Query 040653
Match_columns 228
No_of_seqs 197 out of 1287
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 10:29:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040653.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040653hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0048 Transcription factor, 99.9 2.2E-27 4.7E-32 208.9 12.0 72 1-76 44-115 (238)
2 PLN03212 Transcription repress 99.9 1.1E-24 2.5E-29 192.5 8.8 78 1-82 60-137 (249)
3 PLN03091 hypothetical protein; 99.9 2.7E-23 5.8E-28 195.8 8.5 76 1-80 49-124 (459)
4 PF00249 Myb_DNA-binding: Myb- 99.4 1.2E-13 2.6E-18 93.3 3.1 45 19-67 1-47 (48)
5 PF13921 Myb_DNA-bind_6: Myb-l 99.3 9.3E-13 2E-17 92.1 3.6 53 22-78 1-53 (60)
6 PLN03212 Transcription repress 99.3 9.6E-13 2.1E-17 117.0 3.9 65 14-82 20-86 (249)
7 smart00717 SANT SANT SWI3, AD 99.3 5.5E-12 1.2E-16 82.3 4.0 47 19-69 1-48 (49)
8 KOG0048 Transcription factor, 99.2 3.4E-12 7.4E-17 112.5 3.2 63 14-80 4-68 (238)
9 PLN03091 hypothetical protein; 99.1 2.6E-11 5.6E-16 115.1 3.3 66 12-81 7-74 (459)
10 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 6.7E-11 1.4E-15 76.1 4.0 43 21-67 1-44 (45)
11 COG5147 REB1 Myb superfamily p 99.1 6E-11 1.3E-15 115.0 3.8 69 1-73 54-122 (512)
12 KOG0049 Transcription factor, 99.0 1.5E-10 3.2E-15 114.1 4.5 54 3-56 396-450 (939)
13 KOG0049 Transcription factor, 99.0 1.5E-10 3.3E-15 113.9 4.5 71 4-78 345-416 (939)
14 KOG0050 mRNA splicing protein 98.8 2.1E-09 4.5E-14 103.7 1.9 70 1-75 41-110 (617)
15 PF13921 Myb_DNA-bind_6: Myb-l 98.3 6.4E-07 1.4E-11 62.4 3.1 30 1-30 31-60 (60)
16 TIGR01557 myb_SHAQKYF myb-like 97.6 6.7E-05 1.5E-09 53.1 3.9 45 19-64 3-53 (57)
17 KOG0051 RNA polymerase I termi 97.6 5.6E-05 1.2E-09 75.0 4.7 68 2-73 417-512 (607)
18 KOG0051 RNA polymerase I termi 97.5 6.2E-05 1.4E-09 74.6 3.4 49 18-71 383-431 (607)
19 COG5147 REB1 Myb superfamily p 97.5 4.5E-05 9.8E-10 74.6 2.2 62 16-81 17-79 (512)
20 KOG0050 mRNA splicing protein 97.3 8.7E-05 1.9E-09 72.3 1.9 60 17-80 5-65 (617)
21 KOG0457 Histone acetyltransfer 97.3 0.00016 3.4E-09 69.2 3.6 47 14-61 67-114 (438)
22 PF08914 Myb_DNA-bind_2: Rap1 96.9 0.00077 1.7E-08 48.9 2.6 50 19-72 2-61 (65)
23 PF13837 Myb_DNA-bind_4: Myb/S 96.4 0.0027 5.8E-08 46.9 2.6 50 19-72 1-68 (90)
24 KOG1279 Chromatin remodeling f 96.2 0.0046 9.9E-08 60.7 4.1 42 18-60 252-293 (506)
25 TIGR02894 DNA_bind_RsfA transc 96.1 0.0051 1.1E-07 52.1 3.0 53 18-75 3-62 (161)
26 COG5259 RSC8 RSC chromatin rem 96.0 0.0062 1.4E-07 59.1 3.6 43 18-61 278-320 (531)
27 COG5114 Histone acetyltransfer 95.8 0.011 2.5E-07 55.2 4.4 45 17-62 61-106 (432)
