47.28 Aligned_cols=51 Identities=27% Similarity=0.478 Sum_probs=32.5
Q ss_pred cCCCCHHHHHHHHHHHHHhCC--------CCcchhchhhcCcccccccccccccccCCC
Q 021486 14 KGPWAPEEDEILVEYIKRNGH--------GSWRSLPKLAGLLRCGKSCRLRWTNYLRPD 64 (312)
Q Consensus 14 KG~WT~EED~~L~~lV~kyG~--------~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~p~ 64 (312)
+-+||.|||+.|+.+|..+.. .-|..+++.-+..++..+-|+||...|.+.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~ 60 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGR 60 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT---
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcc
Confidence 357999999999999976521 138888887664599999999999988764
No 40
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.14 E-value=0.055 Score=60.19 Aligned_cols=102 Identities=14% Similarity=0.278 Sum_probs=76.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcchhchhhcCccccccccc-------ccccc----------------------------
Q 021486 16 PWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRL-------RWTNY---------------------------- 60 (312)
Q Consensus 16 ~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~-------Rw~n~---------------------------- 60 (312)
-|+.-+=..++.+..+||..+-..||..+.+ ++...++. ||..+
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~-k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~ 904 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEMEG-KTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG 904 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhcC-CCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4888888888888899998888889988864 66665543 22211
Q ss_pred --------------c-CCCCCCCCCCHHHHHHHHHHHhhcC-CchHHHhhh------------CCCCCHHHHHHHHHHHH
Q 021486 61 --------------L-RPDIKRGPFTEEEEKLVIQLHGILG-NRWAAIASQ------------LPGRTDNEIKNLWNTHL 112 (312)
Q Consensus 61 --------------L-~p~ikrg~WT~EED~~Ll~lv~~~G-~kWs~IA~~------------LpgRT~~qcKnRW~~lL 112 (312)
+ -+..++..||.|||..|+-++.+|| .+|..|-.. +..||+.++..|.++++
T Consensus 905 ~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~ 984 (1033)
T PLN03142 905 KKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI 984 (1033)
T ss_pred HHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence 0 0233455699999999999999999 679999543 35799999999999998
Q ss_pred HHHHHh
Q 021486 113 KKRMLL 118 (312)
Q Consensus 113 kkkl~~ 118 (312)
+-..+.
T Consensus 985 ~~~~~e 990 (1033)
T PLN03142 985 RLIEKE 990 (1033)
T ss_pred HHHHHH
Confidence 775443
No 41
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=94.86 E-value=0.0084 Score=46.49 Aligned_cols=47 Identities=28% Similarity=0.619 Sum_probs=32.3
Q ss_pred CCCCHHHHHHHHHHHHH--h----C--C-----CCcchhchhh---cCccccccccccccccc
Q 021486 15 GPWAPEEDEILVEYIKR--N----G--H-----GSWRSLPKLA---GLLRCGKSCRLRWTNYL 61 (312)
Q Consensus 15 G~WT~EED~~L~~lV~k--y----G--~-----~~W~~IAk~l---g~~Rs~kQCr~Rw~n~L 61 (312)
-.||.+|...|+.++.. + + . .-|..||..| |..|++.||+.||.+..
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 47999999999998877 1 1 0 1499999764 45699999999998753
No 42
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.04 E-value=0.016 Score=44.32 Aligned_cols=49 Identities=27% Similarity=0.480 Sum_probs=39.0
Q ss_pred CcCCCCHHHHHHHHHHHHHhCC----------------CCcchhchhh----cCccccccccccccccc
Q 021486 13 KKGPWAPEEDEILVEYIKRNGH----------------GSWRSLPKLA----GLLRCGKSCRLRWTNYL 61 (312)
Q Consensus 13 kKG~WT~EED~~L~~lV~kyG~----------------~~W~~IAk~l----g~~Rs~kQCr~Rw~n~L 61 (312)
++..||++|.+.|+++|.+|.. .-|..|+..+ +..|+..|++.+|.++.
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 4578999999999999998722 1499999754 22599999999998864
No 43
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=93.81 E-value=0.015 Score=51.95 Aligned_cols=50 Identities=22% Similarity=0.545 Sum_probs=39.2
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCC------cchhchhhcCcccccccccccccccC
Q 021486 11 GLKKGPWAPEEDEILVEYIKRNGHGS------WRSLPKLAGLLRCGKSCRLRWTNYLR 62 (312)
Q Consensus 11 ~lkKG~WT~EED~~L~~lV~kyG~~~------W~~IAk~lg~~Rs~kQCr~Rw~n~L~ 62 (312)
..++..||.|||.+|.+.|..|+... ...++..+. |+...|..||..+++
T Consensus 2 k~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 2 KTRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred cchhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 35788999999999999999986543 344445666 999999999966654
No 44
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=93.80 E-value=0.022 Score=55.58 Aligned_cols=48 Identities=19% Similarity=0.531 Sum_probs=44.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccccC
Q 021486 14 KGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLR 62 (312)
Q Consensus 14 KG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~ 62 (312)
---|+..|+-+|++..+..|.+||..||..+|. |....|+.+|..++.
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGs-r~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGS-RAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhh-hhhHHHHHHHHHHHh
Confidence 346999999999999999999999999999995 999999999998876
No 45
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=93.48 E-value=0.14 Score=43.28 Aligned_cols=53 Identities=25% Similarity=0.422 Sum_probs=42.3
Q ss_pred CCCCCCCCHHHHHHHHHHHhhcCC----chHHHhhh------------CCCCCHHHHHHHHHHHHHHHH
Q 021486 64 DIKRGPFTEEEEKLVIQLHGILGN----RWAAIASQ------------LPGRTDNEIKNLWNTHLKKRM 116 (312)
Q Consensus 64 ~ikrg~WT~EED~~Ll~lv~~~G~----kWs~IA~~------------LpgRT~~qcKnRW~~lLkkkl 116 (312)
..++..||++||.-|+-++.+||- .|..|-.. +..||+.++..|.+++++--.
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~ 114 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIE 114 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHH
Confidence 556789999999999999999996 79988664 357999999999999987543
No 46
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=92.86 E-value=0.19 Score=48.94 Aligned_cols=51 Identities=24% Similarity=0.360 Sum_probs=41.6
Q ss_pred CCCCCHHHHHHHHHHHhhc----------CCchHHHhhhC----CCCCHHHHHHHHHHHHHHHHH
Q 021486 67 RGPFTEEEEKLVIQLHGIL----------GNRWAAIASQL----PGRTDNEIKNLWNTHLKKRML 117 (312)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~----------G~kWs~IA~~L----pgRT~~qcKnRW~~lLkkkl~ 117 (312)
...|+.+|-..||++..+. +.-|..||..| .-||+.|||++|.++.++-..
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~ 118 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKK 118 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Confidence 3689999999999987653 23499999966 239999999999999877544
No 47
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=92.63 E-value=0.12 Score=51.70 Aligned_cols=53 Identities=19% Similarity=0.283 Sum_probs=47.5
Q ss_pred CCCCHHHHHHHHHHHhhcCCchHHHhhh-----CCC-CCHHHHHHHHHHHHHHHHHhCC
Q 021486 68 GPFTEEEEKLVIQLHGILGNRWAAIASQ-----LPG-RTDNEIKNLWNTHLKKRMLLMG 120 (312)
Q Consensus 68 g~WT~EED~~Ll~lv~~~G~kWs~IA~~-----Lpg-RT~~qcKnRW~~lLkkkl~~~g 120 (312)
..||.+|-+-|++|++.|.-+|..|+.. ++. ||-.++|.||+...++-++...
T Consensus 131 n~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~ 189 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARA 189 (445)
T ss_pred ccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHccC
Confidence 5699999999999999999999999988 566 9999999999999988876543
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=92.10 E-value=0.39 Score=37.54 Aligned_cols=46 Identities=33% Similarity=0.577 Sum_probs=35.9
Q ss_pred CCCHHHHHHHHHHHhhc---CC----------chHHHhhhC---CC--CCHHHHHHHHHHHHHH
Q 021486 69 PFTEEEEKLVIQLHGIL---GN----------RWAAIASQL---PG--RTDNEIKNLWNTHLKK 114 (312)
Q Consensus 69 ~WT~EED~~Ll~lv~~~---G~----------kWs~IA~~L---pg--RT~~qcKnRW~~lLkk 114 (312)
.||+++++.|++++.+. |+ .|..|+..| +| .|..||++||..+.+.
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 49999999999987542 21 299999987 23 5889999999877655
No 49
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=89.62 E-value=0.35 Score=48.35 Aligned_cols=49 Identities=20% Similarity=0.268 Sum_probs=45.1
Q ss_pred CCCCHHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHHHH
Q 021486 68 GPFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKRM 116 (312)
Q Consensus 68 g~WT~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkkl 116 (312)
.+|+.+|-++..++..+.|..++.|+..+|.|...|||.+|.+--|++-
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~nP 414 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKVNP 414 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhhCH
Confidence 4799999999999999999999999999999999999999988766643
No 50
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=88.74 E-value=0.9 Score=46.40 Aligned_cols=50 Identities=22% Similarity=0.298 Sum_probs=45.2
Q ss_pred CCCCCCHHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHHH
Q 021486 66 KRGPFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKR 115 (312)
Q Consensus 66 krg~WT~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkk 115 (312)
....||.||-.++-+.+..||..+.+|.+.||.|+-..+..+|+..-|.+
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~~ 235 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKTR 235 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHHh
Confidence 34689999999999999999999999999999999999999998876654
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=87.28 E-value=1.9 Score=30.18 Aligned_cols=42 Identities=26% Similarity=0.346 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 72 EEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 72 ~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
++++..++.++...|-.|.+||..+ |.+...|+.+...-+++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~~ 53 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARKK 53 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHhh
Confidence 4678888999999999999999999 99999999988776553
No 52
>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=84.67 E-value=0.76 Score=38.79 Aligned_cols=34 Identities=26% Similarity=0.493 Sum_probs=29.0
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCC---CCcchhchhh
Q 021486 11 GLKKGPWAPEEDEILVEYIKRNGH---GSWRSLPKLA 44 (312)
Q Consensus 11 ~lkKG~WT~EED~~L~~lV~kyG~---~~W~~IAk~l 44 (312)
.-++..||.+||.-|+-++.+||. +.|..|...+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 677899999999999999999999 8999998654
No 53
>smart00595 MADF subfamily of SANT domain.
Probab=83.00 E-value=1.6 Score=33.69 Aligned_cols=25 Identities=32% Similarity=0.658 Sum_probs=22.0
Q ss_pred hHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 89 WAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 89 Ws~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
|..||..| |-+..+|+.+|+++-..
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~~ 54 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRDR 54 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 99999999 55999999999988543
No 54
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=82.26 E-value=2.3 Score=45.87 Aligned_cols=46 Identities=15% Similarity=0.125 Sum_probs=42.8
Q ss_pred CCCCHHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 021486 68 GPFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLK 113 (312)
Q Consensus 68 g~WT~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLk 113 (312)
..||+.|-.+.-+++-.|...+..|++.++++|-.||-.+|+++.|
T Consensus 620 d~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtWKK 665 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTWKK 665 (907)
T ss_pred ccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHHHH
Confidence 5799999999999999999999999999999999999999887754
No 55
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=77.05 E-value=1.3 Score=44.33 Aligned_cols=45 Identities=16% Similarity=0.200 Sum_probs=41.0
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCccccccccccccc
Q 021486 13 KKGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTN 59 (312)
Q Consensus 13 kKG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n 59 (312)
.--+||.+|-++...+...+|. ++..|+..++. |..+|++..|.+
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP~-R~RkqIKaKfi~ 408 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGT-DFSLISSLFPN-RERKQIKAKFIK 408 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcc-hHHHHHHhcCc-hhHHHHHHHHHH
Confidence 3457999999999999999996 99999999996 999999999876
No 56
>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=76.42 E-value=2.5 Score=33.43 Aligned_cols=29 Identities=34% Similarity=0.687 Sum_probs=17.1
Q ss_pred CCCcCCCCHHHHHHH--------HHHHHHhCCCCcchhch
Q 021486 11 GLKKGPWAPEEDEIL--------VEYIKRNGHGSWRSLPK 42 (312)
Q Consensus 11 ~lkKG~WT~EED~~L--------~~lV~kyG~~~W~~IAk 42 (312)
.-..|-||+|+|+.| ..++++|| +..|..
T Consensus 44 ~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG---~~~i~~ 80 (87)
T PF11626_consen 44 DNMPGIWTPEDDEMLRSGDKDDIERLIKKHG---EERIER 80 (87)
T ss_dssp TT-TT---HHHHHHHTS--HHHHHHHHHHH----HHHHHH
T ss_pred CCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC---HHHHHH
Confidence 345889999999999 35677887 455543
No 57
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=75.61 E-value=5.7 Score=42.10 Aligned_cols=53 Identities=11% Similarity=0.356 Sum_probs=42.8
Q ss_pred CCCCCHHHHHHHHHHHhhcCCchHHHhh----------hCCCCCHHHHHHHHHHHHHHHHHhC
Q 021486 67 RGPFTEEEEKLVIQLHGILGNRWAAIAS----------QLPGRTDNEIKNLWNTHLKKRMLLM 119 (312)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~G~kWs~IA~----------~LpgRT~~qcKnRW~~lLkkkl~~~ 119 (312)
+..||.+|+.-...+.+++|..+..|-. ...-+|..|++.+|++.+.+-.+..
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~ 150 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLL 150 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhh
Confidence 5689999999999999999999988822 2334688899999998887754433
No 58
>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=71.93 E-value=12 Score=25.91 Aligned_cols=41 Identities=29% Similarity=0.412 Sum_probs=32.3
Q ss_pred HHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 73 EEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 73 EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
+++..++.++-..|-.+.+||..| |-+...|+.+....+++
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 456666666666677899999999 99999999988877765
No 59
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=69.16 E-value=2.1 Score=41.58 Aligned_cols=47 Identities=23% Similarity=0.408 Sum_probs=36.5
Q ss_pred CCCCHHHHHHHHHHHHHh----C-----CCCcchhchh---hcCccccccccccccccc
Q 021486 15 GPWAPEEDEILVEYIKRN----G-----HGSWRSLPKL---AGLLRCGKSCRLRWTNYL 61 (312)
Q Consensus 15 G~WT~EED~~L~~lV~ky----G-----~~~W~~IAk~---lg~~Rs~kQCr~Rw~n~L 61 (312)
..|+.+|-..|+.+..+. . ..-|..||+. .|..|++.||+.+|.|..
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 689999999999887532 1 1259999974 344599999999998753
No 60
>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=68.97 E-value=2 Score=29.62 Aligned_cols=38 Identities=21% Similarity=0.353 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHhCCCCcchhchhhcCccccccccccccc
Q 021486 20 EEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTN 59 (312)
Q Consensus 20 EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n 59 (312)
+=|.+|+.+.++.|...|..||+.+| =+...|+.|+..
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg--lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG--LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT--S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC--cCHHHHHHHHHH
Confidence 34889999999999999999999999 588888888754
No 61
>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=65.71 E-value=17 Score=24.99 Aligned_cols=38 Identities=18% Similarity=0.351 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhhcCC-chHHHhhhCCCCCHHHHHHHHHHH
Q 021486 73 EEEKLVIQLHGILGN-RWAAIASQLPGRTDNEIKNLWNTH 111 (312)
Q Consensus 73 EED~~Ll~lv~~~G~-kWs~IA~~LpgRT~~qcKnRW~~l 111 (312)
+=|.+|+.+...-|. .|..||+.+ |=|...|..|++.+
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 457888888888874 599999999 99999999998765
No 62
>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=63.50 E-value=5.9 Score=30.79 Aligned_cols=44 Identities=23% Similarity=0.626 Sum_probs=28.6
Q ss_pred CCCHHHHHHHHHHHHHh---CC----C-----Ccchhchhhc----Cccccccccccccc
Q 021486 16 PWAPEEDEILVEYIKRN---GH----G-----SWRSLPKLAG----LLRCGKSCRLRWTN 59 (312)
Q Consensus 16 ~WT~EED~~L~~lV~ky---G~----~-----~W~~IAk~lg----~~Rs~kQCr~Rw~n 59 (312)
.||+++++.|++++... |. + .|..|++.+. ...+..||+.||..