28 PF13873 Myb_DNA-bind_5: Myb/S 95.6 0.011 2.4E-07 43.0 3.0 52 19-71 2-75 (78)
29 PRK13923 putative spore coat p 93.8 0.045 9.8E-07 46.8 2.5 51 17-72 3-60 (170)
30 PF09111 SLIDE: SLIDE; InterP 91.9 0.13 2.9E-06 41.4 2.6 50 16-69 46-111 (118)
31 PLN03142 Probable chromatin-re 88.1 0.9 1.9E-05 48.5 5.7 52 15-70 922-986 (1033)
32 PF12776 Myb_DNA-bind_3: Myb/S 85.9 0.98 2.1E-05 33.5 3.4 40 21-61 1-58 (96)
33 KOG1194 Predicted DNA-binding 85.7 0.84 1.8E-05 44.6 3.6 51 19-70 187-237 (534)
34 KOG2656 DNA methyltransferase 85.6 0.79 1.7E-05 44.0 3.3 62 7-76 122-189 (445)
35 PF08281 Sigma70_r4_2: Sigma-7 83.3 1.4 3E-05 29.4 2.9 35 24-60 12-46 (54)
36 KOG4167 Predicted DNA-binding 78.9 6 0.00013 41.0 6.8 62 8-70 605-669 (907)
37 COG5118 BDP1 Transcription ini 77.3 2.4 5.3E-05 40.8 3.4 42 20-62 366-407 (507)
38 KOG4282 Transcription factor G 74.5 5 0.00011 37.1 4.6 49 20-72 55-117 (345)
39 PF07750 GcrA: GcrA cell cycle 72.0 16 0.00035 30.8 6.7 38 21-60 2-39 (162)
40 PF13325 MCRS_N: N-terminal re 66.6 10 0.00022 33.4 4.5 50 19-72 73-130 (199)
41 PF11626 Rap1_C: TRF2-interact 60.2 9 0.00019 28.7 2.7 16 15-30 43-58 (87)
42 PLN03162 golden-2 like transcr 59.7 37 0.0008 33.0 7.2 52 20-72 238-294 (526)
43 KOG4329 DNA-binding protein [G 59.1 41 0.00088 32.5 7.4 52 21-73 279-331 (445)
44 TIGR02985 Sig70_bacteroi1 RNA 58.2 9.1 0.0002 29.9 2.6 33 26-60 117-149 (161)
45 cd08319 Death_RAIDD Death doma 58.0 9.8 0.00021 28.7 2.6 29 27-56 2-30 (83)
46 PF11035 SnAPC_2_like: Small n 53.7 27 0.00058 33.0 5.1 41 20-61 22-66 (344)
47 PRK09643 RNA polymerase sigma 52.6 18 0.00039 30.2 3.6 45 27-73 139-183 (192)
48 PF04545 Sigma70_r4: Sigma-70, 51.7 15 0.00034 24.0 2.5 35 24-60 6-40 (50)
49 PRK09642 RNA polymerase sigma 51.3 16 0.00034 29.1 2.9 44 28-73 112-155 (160)
50 PRK09652 RNA polymerase sigma 48.3 17 0.00037 29.0 2.7 43 27-71 133-175 (182)
51 PRK09641 RNA polymerase sigma 47.7 16 0.00035 29.6 2.5 34 27-62 141-174 (187)
52 PRK11924 RNA polymerase sigma 46.5 19 0.00041 28.7 2.7 43 28-72 131-173 (179)
53 PRK12532 RNA polymerase sigma 46.0 22 0.00048 29.4 3.1 45 29-75 143-187 (195)
54 PRK09645 RNA polymerase sigma 45.7 23 0.0005 28.6 3.1 43 29-73 125-167 (173)
55 PRK09047 RNA polymerase factor 45.3 26 0.00056 27.7 3.3 42 30-73 114-155 (161)
56 PRK12516 RNA polymerase sigma 44.0 21 0.00046 29.8 2.7 47 26-74 120-166 (187)
57 PF13325 MCRS_N: N-terminal re 43.8 29 0.00063 30.5 3.6 44 21-69 1-47 (199)
58 PRK12530 RNA polymerase sigma 42.8 23 0.00049 29.5 2.7 43 28-72 140-182 (189)
59 TIGR02939 RpoE_Sigma70 RNA pol 42.1 18 0.00038 29.5 1.9 34 36-71 152-185 (190)