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~ 60 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKT 60 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHH
Confidence 59999999999987543 21 1 3777775443 33556666666643
No 63
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=61.63 E-value=32 Score=34.00 Aligned_cols=48 Identities=27% Similarity=0.514 Sum_probs=37.3
Q ss_pred CCCCCHHHHHHHHHHHhhc-CCc---hHHHhhhCCCCCHHHHHHHHHHHHHHH
Q 021486 67 RGPFTEEEEKLVIQLHGIL-GNR---WAAIASQLPGRTDNEIKNLWNTHLKKR 115 (312)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~-G~k---Ws~IA~~LpgRT~~qcKnRW~~lLkkk 115 (312)
-..||.-|...|+.+.+.. |.. -..|++.++||+..+|++.-+.+ |.|
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~L-K~r 72 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQL-KGR 72 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHH-HHH
Confidence 4579999999999887655 433 57899999999999999866554 444
No 64
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=60.41 E-value=20 Score=30.76 Aligned_cols=45 Identities=11% Similarity=0.121 Sum_probs=38.5
Q ss_pred HHHHHHHHHHhhcC-CchHHHhhhCCCCCHHHHHHHHHHHHHHHHHh
Q 021486 73 EEEKLVIQLHGILG-NRWAAIASQLPGRTDNEIKNLWNTHLKKRMLL 118 (312)
Q Consensus 73 EED~~Ll~lv~~~G-~kWs~IA~~LpgRT~~qcKnRW~~lLkkkl~~ 118 (312)
+-|.+|+++.++-| -.|+.||+.+ |-+...|+.|++.+....+.+
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 57888888888887 4699999999 999999999999888776553
No 65
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=60.20 E-value=4 Score=35.10 Aligned_cols=45 Identities=18% Similarity=0.213 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccccCCCC
Q 021486 19 PEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLRPDI 65 (312)
Q Consensus 19 ~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~p~i 65 (312)
.+-|.+|+.+.++.|.-.|..||+.+| -+...|+.|+.+....++
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 457999999999999999999999999 799999999988766543
No 66
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=58.69 E-value=17 Score=36.67 Aligned_cols=47 Identities=17% Similarity=0.227 Sum_probs=41.4
Q ss_pred CCCCHHHHHHHHHHHhhcCCchHHHhh-hCCCCCHHHHHHHHHHHHHH
Q 021486 68 GPFTEEEEKLVIQLHGILGNRWAAIAS-QLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 68 g~WT~EED~~Ll~lv~~~G~kWs~IA~-~LpgRT~~qcKnRW~~lLkk 114 (312)
..|+++|-...-+..+.||..+..|.. +++.|+--.|..+|+.+.|.
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWKkS 325 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWKKS 325 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhhcC
Confidence 479999999999999999999999954 57999999999999877543
No 67
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=58.64 E-value=22 Score=29.26 Aligned_cols=36 Identities=22% Similarity=0.350 Sum_probs=27.4
Q ss_pred HHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 78 VIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 78 Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
++.+.-..|-.+.+||+.| |.+...|++++...+++
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 3334334577899999999 99999999999886443
No 68
>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=57.86 E-value=13 Score=32.90 Aligned_cols=40 Identities=25% Similarity=0.257 Sum_probs=34.1
Q ss_pred CCCHHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHH
Q 021486 69 PFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWN 109 (312)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~ 109 (312)
.||+|+.++|.+|.. -|-.=++||..|.|.|.|.|.-+-+
T Consensus 2 ~Wtde~~~~L~~lw~-~G~SasqIA~~lg~vsRnAViGk~h 41 (162)
T PF07750_consen 2 SWTDERVERLRKLWA-EGLSASQIARQLGGVSRNAVIGKAH 41 (162)
T ss_pred CCCHHHHHHHHHHHH-cCCCHHHHHHHhCCcchhhhhhhhh
Confidence 599999999999984 4788899999997799998876554
No 69
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=54.04 E-value=26 Score=30.45 Aligned_cols=46 Identities=4% Similarity=0.035 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHhhcC-CchHHHhhhCCCCCHHHHHHHHHHHHHHHHHh
Q 021486 72 EEEEKLVIQLHGILG-NRWAAIASQLPGRTDNEIKNLWNTHLKKRMLL 118 (312)
Q Consensus 72 ~EED~~Ll~lv~~~G-~kWs~IA~~LpgRT~~qcKnRW~~lLkkkl~~ 118 (312)
.+-|.+|+.+.++-| -.|.+||+.+ |=+...|..|++.+.+..+.+
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 456888888888877 4699999999 999999999999988876543
No 70
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=54.01 E-value=4.3 Score=35.36 Aligned_cols=45 Identities=20% Similarity=0.233 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccccCCCC
Q 021486 19 PEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLRPDI 65 (312)
Q Consensus 19 ~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~p~i 65 (312)
.+-|.+|+.+.++.|.-.|..||+.+| -+...|+.|+.+..+..+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 556999999999999999999999999 688999999988766544
No 71
>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=52.72 E-value=32 Score=26.68 Aligned_cols=39 Identities=15% Similarity=0.238 Sum_probs=28.6
Q ss_pred HHHHHHHhhcCC--------chHHHhhhCCC---CC--HHHHHHHHHHHHHH
Q 021486 76 KLVIQLHGILGN--------RWAAIASQLPG---RT--DNEIKNLWNTHLKK 114 (312)
Q Consensus 76 ~~Ll~lv~~~G~--------kWs~IA~~Lpg---RT--~~qcKnRW~~lLkk 114 (312)
-.|..+|.+.|+ .|..|+..|.- -+ ..+++..|..+|..
T Consensus 39 ~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 39 YKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 357777888773 59999999932 12 37899999988753
No 72
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=52.31 E-value=14 Score=38.10 Aligned_cols=42 Identities=19% Similarity=0.345 Sum_probs=37.6
Q ss_pred CCCHHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHH
Q 021486 69 PFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTH 111 (312)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~l 111 (312)
.||++|-. +++-..-||.+...|+..+..+|+.|++.+|..-
T Consensus 472 ~wSp~e~s-~ircf~~y~~~fe~ia~l~~tktp~Q~~~fy~~n 513 (534)
T KOG1194|consen 472 GWSPEEKS-AIRCFHWYKDNFELIAELMATKTPEQIKKFYMDN 513 (534)
T ss_pred CCCCcccc-cccCchhhccchHHHHHHhcCCCHHHHHHHhcCc
Confidence 59998887 8888889999999999999999999999998644
No 73
>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=50.85 E-value=8.1 Score=30.44 Aligned_cols=17 Identities=29% Similarity=0.573 Sum_probs=10.3
Q ss_pred CCCCCCCCCHHHHHHHH
Q 021486 63 PDIKRGPFTEEEEKLVI 79 (312)
Q Consensus 63 p~ikrg~WT~EED~~Ll 79 (312)
|....|-||+++|+.|.
T Consensus 43 P~n~~GiWT~eDD~~L~ 59 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLR 59 (87)
T ss_dssp -TT-TT---HHHHHHHT
T ss_pred CCCCCCCcCHHHHHHHH
Confidence 66678999999999994
No 74
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=50.28 E-value=38 Score=26.59 Aligned_cols=39 Identities=18% Similarity=0.285 Sum_probs=29.3
Q ss_pred HHHHHHHhhcCC--------chHHHhhhCCC-----CCHHHHHHHHHHHHHH
Q 021486 76 KLVIQLHGILGN--------RWAAIASQLPG-----RTDNEIKNLWNTHLKK 114 (312)
Q Consensus 76 ~~Ll~lv~~~G~--------kWs~IA~~Lpg-----RT~~qcKnRW~~lLkk 114 (312)
-.|..+|.++|+ +|..|+..|.- ....+++..|..+|.+
T Consensus 35 ~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 35 YRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 357777877773 69999999832 2367889999988865
No 75
>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=49.72 E-value=18 Score=26.87 Aligned_cols=27 Identities=22% Similarity=0.473 Sum_probs=22.1
Q ss_pred chHHHhhhCCC-CCHHHHHHHHHHHHHH
Q 021486 88 RWAAIASQLPG-RTDNEIKNLWNTHLKK 114 (312)
Q Consensus 88 kWs~IA~~Lpg-RT~~qcKnRW~~lLkk 114 (312)
-|..|+..|.. -+..+|+.+|+++...
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~ 55 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDR 55 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHH
Confidence 39999999953 5788999999987754
No 76
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=47.57 E-value=36 Score=31.37 Aligned_cols=44 Identities=20% Similarity=0.231 Sum_probs=34.0
Q ss_pred CCCHHHHHHHHHHHhhcCCchHHHhhhC---CCCCHHHHHHHHHHHHH
Q 021486 69 PFTEEEEKLVIQLHGILGNRWAAIASQL---PGRTDNEIKNLWNTHLK 113 (312)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G~kWs~IA~~L---pgRT~~qcKnRW~~lLk 113 (312)
.|++.+|-.||..|.. |+.-..|+.-+ -.-|-.+|..||+.+|-
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~lly 47 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLY 47 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHc
Confidence 4999999999999855 55556665543 24688999999999983
No 77
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=46.52 E-value=51 Score=26.14 Aligned_cols=34 Identities=26% Similarity=0.254 Sum_probs=26.5
Q ss_pred HHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 80 QLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 80 ~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.++-..|..+..||+.+ |=+...|+++.+..+++
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 34434578899999999 78999999988886554
No 78
>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=46.52 E-value=27 Score=27.57 Aligned_cols=29 Identities=28% Similarity=0.540 Sum_probs=24.1
Q ss_pred HHHHHHHHhhcCCchHHHhhhCCCCCHHHH
Q 021486 75 EKLVIQLHGILGNRWAAIASQLPGRTDNEI 104 (312)
Q Consensus 75 D~~Ll~lv~~~G~kWs~IA~~LpgRT~~qc 104 (312)
|+.|..+....|..|..+|.+| |=|..+|
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I 30 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDI 30 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 5678899999999999999999 6665544
No 79
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=45.94 E-value=23 Score=40.65 Aligned_cols=73 Identities=18% Similarity=0.297 Sum_probs=45.8
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCcchhch--hhcCcccccccccccccccCCCCCCCCCCHHHHHHHHHHHhhc-CCch
Q 021486 13 KKGPWAPEEDEILVEYIKRNGHGSWRSLPK--LAGLLRCGKSCRLRWTNYLRPDIKRGPFTEEEEKLVIQLHGIL-GNRW 89 (312)
Q Consensus 13 kKG~WT~EED~~L~~lV~kyG~~~W~~IAk--~lg~~Rs~kQCr~Rw~n~L~p~ikrg~WT~EED~~Ll~lv~~~-G~kW 89 (312)
.---|..+||..|+-.|-+||.++|..|-- .+++ +. ...+...+..+.|=...-..|+.+...+ +.+|
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~l--~d-------Ki~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~ 1202 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLGL--TD-------KIFLVETVPQAKHLQRRADYLLSLLRKHDKGNT 1202 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccCccccc--hh-------hhcccccCCchHHHHHHHHHHHHHHhhcccCCC
Confidence 456799999999999999999999999962 2331 00 1111222334455555666666666655 4445
Q ss_pred HHHhh
Q 021486 90 AAIAS 94 (312)
Q Consensus 90 s~IA~ 94 (312)
....+
T Consensus 1203 ~~~~~ 1207 (1373)
T KOG0384|consen 1203 PKKLK 1207 (1373)
T ss_pred chhhh
Confidence 54443
No 80
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=44.45 E-value=68 Score=27.34 Aligned_cols=42 Identities=19% Similarity=0.294 Sum_probs=31.5
Q ss_pred HHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHHHHHhCCCCC
Q 021486 81 LHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKRMLLMGLDP 123 (312)
Q Consensus 81 lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkkl~~~g~~p 123 (312)
|....|-...+||..| |-+...|+.+-..-+++-.......|
T Consensus 130 L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~~~~l~~~~ 171 (172)
T PRK12523 130 YNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQCYIALYGEP 171 (172)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHhcCCC
Confidence 3334577899999999 99999999998887777555544433
No 81
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=44.24 E-value=18 Score=38.29 Aligned_cols=50 Identities=18% Similarity=0.312 Sum_probs=44.4
Q ss_pred CCCCCCHHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHHH
Q 021486 66 KRGPFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKR 115 (312)
Q Consensus 66 krg~WT~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkk 115 (312)
..+.|+.+|-++......+.|...+.|+..+|+|...|||.++..-=+++
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE~r~ 457 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEEKRN 457 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhhhcc
Confidence 34689999999999999999999999999999999999999887655443
No 82
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=43.94 E-value=66 Score=20.87 Aligned_cols=40 Identities=25% Similarity=0.282 Sum_probs=28.0
Q ss_pred CCHHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHH
Q 021486 70 FTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTH 111 (312)
Q Consensus 70 WT~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~l 111 (312)
++++ +..++.++-.-|-.+..||..+ |-+...|+.+.+..
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 3344 4455555556778899999999 88888887766554
No 83
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=41.30 E-value=13 Score=40.42 Aligned_cols=44 Identities=11% Similarity=0.255 Sum_probs=39.1
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCccccccccccccc
Q 021486 14 KGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTN 59 (312)
Q Consensus 14 KG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n 59 (312)
-..||+.|-.++.+++-.|. .++..|++.+.. ++.+||-+-|+.
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~-KDF~~v~km~~~-KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYS-KDFIFVQKMVKS-KTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhc-ccHHHHHHHhcc-ccHHHHHHHHHH
Confidence 35799999999999999998 599999999986 999999887754
No 84
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=41.16 E-value=54 Score=27.54 Aligned_cols=31 Identities=16% Similarity=0.148 Sum_probs=24.6
Q ss_pred hhcCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 83 GILGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 83 ~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
...|-.+..||..| |-+...|+++....+++
T Consensus 141 ~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 141 EIEGLSYEEIAEIM-GCPIGTVRSRIFRAREA 171 (182)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34577899999999 99999999887765444
No 85
>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=40.36 E-value=55 Score=28.68 Aligned_cols=47 Identities=17% Similarity=0.186 Sum_probs=38.9
Q ss_pred CCCCCCHHHHHHHHHHHhhcCCchHHHhhhCC-C---CCHHHHHHHHHHHH
Q 021486 66 KRGPFTEEEEKLVIQLHGILGNRWAAIASQLP-G---RTDNEIKNLWNTHL 112 (312)
Q Consensus 66 krg~WT~EED~~Ll~lv~~~G~kWs~IA~~Lp-g---RT~~qcKnRW~~lL 112 (312)
....-|..|..-|..|+.+||..+..++.-.. + .|..||+.+...+.
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~k 163 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKYK 163 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHhc
Confidence 34567899999999999999999999988764 3 79999998877653
No 86
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=39.34 E-value=58 Score=27.28 Aligned_cols=30 Identities=20% Similarity=0.211 Sum_probs=24.1
Q ss_pred hcCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 84 ILGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 84 ~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
..|-.+..||..| |-+...|++++....++
T Consensus 139 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 139 VEGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3467799999999 99999999988765443
No 87
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=38.79 E-value=83 Score=27.65 Aligned_cols=38 Identities=18% Similarity=0.214 Sum_probs=29.3
Q ss_pred HHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 76 KLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 76 ~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
..++.+..-.|-.+.+||..| |-+...|+.+|.....+
T Consensus 141 ~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR~~ 178 (185)
T PF07638_consen 141 RRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRARAW 178 (185)
T ss_pred HHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 334444444578899999999 99999999999877533
No 88
>cd08803 Death_ank3 Death domain of Ankyrin-3. Death Domain (DD) of the human protein ankyrin-3 (ANK-3) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-3, also called anykyrin-G (for general or giant), is found in neurons and at least one splice variant has been shown to be essential for propagation of action potentials as a binding partner to neurofascin and voltage-gated sodium channels. It is required for maintaining axo-dendritic polarity, and may be a genetic risk factor associated with bipolar disorder. ANK-3 may also play roles in other cell types. Mutations affecting ANK-3 pathways for Na channel localization are associated with Brugada syndrome, a potentially fata arrythmia. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by se
Probab=38.49 E-value=49 Score=26.11 Aligned_cols=31 Identities=23% Similarity=0.391 Sum_probs=25.4
Q ss_pred HHHHHHHHhhcCCchHHHhhhCCCCCHHHHHH
Q 021486 75 EKLVIQLHGILGNRWAAIASQLPGRTDNEIKN 106 (312)
Q Consensus 75 D~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKn 106 (312)
|.+|..+....|..|..+|..| |=+..+|.+
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 6678888999999999999999 766655543
No 89
>PRK04217 hypothetical protein; Provisional
Probab=38.22 E-value=83 Score=26.23 Aligned_cols=46 Identities=17% Similarity=0.071 Sum_probs=36.9
Q ss_pred CCCCHHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHHH
Q 021486 68 GPFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKR 115 (312)
Q Consensus 68 g~WT~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkk 115 (312)
..-+.+| ..++.+....|-...+||+.+ |-+...|+.+++...++-
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkkL 86 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKKV 86 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 3456666 577788777888999999999 999999999998765543
No 90
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=37.17 E-value=16 Score=37.03 Aligned_cols=50 Identities=18% Similarity=0.246 Sum_probs=42.0
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCCcchhchh-----hcCccccccccccccccc
Q 021486 11 GLKKGPWAPEEDEILVEYIKRNGHGSWRSLPKL-----AGLLRCGKSCRLRWTNYL 61 (312)
Q Consensus 11 ~lkKG~WT~EED~~L~~lV~kyG~~~W~~IAk~-----lg~~Rs~kQCr~Rw~n~L 61 (312)
.+.-..||+||-+-|..+.++|.- .|-.|+.. .+..|+--..++||..+.