60 cd08803 Death_ank3 Death domai 41.5 30 0.00065 26.1 2.9 29 27-56 4-32 (84)
61 PRK12512 RNA polymerase sigma 40.6 28 0.00061 28.4 2.9 44 27-72 136-179 (184)
62 PRK12531 RNA polymerase sigma 39.9 30 0.00064 28.8 3.0 40 30-71 149-188 (194)
63 PRK11923 algU RNA polymerase s 39.9 25 0.00054 28.9 2.5 42 30-73 146-187 (193)
64 TIGR02937 sigma70-ECF RNA poly 39.7 23 0.0005 26.6 2.2 34 25-60 113-146 (158)
65 PRK05602 RNA polymerase sigma 39.4 31 0.00066 28.3 3.0 45 28-74 134-178 (186)
66 TIGR02948 SigW_bacill RNA poly 39.2 24 0.00052 28.6 2.3 25 36-62 150-174 (187)
67 TIGR02943 Sig70_famx1 RNA poly 38.2 33 0.00071 28.5 3.0 43 29-73 138-180 (188)
68 TIGR02952 Sig70_famx2 RNA poly 38.1 27 0.00058 27.8 2.4 28 31-60 131-158 (170)
69 PRK12527 RNA polymerase sigma 37.8 39 0.00085 26.9 3.3 42 29-72 112-153 (159)
70 PRK12545 RNA polymerase sigma 37.3 31 0.00068 29.0 2.8 41 33-75 150-190 (201)
71 PRK12547 RNA polymerase sigma 37.2 35 0.00077 27.4 3.0 41 28-70 118-158 (164)
72 PRK12514 RNA polymerase sigma 35.7 34 0.00075 27.7 2.7 37 31-69 138-174 (179)
73 PHA02972 hypothetical protein; 35.7 32 0.00069 26.9 2.3 18 195-212 50-67 (109)
74 PRK11179 DNA-binding transcrip 35.6 34 0.00073 27.8 2.6 42 25-71 9-51 (153)
75 cd08317 Death_ank Death domain 35.4 29 0.00063 25.6 2.0 29 27-56 4-32 (84)
76 PRK12536 RNA polymerase sigma 35.0 38 0.00082 27.7 2.8 33 28-62 135-167 (181)
77 KOG2535 RNA polymerase II elon 34.5 20 0.00044 34.6 1.3 12 212-223 109-120 (554)
78 PF10440 WIYLD: Ubiquitin-bind 34.3 30 0.00065 25.2 1.8 18 28-45 30-47 (65)
79 TIGR02960 SigX5 RNA polymerase 33.9 30 0.00064 31.0 2.2 39 32-72 152-190 (324)
80 KOG2009 Transcription initiati 33.4 37 0.0008 34.4 2.9 45 16-61 406-450 (584)
81 TIGR02954 Sig70_famx3 RNA poly 33.2 37 0.0008 27.3 2.5 30 30-61 127-156 (169)
82 PRK12523 RNA polymerase sigma 33.1 44 0.00095 27.1 2.9 33 27-61 124-156 (172)
83 PRK09646 RNA polymerase sigma 33.0 43 0.00093 27.8 2.9 31 30-62 150-180 (194)
84 PRK12524 RNA polymerase sigma 32.8 48 0.001 27.6 3.1 42 29-72 143-184 (196)
85 cd08804 Death_ank2 Death domai 32.5 43 0.00093 25.0 2.5 29 27-56 4-32 (84)
86 KOG4468 Polycomb-group transcr 32.2 45 0.00097 34.2 3.2 26 19-44 88-113 (782)
87 PRK12515 RNA polymerase sigma 32.2 46 0.00099 27.4 2.9 41 29-71 138-178 (189)
88 PRK09637 RNA polymerase sigma 32.1 43 0.00094 27.7 2.8 44 26-71 110-153 (181)
89 PRK09648 RNA polymerase sigma 30.8 46 0.001 27.3 2.7 32 28-61 145-176 (189)
90 TIGR02999 Sig-70_X6 RNA polyme 30.6 46 0.001 26.9 2.7 30 31-62 143-172 (183)
91 cd08318 Death_NMPP84 Death dom 30.6 48 0.001 24.8 2.5 26 30-56 10-35 (86)
92 PRK12542 RNA polymerase sigma 30.1 49 0.0011 27.1 2.7 42 29-72 129-170 (185)