T Consensus 127 ~l~dn~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 127 HLNDNSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred hhccccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 355578999999999999999985 89999965 666699999999998653
No 91
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=35.86 E-value=98 Score=26.54 Aligned_cols=34 Identities=12% Similarity=0.127 Sum_probs=26.8
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHHHHHhC
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKKRMLLM 119 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkkl~~~ 119 (312)
.|-...+||..| |-+...|+.+....+++-...+
T Consensus 146 ~g~s~~eIA~~l-~is~~tV~~~l~ra~~~Lr~~l 179 (184)
T PRK12512 146 EGASIKETAAKL-SMSEGAVRVALHRGLAALAAKF 179 (184)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHHh
Confidence 366789999999 9999999999887766544433
No 92
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=35.34 E-value=75 Score=27.85 Aligned_cols=30 Identities=20% Similarity=0.226 Sum_probs=24.2
Q ss_pred hcCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 84 ILGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 84 ~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
..|-...+||..| |-+...|++|+...+++
T Consensus 148 ~~g~s~~EIA~~l-g~s~~tV~~rl~rar~~ 177 (192)
T PRK09643 148 MQGYSVADAARML-GVAEGTVKSRCARGRAR 177 (192)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3467799999999 99999999999554443
No 93
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=35.07 E-value=72 Score=28.83 Aligned_cols=44 Identities=25% Similarity=0.270 Sum_probs=37.0
Q ss_pred CCCCHHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 68 GPFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 68 g~WT~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
...|+.|-+.|..+.+=+.| .+||..| +.+..-||+|..++++|
T Consensus 147 ~~LT~RE~eVL~lla~G~sn--keIA~~L-~iS~~TVk~h~~~i~~K 190 (211)
T COG2197 147 ELLTPRELEVLRLLAEGLSN--KEIAEEL-NLSEKTVKTHVSNILRK 190 (211)
T ss_pred CCCCHHHHHHHHHHHCCCCH--HHHHHHH-CCCHhHHHHHHHHHHHH
Confidence 46899998888877655544 8999999 99999999999988876
No 94
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=34.86 E-value=65 Score=26.06 Aligned_cols=49 Identities=20% Similarity=0.135 Sum_probs=32.8
Q ss_pred CCCCHHHHHHHHHHHhhc----C----CchHHHh----hhCCC-CCHHHHHHHHHHHHHHHH
Q 021486 68 GPFTEEEEKLVIQLHGIL----G----NRWAAIA----SQLPG-RTDNEIKNLWNTHLKKRM 116 (312)
Q Consensus 68 g~WT~EED~~Ll~lv~~~----G----~kWs~IA----~~Lpg-RT~~qcKnRW~~lLkkkl 116 (312)
.-||+++|..|++.+..| | ..|..+- ..|.- =+.+|+.++-+.+-++-.
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~ 66 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYR 66 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHH
Confidence 359999999999987665 6 2354443 33322 377888888877655533
No 95
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=34.49 E-value=1.1e+02 Score=30.29 Aligned_cols=87 Identities=16% Similarity=0.273 Sum_probs=59.1
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcc---hhchhhcCcccccccccccccccCCCCCCCCCCHHHHHHHHHHHhh-c----
Q 021486 14 KGPWAPEEDEILVEYIKRNGHGSWR---SLPKLAGLLRCGKSCRLRWTNYLRPDIKRGPFTEEEEKLVIQLHGI-L---- 85 (312)
Q Consensus 14 KG~WT~EED~~L~~lV~kyG~~~W~---~IAk~lg~~Rs~kQCr~Rw~n~L~p~ikrg~WT~EED~~Ll~lv~~-~---- 85 (312)
...||.-|...|+.+.+......+- .|++.+.+ |+..++++ |.+.|+ +..+.+++++ |
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~-Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g~ 86 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPG-RSEAEIRD-FLQQLK------------GRVAREAIQKVHPGGL 86 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccC-cCHHHHHH-HHHHHH------------HHHHHHHHHHhccccc
Confidence 4579999999999998876323444 55666665 88887766 333333 2233344443 1
Q ss_pred -CCc------------hHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 86 -GNR------------WAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 86 -G~k------------Ws~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
|.+ |..+|+.+.|.-...+-.-|-+.|--
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~i 128 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLTI 128 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHHH
Confidence 211 99999999999999888888877743
No 96
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=33.49 E-value=1e+02 Score=24.29 Aligned_cols=45 Identities=11% Similarity=0.121 Sum_probs=37.7
Q ss_pred HHHHHHHHHHhhcC-CchHHHhhhCCCCCHHHHHHHHHHHHHHHHHh
Q 021486 73 EEEKLVIQLHGILG-NRWAAIASQLPGRTDNEIKNLWNTHLKKRMLL 118 (312)
Q Consensus 73 EED~~Ll~lv~~~G-~kWs~IA~~LpgRT~~qcKnRW~~lLkkkl~~ 118 (312)
+.|.+|+.+..+.| -.+..||+.+ |-+...|..+.+.+.+..+..
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 46788888888877 4699999999 999999999999998876544
No 97
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=33.40 E-value=1.1e+02 Score=26.56 Aligned_cols=35 Identities=14% Similarity=0.195 Sum_probs=25.8
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHH---HHHHHHHhCC
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNT---HLKKRMLLMG 120 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~---lLkkkl~~~g 120 (312)
.|-.-.+||..| |-+...|+.+... .|++.+...+
T Consensus 151 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~~l~~~~ 188 (195)
T PRK12532 151 LGFSSDEIQQMC-GISTSNYHTIMHRARESLRQCLQIKW 188 (195)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHHhh
Confidence 466789999999 9999999988765 4444554443
No 98
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=33.28 E-value=36 Score=36.40 Aligned_cols=47 Identities=13% Similarity=0.287 Sum_probs=34.1
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCc---------cccccccccccccc
Q 021486 14 KGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLL---------RCGKSCRLRWTNYL 61 (312)
Q Consensus 14 KG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~---------Rs~kQCr~Rw~n~L 61 (312)
|..||..|.+-...+++++| .++..|-..+-.. ++-.|+|..|++.+
T Consensus 88 ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV 143 (782)
T ss_pred ccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence 56799999999999999999 4898884322211 45557777776544
No 99
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=33.20 E-value=80 Score=26.92 Aligned_cols=29 Identities=10% Similarity=-0.034 Sum_probs=23.8
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.|..+.+||..| |-+...|+++.....++
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 467799999999 99999999987766544
No 100
>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=32.85 E-value=68 Score=27.47 Aligned_cols=30 Identities=10% Similarity=0.021 Sum_probs=24.3
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKKR 115 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkk 115 (312)
.|-...+||..| |=+...|+++....+++-
T Consensus 153 ~~~s~~EIA~~l-gis~~tv~~~l~rar~~L 182 (190)
T TIGR02939 153 EGLSYEDIARIM-DCPVGTVRSRIFRAREAI 182 (190)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 356799999999 899999999987766553
No 101
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=31.84 E-value=90 Score=26.39 Aligned_cols=30 Identities=20% Similarity=0.240 Sum_probs=24.5
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKKR 115 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkk 115 (312)
.|-...+||..| |-|...|++++...+++-
T Consensus 134 ~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~L 163 (169)
T TIGR02954 134 HDLTIKEIAEVM-NKPEGTVKTYLHRALKKL 163 (169)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 466789999999 889999999988776553
No 102
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=31.11 E-value=1e+02 Score=25.50 Aligned_cols=29 Identities=14% Similarity=0.140 Sum_probs=23.6
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.|-.-.+||..| |-+...|+.+....+++
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 466789999999 99999999987765544
No 103
>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=31.03 E-value=75 Score=24.09 Aligned_cols=30 Identities=27% Similarity=0.537 Sum_probs=22.5
Q ss_pred HHHHHHHHHhh-cCCchHHHhhhCCCCCHHHH
Q 021486 74 EEKLVIQLHGI-LGNRWAAIASQLPGRTDNEI 104 (312)
Q Consensus 74 ED~~Ll~lv~~-~G~kWs~IA~~LpgRT~~qc 104 (312)
-+..|..++.. .|..|..+|..| |=+..+|
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i 34 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKL-GLSEADI 34 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHc-CCCHHHH
Confidence 34567777777 899999999999 5555554
No 104
>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=30.80 E-value=55 Score=25.32 Aligned_cols=30 Identities=23% Similarity=0.654 Sum_probs=23.7
Q ss_pred HHHHHHHHhhcCCchHHHhhhCCCCCHHHHH
Q 021486 75 EKLVIQLHGILGNRWAAIASQLPGRTDNEIK 105 (312)
Q Consensus 75 D~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcK 105 (312)
|..|..+.+..|..|.++|..| |=+..+|.
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 4567788889999999999999 66655543
No 105
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=30.61 E-value=1.5e+02 Score=25.48 Aligned_cols=34 Identities=18% Similarity=0.128 Sum_probs=28.4
Q ss_pred hcCCchHHHhhhCCCCCHHHHHHHHHHHHHHHHHh
Q 021486 84 ILGNRWAAIASQLPGRTDNEIKNLWNTHLKKRMLL 118 (312)
Q Consensus 84 ~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkkl~~ 118 (312)
..|-...+||..| |-+...|+.|...-+.+-+..
T Consensus 141 ~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~~ 174 (178)
T PRK12529 141 LDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLSL 174 (178)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHh
Confidence 3467899999999 999999999998887776554
No 106
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=30.31 E-value=66 Score=21.98 Aligned_cols=36 Identities=28% Similarity=0.356 Sum_probs=18.4
Q ss_pred CCCHHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHH
Q 021486 69 PFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKN 106 (312)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKn 106 (312)
.+|.+|-..|..++ .-|..=.+||+.| ||+..-|.+
T Consensus 4 ~Lt~~eR~~I~~l~-~~G~s~~~IA~~l-g~s~sTV~r 39 (44)
T PF13936_consen 4 HLTPEERNQIEALL-EQGMSIREIAKRL-GRSRSTVSR 39 (44)
T ss_dssp --------HHHHHH-CS---HHHHHHHT-T--HHHHHH
T ss_pred chhhhHHHHHHHHH-HcCCCHHHHHHHH-CcCcHHHHH
Confidence 56777777777665 5678889999999 999987765
No 107
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=29.77 E-value=84 Score=22.22 Aligned_cols=43 Identities=28% Similarity=0.351 Sum_probs=31.0
Q ss_pred CCCHHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 69 PFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
..|+.|-+.|.-+.. |..=.+||..+ |.+...|+.+...+.++
T Consensus 3 ~LT~~E~~vl~~l~~--G~~~~eIA~~l-~is~~tV~~~~~~i~~K 45 (58)
T PF00196_consen 3 SLTERELEVLRLLAQ--GMSNKEIAEEL-GISEKTVKSHRRRIMKK 45 (58)
T ss_dssp SS-HHHHHHHHHHHT--TS-HHHHHHHH-TSHHHHHHHHHHHHHHH
T ss_pred ccCHHHHHHHHHHHh--cCCcchhHHhc-CcchhhHHHHHHHHHHH
Confidence 356677766665553 55568999999 99999999988877665
No 108
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=29.59 E-value=1.1e+02 Score=22.07 Aligned_cols=35 Identities=23% Similarity=0.378 Sum_probs=25.0
Q ss_pred HHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHH
Q 021486 73 EEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLW 108 (312)
Q Consensus 73 EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW 108 (312)
+.|+-.+.+..+.|-.=.+||+.+ ||+.+-|+++-
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 456666777788999999999999 99999887753
No 109
>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=29.57 E-value=1e+02 Score=20.65 Aligned_cols=34 Identities=21% Similarity=0.187 Sum_probs=25.8
Q ss_pred HHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHH
Q 021486 74 EEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLW 108 (312)
Q Consensus 74 ED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW 108 (312)
|...|.+....++++....|+.| |=+...+..+-
T Consensus 6 E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~kl 39 (42)
T PF02954_consen 6 EKQLIRQALERCGGNVSKAARLL-GISRRTLYRKL 39 (42)
T ss_dssp HHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHHH
T ss_pred HHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHH
Confidence 67788899999999999999999 76666655543
No 110
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=29.52 E-value=1.1e+02 Score=26.72 Aligned_cols=29 Identities=24% Similarity=0.100 Sum_probs=23.9
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.|-...+||..| |-+...|+++....+++
T Consensus 121 ~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 121 EGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 467899999999 99999999987765544
No 111
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=28.53 E-value=1.5e+02 Score=24.99 Aligned_cols=33 Identities=18% Similarity=0.095 Sum_probs=25.8
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHHHHHh
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKKRMLL 118 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkkl~~ 118 (312)
.|-...+||..| |-+...|+++-...+++-...
T Consensus 127 ~g~s~~eIA~~l-gis~~tV~~~l~Rar~~Lr~~ 159 (164)
T PRK12547 127 SGFSYEDAAAIC-GCAVGTIKSRVSRARNRLQEL 159 (164)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHH
Confidence 466789999999 999999999887776654433
No 112
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=28.32 E-value=1.5e+02 Score=25.64 Aligned_cols=29 Identities=17% Similarity=0.232 Sum_probs=24.1
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.|....+||..| |-+...|+.+....+++
T Consensus 154 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 154 VGLSAEETAEAV-GSTPGAVRVAQHRALAR 182 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 467799999999 99999999988766554
No 113
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=28.11 E-value=1e+02 Score=26.24 Aligned_cols=28 Identities=11% Similarity=-0.002 Sum_probs=23.1
Q ss_pred CCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 86 GNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 86 G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
|....+||..| |-+...|+++....+++
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 56789999999 89999999988766544
No 114
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=28.06 E-value=78 Score=24.79 Aligned_cols=27 Identities=30% Similarity=0.621 Sum_probs=21.1
Q ss_pred HHHHHhhcCCchHHHhhhCCCCCHHHHH
Q 021486 78 VIQLHGILGNRWAAIASQLPGRTDNEIK 105 (312)
Q Consensus 78 Ll~lv~~~G~kWs~IA~~LpgRT~~qcK 105 (312)
|..+....|..|..+|..| |=+..+|.
T Consensus 10 l~~ia~~iG~~Wk~Lar~L-Gls~~dI~ 36 (86)
T cd08318 10 ITVFANKLGEDWKTLAPHL-EMKDKEIR 36 (86)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 3446678899999999999 77777663
No 115
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=28.04 E-value=1.1e+02 Score=26.52 Aligned_cols=28 Identities=14% Similarity=0.105 Sum_probs=22.9
Q ss_pred CCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 86 GNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 86 G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
|-...+||..| |-+...|++++...+++
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 56689999999 88999999987766544
No 116
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=27.97 E-value=25 Score=29.45 Aligned_cols=43 Identities=12% Similarity=0.106 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccccCCC
Q 021486 20 EEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLRPD 64 (312)
Q Consensus 20 EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~p~ 64 (312)
+-|.+++++.++.+...+..||+.+| -+...|+.|-.+..+..
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~lg--lS~~~v~~Ri~~L~~~G 50 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERVG--LSPSTVLRRIKRLEEEG 50 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCC
Confidence 56889999999999889999999999 78888988877765544
No 117
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=27.91 E-value=1.2e+02 Score=26.16 Aligned_cols=29 Identities=14% Similarity=0.103 Sum_probs=23.8
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.|-...+||..| |-+...|++++...+++
T Consensus 146 ~~~s~~eIA~~l-gis~~tV~~~l~Rar~~ 174 (189)
T PRK12515 146 HEKSVEEVGEIV-GIPESTVKTRMFYARKK 174 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 466799999999 88999999998765544
No 118
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=27.81 E-value=32 Score=27.20 Aligned_cols=43 Identities=19% Similarity=0.185 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHhCCCCcchhchhhcCcccccccccccccccCCC
Q 021486 20 EEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTNYLRPD 64 (312)
Q Consensus 20 EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n~L~p~ 64 (312)
+.|.+++.++++.+.-.+..|++.++ -+...|+.|........