93 PF13404 HTH_AsnC-type: AsnC-t 29.2 48 0.001 21.6 2.0 34 25-60 3-37 (42)
94 cd08779 Death_PIDD Death Domai 28.4 38 0.00082 25.4 1.6 21 28-48 3-23 (86)
95 PRK13919 putative RNA polymera 28.1 54 0.0012 26.7 2.7 24 36-61 149-172 (186)
96 PF02954 HTH_8: Bacterial regu 27.7 54 0.0012 21.0 2.1 23 26-48 6-28 (42)
97 PRK12520 RNA polymerase sigma 27.5 53 0.0012 27.0 2.5 42 33-76 142-183 (191)
98 PRK09638 RNA polymerase sigma 27.5 23 0.0005 28.6 0.3 33 36-70 140-172 (176)
99 smart00005 DEATH DEATH domain, 27.3 61 0.0013 23.3 2.5 30 26-56 4-34 (88)
100 cd08805 Death_ank1 Death domai 27.3 47 0.001 25.1 1.9 28 27-55 4-31 (84)
101 PRK09647 RNA polymerase sigma 27.0 66 0.0014 27.3 3.1 37 36-74 152-188 (203)
102 PRK12546 RNA polymerase sigma 26.9 53 0.0011 27.5 2.4 45 27-73 118-162 (188)
103 PRK11169 leucine-responsive tr 26.7 49 0.0011 27.3 2.2 44 24-72 13-57 (164)
104 PRK08295 RNA polymerase factor 26.5 65 0.0014 26.7 2.9 34 37-72 169-202 (208)
105 PRK12538 RNA polymerase sigma 26.4 48 0.001 28.9 2.2 40 32-73 181-220 (233)
106 cd08777 Death_RIP1 Death Domai 26.3 60 0.0013 24.4 2.4 28 28-56 3-30 (86)
107 TIGR02983 SigE-fam_strep RNA p 25.9 59 0.0013 25.8 2.4 35 25-61 113-147 (162)
108 cd08311 Death_p75NR Death doma 25.8 55 0.0012 24.2 2.1 33 24-59 2-34 (77)
109 PRK12529 RNA polymerase sigma 25.8 87 0.0019 25.6 3.5 31 28-60 133-163 (178)
110 PRK12540 RNA polymerase sigma 25.6 67 0.0015 26.6 2.8 44 30-75 119-162 (182)
111 PRK06759 RNA polymerase factor 25.5 56 0.0012 25.6 2.2 29 30-60 114-142 (154)
112 PRK11922 RNA polymerase sigma 25.1 36 0.00077 29.4 1.1 35 37-73 164-198 (231)
113 cd06171 Sigma70_r4 Sigma70, re 24.8 84 0.0018 19.2 2.6 33 26-60 14-46 (55)
114 smart00595 MADF subfamily of S 24.5 34 0.00073 24.8 0.7 23 40-67 29-51 (89)
115 PRK12513 RNA polymerase sigma 24.0 31 0.00067 28.5 0.5 35 37-73 154-188 (194)
116 TIGR03001 Sig-70_gmx1 RNA poly 23.8 66 0.0014 28.4 2.6 42 31-74 170-211 (244)
117 PRK10137 alpha-glucosidase; Pr 23.4 55 0.0012 34.4 2.2 41 6-46 286-326 (786)
118 PRK12519 RNA polymerase sigma 23.1 63 0.0014 26.5 2.2 34 36-71 155-188 (194)
119 TIGR02984 Sig-70_plancto1 RNA 23.1 74 0.0016 25.7 2.6 29 30-60 148-176 (189)
120 PRK09639 RNA polymerase sigma 22.8 82 0.0018 25.0 2.7 42 28-72 118-159 (166)
121 PF09420 Nop16: Ribosome bioge 22.5 1.6E+02 0.0034 24.5 4.4 43 17-60 112-158 (164)
122 PRK12526 RNA polymerase sigma 22.4 87 0.0019 26.4 3.0 37 33-71 164-200 (206)
123 TIGR02950 SigM_subfam RNA poly 22.4 26 0.00056 27.5 -0.3 22 38-61 121-142 (154)
124 PF07638 Sigma70_ECF: ECF sigm 22.2 77 0.0017 26.4 2.6 34 25-60 138-171 (185)