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l~--~s~~tv~~~l~~L~~~g 45 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKVG--LSPSTVHNRVKRLEEEG 45 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCC
Confidence 56889999999998889999999998 68888888877665443
No 119
>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=27.62 E-value=78 Score=24.80 Aligned_cols=31 Identities=26% Similarity=0.483 Sum_probs=25.3
Q ss_pred HHHHHHHHhhcCCchHHHhhhCCCCCHHHHHH
Q 021486 75 EKLVIQLHGILGNRWAAIASQLPGRTDNEIKN 106 (312)
Q Consensus 75 D~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKn 106 (312)
|..|-.+....|..|..+|..| |=+..+|.+
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 777776655
No 120
>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=27.08 E-value=39 Score=26.63 Aligned_cols=21 Identities=33% Similarity=0.626 Sum_probs=19.0
Q ss_pred HHHHHHHhhcCCchHHHhhhC
Q 021486 76 KLVIQLHGILGNRWAAIASQL 96 (312)
Q Consensus 76 ~~Ll~lv~~~G~kWs~IA~~L 96 (312)
..|..+....|..|..++.+|
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L 23 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL 23 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc
Confidence 467888999999999999999
No 121
>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=26.86 E-value=88 Score=24.32 Aligned_cols=33 Identities=30% Similarity=0.608 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHH
Q 021486 72 EEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKN 106 (312)
Q Consensus 72 ~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKn 106 (312)
.||.++|+.. ...|..|...|..| |=+...|++
T Consensus 2 ~~~v~~ll~~-~nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLES-GRPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhC-CCCccCHHHHHHHc-CCCHHHHHH
Confidence 5777777732 25788999999999 877777765
No 122
>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=26.62 E-value=1.3e+02 Score=26.19 Aligned_cols=30 Identities=17% Similarity=0.134 Sum_probs=24.3
Q ss_pred hcCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 84 ILGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 84 ~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
..|....+||..| |-+...|+.|....+++
T Consensus 145 ~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~ 174 (188)
T TIGR02943 145 VLGFESDEICQEL-EISTSNCHVLLYRARLS 174 (188)
T ss_pred HhCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3467799999999 99999999987766544
No 123
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=26.43 E-value=1.4e+02 Score=24.90 Aligned_cols=29 Identities=14% Similarity=-0.069 Sum_probs=23.2
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.|-.-.+||..| |-+...|+++....+++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (160)
T PRK09642 121 EEKSYQEIALQE-KIEVKTVEMKLYRARKW 149 (160)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466789999999 99999999887655443
No 124
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=25.67 E-value=2.2e+02 Score=22.87 Aligned_cols=44 Identities=14% Similarity=0.130 Sum_probs=35.4
Q ss_pred CCCCCHHHHHHHHHHHhhcCCchHHHhhhCCCC-CHHHHHHHHHHH
Q 021486 67 RGPFTEEEEKLVIQLHGILGNRWAAIASQLPGR-TDNEIKNLWNTH 111 (312)
Q Consensus 67 rg~WT~EED~~Ll~lv~~~G~kWs~IA~~LpgR-T~~qcKnRW~~l 111 (312)
+..||.|.-..+++++..-|..=+.||..+ |- ..+++..-++++
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l~~W~~~~ 49 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQLYKWRIQL 49 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHHHHHHHHH
Confidence 568999999999999999999889999999 75 666655544443
No 125
>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=24.85 E-value=53 Score=29.03 Aligned_cols=33 Identities=24% Similarity=0.284 Sum_probs=26.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcchhchhhcC-cccc
Q 021486 16 PWAPEEDEILVEYIKRNGHGSWRSLPKLAGL-LRCG 50 (312)
Q Consensus 16 ~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~-~Rs~ 50 (312)
.||.|+.++|.++... |. .=.+||+.+|. +|+.
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 4999999999999976 53 67999999993 3444
No 126
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=24.83 E-value=1.5e+02 Score=25.91 Aligned_cols=28 Identities=11% Similarity=0.005 Sum_probs=23.0
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLK 113 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLk 113 (312)
.|-...+||..| |-+...|+.|...-++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~RAr~ 176 (189)
T PRK12530 149 LELSSEQICQEC-DISTSNLHVLLYRARL 176 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 366799999999 9999999998765543
No 127
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=24.72 E-value=2.1e+02 Score=24.16 Aligned_cols=29 Identities=28% Similarity=0.325 Sum_probs=23.7
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.|-.-.+||..| |.+...|+.+...-+++
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 99999999988766544
No 128
>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=24.22 E-value=88 Score=24.69 Aligned_cols=30 Identities=37% Similarity=0.576 Sum_probs=23.8
Q ss_pred HHHHHHHhhcCCchHHHhhhCCCCCHHHHHH
Q 021486 76 KLVIQLHGILGNRWAAIASQLPGRTDNEIKN 106 (312)
Q Consensus 76 ~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKn 106 (312)
+.|-.+....|..|..+|..| |=+..+|..
T Consensus 3 ~~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 3 KHLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 345556678899999999999 888877765
No 129
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=24.09 E-value=1.5e+02 Score=25.80 Aligned_cols=29 Identities=14% Similarity=0.036 Sum_probs=23.0
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.|-.+.+||..| |-+...|+++...-+++
T Consensus 151 ~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~ 179 (196)
T PRK12524 151 EGLSNPEIAEVM-EIGVEAVESLTARGKRA 179 (196)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 467799999999 88888888877665444
No 130
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=24.09 E-value=1.8e+02 Score=25.35 Aligned_cols=29 Identities=10% Similarity=0.012 Sum_probs=23.6
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.|-...+||..| |-+...|+.|....+++
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 366789999999 99999999987766554
No 131
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=22.76 E-value=1.7e+02 Score=24.91 Aligned_cols=28 Identities=18% Similarity=0.232 Sum_probs=23.2
Q ss_pred CCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 86 GNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 86 G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
|-.-.+||..| |.+...|+.+....+++
T Consensus 145 g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 172 (179)
T PRK12514 145 GLSYKELAERH-DVPLNTMRTWLRRSLLK 172 (179)
T ss_pred CCCHHHHHHHH-CCChHHHHHHHHHHHHH
Confidence 66789999999 99999999988766544
No 132
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=22.74 E-value=2.4e+02 Score=24.41 Aligned_cols=32 Identities=19% Similarity=0.148 Sum_probs=25.6
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKKRML 117 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkkl~ 117 (312)
.|-...+||..| |-+...|+.+....+++-..
T Consensus 145 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~ 176 (185)
T PRK09649 145 LGLSYADAAAVC-GCPVGTIRSRVARARDALLA 176 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHh
Confidence 356689999999 99999999998777655443
No 133
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=22.58 E-value=1.5e+02 Score=25.28 Aligned_cols=29 Identities=21% Similarity=0.284 Sum_probs=24.0
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.|-...+||+.| |-+...|+++...-++.
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 99999999998766554
No 134
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=22.57 E-value=1.9e+02 Score=23.77 Aligned_cols=29 Identities=21% Similarity=0.320 Sum_probs=22.5
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.|-...+||..| |-+...|+++-...+++
T Consensus 121 ~~~s~~EIA~~l-~is~~tV~~~~~ra~~~ 149 (154)
T PRK06759 121 VGKTMGEIALET-EMTYYQVRWIYRQALEK 149 (154)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 355689999999 99999999887665443
No 135
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=22.25 E-value=64 Score=24.62 Aligned_cols=22 Identities=27% Similarity=0.650 Sum_probs=17.9
Q ss_pred HHHHHHHHHHhCCCCcchhchhhcC
Q 021486 22 DEILVEYIKRNGHGSWRSLPKLAGL 46 (312)
Q Consensus 22 D~~L~~lV~kyG~~~W~~IAk~lg~ 46 (312)
+.+|.++|..|| |..+++.+..
T Consensus 12 e~il~~Lv~~yG---W~~L~~~i~i 33 (64)
T PF09905_consen 12 ETILTELVEHYG---WEELGERINI 33 (64)
T ss_dssp HHHHHHHHHHT----HHHHHHHTTS
T ss_pred HHHHHHHHHHhC---HHHHHhhccc
Confidence 468889999998 9999988764
No 136
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=21.73 E-value=2e+02 Score=23.89 Aligned_cols=29 Identities=21% Similarity=0.234 Sum_probs=23.4
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.|-.-.+||..| |-+...|+.|...-++.
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 355679999999 99999999988766554
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=21.52 E-value=69 Score=26.41 Aligned_cols=28 Identities=18% Similarity=0.083 Sum_probs=23.5
Q ss_pred CCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 86 GNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 86 G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
|-.+.+||..| |-+...|++++....++
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 45699999999 99999999998776544
No 138
>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=21.51 E-value=2e+02 Score=24.48 Aligned_cols=29 Identities=21% Similarity=0.209 Sum_probs=23.6
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.|-...+||..| |-+...|+.|...-+++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 177 (183)
T TIGR02999 149 AGLTVEEIAELL-GVSVRTVERDWRFARAW 177 (183)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 356789999999 99999999988766544
No 139
>PRK00118 putative DNA-binding protein; Validated
Probab=21.29 E-value=2.2e+02 Score=23.53 Aligned_cols=40 Identities=10% Similarity=0.091 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHH
Q 021486 72 EEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHL 112 (312)
Q Consensus 72 ~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lL 112 (312)
++.+..++.+....|-...+||+.+ |-+...|+.+-....