125 PRK09644 RNA polymerase sigma 22.2 87 0.0019 25.0 2.8 38 33-72 119-156 (165)
126 PF01388 ARID: ARID/BRIGHT DNA 22.0 99 0.0021 22.7 2.8 32 29-61 40-84 (92)
127 PRK06811 RNA polymerase factor 21.8 75 0.0016 26.2 2.4 33 27-61 136-168 (189)
128 smart00501 BRIGHT BRIGHT, ARID 21.8 95 0.0021 23.1 2.7 34 29-63 36-82 (93)
129 COG4896 Uncharacterized protei 21.8 24 0.00052 25.8 -0.5 11 218-228 33-43 (68)
130 PRK12535 RNA polymerase sigma 21.7 94 0.002 26.1 3.0 38 36-75 147-184 (196)
131 PRK09649 RNA polymerase sigma 21.6 72 0.0016 26.3 2.2 30 29-60 137-166 (185)
132 PF13384 HTH_23: Homeodomain-l 21.4 66 0.0014 20.7 1.6 33 24-59 4-36 (50)
133 PRK12544 RNA polymerase sigma 21.0 89 0.0019 26.5 2.7 38 34-73 160-197 (206)
134 PF14867 Lantibiotic_a: Lantib 20.6 33 0.0007 21.7 -0.0 20 202-221 4-23 (32)
135 PRK07037 extracytoplasmic-func 20.4 1.1E+02 0.0024 24.1 3.1 23 36-60 123-145 (163)
136 PRK12543 RNA polymerase sigma 20.3 98 0.0021 25.2 2.8 42 30-73 125-166 (179)
137 PRK12534 RNA polymerase sigma 20.0 98 0.0021 25.2 2.7 28 32-61 147-174 (187)
No 1
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.95 E-value=2.2e-27 Score=208.91 Aligned_cols=72 Identities=68% Similarity=1.122 Sum_probs=70.5
Q ss_pred CchhhHHHhhhccCCCCCCCCCCHHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhhhcC
Q 040653 1 CGKSCRLRWLNYLRPDIKRGNISHDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQDHH 76 (228)
Q Consensus 1 ~gKQCr~RW~n~L~P~ikk~~WT~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~~~ 76 (228)
||||||+||+|||+|+|+||.||+|||++|++||..+||+|++||++|||||||+| ||+ |+++++|++....
T Consensus 44 ~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrWs~IA~~LPGRTDNeI-KN~---Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 44 CGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRWSLIAGRLPGRTDNEV-KNH---WNTHLKKKLLKMG 115 (238)
T ss_pred cchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHHHHHHhhCCCcCHHHH-HHH---HHHHHHHHHHHcC
Confidence 89999999999999999999999999999999999999999999999999999999 999 9999999998776
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.91 E-value=1.1e-24 Score=192.47 Aligned_cols=78 Identities=62% Similarity=1.064 Sum_probs=73.3
Q ss_pred CchhhHHHhhhccCCCCCCCCCCHHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhhhcCCCCC
Q 040653 1 CGKSCRLRWLNYLRPDIKRGNISHDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQDHHQSPS 80 (228)
Q Consensus 1 ~gKQCr~RW~n~L~P~ikk~~WT~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~~~~~~~ 80 (228)
||||||+||.|||+|+|++++||+|||++|+++|.+||++|+.||++|||||+++| ||| |+.++++++...+..+.
T Consensus 60 T~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~GnKWs~IAk~LpGRTDnqI-KNR---Wns~LrK~l~r~~i~p~ 135 (249)
T PLN03212 60 CGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEI-KNY---WNTHLRKKLLRQGIDPQ 135 (249)
T ss_pred CcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhccccHHHHHhhcCCCCHHHH-HHH---HHHHHhHHHHhcCCCCC
Confidence 68999999999999999999999999999999999999999999999999999999 999 99999999888776655
Q ss_pred CC
Q 040653 81 SS 82 (228)
Q Consensus 81 ~s 82 (228)
..
T Consensus 136 ~~ 137 (249)
T PLN03212 136 TH 137 (249)
T ss_pred CC
Confidence 43
No 3
>PLN03091 hypothetical protein; Provisional
Probab=99.89 E-value=2.7e-23 Score=195.75 Aligned_cols=76 Identities=58% Similarity=1.007 Sum_probs=71.6
Q ss_pred CchhhHHHhhhccCCCCCCCCCCHHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhhhcCCCCC
Q 040653 1 CGKSCRLRWLNYLRPDIKRGNISHDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQDHHQSPS 80 (228)
Q Consensus 1 ~gKQCr~RW~n~L~P~ikk~~WT~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~~~~~~~ 80 (228)
||||||+||.+||+|+|++++||+|||++||++|.+||++|++||++|||||+++| ||| |+.+++++++..+..+.
T Consensus 49 T~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnKWskIAk~LPGRTDnqI-KNR---WnslLKKklr~~~I~p~ 124 (459)
T PLN03091 49 CGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEI-KNL---WNSCLKKKLRQRGIDPN 124 (459)
T ss_pred CcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcchHHHHHhcCCCCHHHH-HHH---HHHHHHHHHHHcCCCCC
Confidence 68999999999999999999999999999999999999999999999999999999 999 99999998887665543
No 4
>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=99.41 E-value=1.2e-13 Score=93.29 Aligned_cols=45 Identities=36% Similarity=0.651 Sum_probs=40.3
Q ss_pred CCCCCHHHHHHHHHHHHHhcCc-hHHhhccCC-CCChhhhhhhhccccchh
Q 040653 19 RGNISHDEDELIIRLLNLLANR-WSLIAGRLP-GRTDNENMKSRIIGAPTL 67 (228)
Q Consensus 19 k~~WT~EED~lLl~lv~~~G~k-Ws~IA~~Lp-GRTd~q~~KnR~~kw~~~ 67 (228)
|++||+|||++|++++.+||.+ |..||..|| |||..|| |+| |+.+
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc-~~~---~~~~ 47 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQC-RSR---YQNL 47 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHH-HHH---HHHH
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHH-HHH---HHhh
Confidence 6899999999999999999987 999999999 9999999 999 6654
No 5
>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=99.33 E-value=9.3e-13 Score=92.14 Aligned_cols=53 Identities=26% Similarity=0.399 Sum_probs=43.3
Q ss_pred CCHHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhhhcCCC
Q 040653 22 ISHDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQDHHQS 78 (228)
Q Consensus 22 WT~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~~~~~ 78 (228)
||+|||++|++++.+||++|..||..|+.||..+| ++| |+.+|++++...+++
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~-~~r---~~~~l~~~~~~~~wt 53 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQC-RNR---WRNHLRPKISRGPWT 53 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHH-HHH---HHHTTSTTSTSSSSS
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHH-HHH---HHHHCcccccCCCcC
Confidence 99999999999999999999999999966999999 999 888776655544443
No 6
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.32 E-value=9.6e-13 Score=116.95 Aligned_cols=65 Identities=17% Similarity=0.287 Sum_probs=59.7
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhc-CchHHhhccC-CCCChhhhhhhhccccchhhhHHhhhcCCCCCCC
Q 040653 14 RPDIKRGNISHDEDELIIRLLNLLA-NRWSLIAGRL-PGRTDNENMKSRIIGAPTLENKKLQDHHQSPSSS 82 (228)
Q Consensus 14 ~P~ikk~~WT~EED~lLl~lv~~~G-~kWs~IA~~L-pGRTd~q~~KnR~~kw~~~l~kk~~~~~~~~~~s 82 (228)
++.+++++||+|||++|+++|++|| ++|..||+.+ +|||+.|| |.| |..+|++.+++.+++.+..