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RAr 58 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRTE 58 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 3456677778778889999999999 999999988766544
No 140
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=21.27 E-value=2.1e+02 Score=23.89 Aligned_cols=29 Identities=24% Similarity=0.319 Sum_probs=23.6
Q ss_pred hcCCchHHHhhhCCCCCHHHHHHHHHHHHH
Q 021486 84 ILGNRWAAIASQLPGRTDNEIKNLWNTHLK 113 (312)
Q Consensus 84 ~~G~kWs~IA~~LpgRT~~qcKnRW~~lLk 113 (312)
-.|-...+||..| |-+...|+.|...-++
T Consensus 127 ~~g~s~~EIA~~l-~is~~tV~~~l~ra~~ 155 (161)
T PRK12528 127 VDGLGYGEIATEL-GISLATVKRYLNKAAM 155 (161)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3467789999999 9999999998776644
No 141
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=21.23 E-value=2e+02 Score=24.64 Aligned_cols=28 Identities=21% Similarity=0.185 Sum_probs=23.0
Q ss_pred CCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 86 GNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 86 G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
|-.-.+||..| |-+...|+.+.+..+++
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 55679999999 99999999988776554
No 142
>TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in a limited number of Gram-positive bacterial lineages.
Probab=21.21 E-value=2e+02 Score=23.95 Aligned_cols=28 Identities=32% Similarity=0.350 Sum_probs=22.4
Q ss_pred CCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 86 GNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 86 G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
|-...+||+.| |-+...|+.+-...+++
T Consensus 138 g~s~~eIA~~l-~is~~tv~~~l~ra~~~ 165 (170)
T TIGR02952 138 NLPIAEVARIL-GKTEGAVKILQFRAIKK 165 (170)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 66789999999 99999999887665543
No 143
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=21.10 E-value=2e+02 Score=24.73 Aligned_cols=30 Identities=23% Similarity=0.181 Sum_probs=24.6
Q ss_pred hcCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 84 ILGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 84 ~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
..|-...+||..| |.+...|+++-...+++
T Consensus 143 ~~g~s~~EIA~~l-~is~~tV~~~l~rar~~ 172 (181)
T PRK12536 143 LEGLSVAETAQLT-GLSESAVKVGIHRGLKA 172 (181)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3467799999999 99999999987766554
No 144
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=20.90 E-value=2e+02 Score=25.20 Aligned_cols=32 Identities=22% Similarity=0.185 Sum_probs=24.7
Q ss_pred HhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 82 HGILGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 82 v~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
....|-...+||..| |-+...|+.|-..-+++
T Consensus 128 ~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~~ 159 (187)
T PRK12516 128 VGASGFAYEEAAEIC-GCAVGTIKSRVNRARQR 159 (187)
T ss_pred HHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333467799999999 99999999887655543
No 145
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=20.67 E-value=2.3e+02 Score=25.76 Aligned_cols=43 Identities=26% Similarity=0.274 Sum_probs=34.4
Q ss_pred CCCHHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 69 PFTEEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
..|+.|-+.|.-+.. |-...+||+.| +-+...++++...++++
T Consensus 155 ~Lt~rE~~Vl~l~~~--G~s~~eIA~~L-~iS~~TVk~~~~~i~~K 197 (216)
T PRK10100 155 LLTHREKEILNKLRI--GASNNEIARSL-FISENTVKTHLYNLFKK 197 (216)
T ss_pred CCCHHHHHHHHHHHc--CCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 478766666655554 88889999999 99999999988887665
No 146
>TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are apparently found only in the Planctomycetaceae family including the genuses Gemmata and Pirellula (in which seven sequences are found).
Probab=20.60 E-value=2e+02 Score=24.35 Aligned_cols=29 Identities=24% Similarity=0.549 Sum_probs=23.7
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.|-...+||..| |-+...|+.+....+++
T Consensus 155 ~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~ 183 (189)
T TIGR02984 155 EGLSFAEVAERM-DRSEGAVSMLWVRGLAR 183 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 466789999999 99999999988766554
No 147
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=20.44 E-value=2.3e+02 Score=24.33 Aligned_cols=29 Identities=10% Similarity=0.075 Sum_probs=22.8
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
.|-...+||+.| |-+...|+.+....+++
T Consensus 143 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 171 (186)
T PRK05602 143 QGLSNIEAAAVM-DISVDALESLLARGRRA 171 (186)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 466789999999 99999998887655544
No 148
>PRK01905 DNA-binding protein Fis; Provisional
Probab=20.36 E-value=2.4e+02 Score=21.44 Aligned_cols=35 Identities=20% Similarity=0.177 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHhhcCCchHHHhhhCCCCCHHHHHHH
Q 021486 72 EEEEKLVIQLHGILGNRWAAIASQLPGRTDNEIKNL 107 (312)
Q Consensus 72 ~EED~~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnR 107 (312)
.-|...|.+++..+|.++...|+.+ |=+...++.+
T Consensus 36 ~~E~~~i~~aL~~~~gn~s~aAr~L-GIsrstL~rk 70 (77)
T PRK01905 36 CVEKPLLEVVMEQAGGNQSLAAEYL-GINRNTLRKK 70 (77)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHH
Confidence 3467788899999999999999998 6565554443
No 149
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=20.29 E-value=2.4e+02 Score=23.39 Aligned_cols=39 Identities=21% Similarity=0.130 Sum_probs=28.3
Q ss_pred HHHHHHhhcCCchHHHhhhCCCCCHHHHHHHHHHHHHHHH
Q 021486 77 LVIQLHGILGNRWAAIASQLPGRTDNEIKNLWNTHLKKRM 116 (312)
Q Consensus 77 ~Ll~lv~~~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkkl 116 (312)
.++.+.-..|-.-.+||..| |-+...|+.+....+++-.
T Consensus 117 ~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~Lr 155 (162)
T TIGR02983 117 AVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALARLR 155 (162)
T ss_pred HHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHHHH
Confidence 33334344566789999999 9999999999887766543
No 150
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=20.25 E-value=1.1e+02 Score=27.69 Aligned_cols=28 Identities=14% Similarity=0.118 Sum_probs=23.4
Q ss_pred CCchHHHhhhCCCCCHHHHHHHHHHHHHH
Q 021486 86 GNRWAAIASQLPGRTDNEIKNLWNTHLKK 114 (312)
Q Consensus 86 G~kWs~IA~~LpgRT~~qcKnRW~~lLkk 114 (312)
|-...+||..| |-+...|++++...+++
T Consensus 165 g~s~~EIAe~l-gis~~tVk~~l~Rar~k 192 (231)
T PRK11922 165 ELSVEETAQAL-GLPEETVKTRLHRARRL 192 (231)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 56689999999 99999999998766554
No 151
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=20.13 E-value=65 Score=34.27 Aligned_cols=49 Identities=20% Similarity=0.428 Sum_probs=43.4
Q ss_pred CCCCCcCCCCHHHHHHHHHHHHHhCCCCcchhchhhcCccccccccccccc
Q 021486 9 KKGLKKGPWAPEEDEILVEYIKRNGHGSWRSLPKLAGLLRCGKSCRLRWTN 59 (312)
Q Consensus 9 k~~lkKG~WT~EED~~L~~lV~kyG~~~W~~IAk~lg~~Rs~kQCr~Rw~n 59 (312)
.+....++|+.+|-++........|. +...|+..+++ |..+|++..|..
T Consensus 404 sk~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p~-R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 404 SKKLETDKWDASETELFYKALSERGS-DFSLISNLFPL-RDRKQIKAKFKK 452 (584)
T ss_pred cCccccCcccchhhHHhhhHHhhhcc-ccccccccccc-ccHHHHHHHHhh
Confidence 35667889999999999999999995 99999999997 999999988754
No 152
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=20.05 E-value=2.6e+02 Score=23.96 Aligned_cols=30 Identities=30% Similarity=0.282 Sum_probs=24.3
Q ss_pred cCCchHHHhhhCCCCCHHHHHHHHHHHHHHH
Q 021486 85 LGNRWAAIASQLPGRTDNEIKNLWNTHLKKR 115 (312)
Q Consensus 85 ~G~kWs~IA~~LpgRT~~qcKnRW~~lLkkk 115 (312)
.|-.-.+||..| |-+...|+.+....+++-
T Consensus 148 ~~~s~~eIA~~l-gis~~tV~~~l~ra~~~L 177 (182)
T PRK12537 148 DGCSHAEIAQRL-GAPLGTVKAWIKRSLKAL 177 (182)
T ss_pred cCCCHHHHHHHH-CCChhhHHHHHHHHHHHH
Confidence 456689999999 999999999988776553
Done!