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQC-ReR---W~N~L~P~I~kgpWT~EED 86 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSC-RLR---WMNYLRPSVKRGGITSDEE 86 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchH-HHH---HHHhhchhcccCCCChHHH
Confidence 5789999999999999999999999 6899999998 69999999 999 9999999999988876643
No 7
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.26 E-value=5.5e-12 Score=82.30 Aligned_cols=47 Identities=38% Similarity=0.672 Sum_probs=43.2
Q ss_pred CCCCCHHHHHHHHHHHHHhc-CchHHhhccCCCCChhhhhhhhccccchhhh
Q 040653 19 RGNISHDEDELIIRLLNLLA-NRWSLIAGRLPGRTDNENMKSRIIGAPTLEN 69 (228)
Q Consensus 19 k~~WT~EED~lLl~lv~~~G-~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~ 69 (228)
+++||++||.+|++++.+|| .+|..||..||+||..+| ++| |+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~-~~~---~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQC-RER---WNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHH-HHH---HHHHcC
Confidence 46899999999999999999 999999999999999999 999 766553
No 8
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.24 E-value=3.4e-12 Score=112.54 Aligned_cols=63 Identities=16% Similarity=0.201 Sum_probs=57.3
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhc-CchHHhhccCC-CCChhhhhhhhccccchhhhHHhhhcCCCCC
Q 040653 14 RPDIKRGNISHDEDELIIRLLNLLA-NRWSLIAGRLP-GRTDNENMKSRIIGAPTLENKKLQDHHQSPS 80 (228)
Q Consensus 14 ~P~ikk~~WT~EED~lLl~lv~~~G-~kWs~IA~~Lp-GRTd~q~~KnR~~kw~~~l~kk~~~~~~~~~ 80 (228)
+|.+.|||||+|||++|+++|.+|| ++|..||+.++ ||++.+| |-| |..+|++.+++..++.+
T Consensus 4 k~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSC-RlR---W~NyLrP~ikrg~fT~e 68 (238)
T KOG0048|consen 4 NPELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSC-RLR---WTNYLRPDLKRGNFSDE 68 (238)
T ss_pred CccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHH-HHH---hhcccCCCccCCCCCHH
Confidence 3556689999999999999999999 56999999999 9999999 999 99999999998887644
No 9
>PLN03091 hypothetical protein; Provisional
Probab=99.13 E-value=2.6e-11 Score=115.14 Aligned_cols=66 Identities=18% Similarity=0.263 Sum_probs=58.4
Q ss_pred ccCCCCCCCCCCHHHHHHHHHHHHHhc-CchHHhhccC-CCCChhhhhhhhccccchhhhHHhhhcCCCCCC
Q 040653 12 YLRPDIKRGNISHDEDELIIRLLNLLA-NRWSLIAGRL-PGRTDNENMKSRIIGAPTLENKKLQDHHQSPSS 81 (228)
Q Consensus 12 ~L~P~ikk~~WT~EED~lLl~lv~~~G-~kWs~IA~~L-pGRTd~q~~KnR~~kw~~~l~kk~~~~~~~~~~ 81 (228)
.-++.++|++||+|||++|+++|.+|| ++|..||+.+ +|||+.|| |.| |..+|++.+++.+++.+.
T Consensus 7 c~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQC-RER---W~NyLdP~IkKgpWT~EE 74 (459)
T PLN03091 7 CYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSC-RLR---WINYLRPDLKRGTFSQQE 74 (459)
T ss_pred CcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchH-hHH---HHhccCCcccCCCCCHHH
Confidence 345789999999999999999999999 5799999988 59999999 999 999999988887776443
No 10
>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=99.12 E-value=6.7e-11 Score=76.12 Aligned_cols=43 Identities=35% Similarity=0.611 Sum_probs=40.3
Q ss_pred CCCHHHHHHHHHHHHHhc-CchHHhhccCCCCChhhhhhhhccccchh
Q 040653 21 NISHDEDELIIRLLNLLA-NRWSLIAGRLPGRTDNENMKSRIIGAPTL 67 (228)
Q Consensus 21 ~WT~EED~lLl~lv~~~G-~kWs~IA~~LpGRTd~q~~KnR~~kw~~~ 67 (228)
+||++||++|++++.++| .+|..||..+++||..+| ++| |+.+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~-~~~---~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQC-RER---WRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHH-HHH---HHHh
Confidence 699999999999999999 999999999999999999 999 6543
No 11
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.08 E-value=6e-11 Score=114.96 Aligned_cols=69 Identities=33% Similarity=0.433 Sum_probs=64.2
Q ss_pred CchhhHHHhhhccCCCCCCCCCCHHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhh
Q 040653 1 CGKSCRLRWLNYLRPDIKRGNISHDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQ 73 (228)
Q Consensus 1 ~gKQCr~RW~n~L~P~ikk~~WT~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~ 73 (228)
|||||+.||+++|+|.+++.+|+.|||+.|+.+..++|++|+.||..+||||..+| .+| |...+.....
T Consensus 54 ~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~wstia~~~d~rt~~~~-~er---y~~~~~~~~s 122 (512)
T COG5147 54 TGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWSTIADYKDRRTAQQC-VER---YVNTLEDLSS 122 (512)
T ss_pred ccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCchhhhhccccCccchHHH-HHH---HHHHhhhhhc
Confidence 68999999999999999999999999999999999999999999999999999999 888 8777665544
No 12
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.04 E-value=1.5e-10 Score=114.07 Aligned_cols=54 Identities=26% Similarity=0.403 Sum_probs=52.4
Q ss_pred hhhHHHhhhccCCCCCCCCCCHHHHHHHHHHHHHhc-CchHHhhccCCCCChhhh
Q 040653 3 KSCRLRWLNYLRPDIKRGNISHDEDELIIRLLNLLA-NRWSLIAGRLPGRTDNEN 56 (228)
Q Consensus 3 KQCr~RW~n~L~P~ikk~~WT~EED~lLl~lv~~~G-~kWs~IA~~LpGRTd~q~ 56 (228)
-|||+||+|.|+-..|++.||-.||+.||.+|++|| ++|.+||.+||+||..|.
T Consensus 396 sQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~YG~g~WakcA~~Lp~~t~~q~ 450 (939)
T KOG0049|consen 396 SQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKVYGKGNWAKCAMLLPKKTSRQL 450 (939)
T ss_pred HHHHHHHHHHHHHhhccCceeecchHHHHHHHHHHccchHHHHHHHccccchhHH
Confidence 599999999999999999999999999999999999 899999999999999776
No 13
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.04 E-value=1.5e-10 Score=113.92 Aligned_cols=71 Identities=20% Similarity=0.413 Sum_probs=62.9
Q ss_pred hhHHHhhhccCCCCCCCCCCHHHHHHHHHHHHHhcCc-hHHhhccCCCCChhhhhhhhccccchhhhHHhhhcCCC
Q 040653 4 SCRLRWLNYLRPDIKRGNISHDEDELIIRLLNLLANR-WSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQDHHQS 78 (228)
Q Consensus 4 QCr~RW~n~L~P~ikk~~WT~EED~lLl~lv~~~G~k-Ws~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~~~~~ 78 (228)
|-.-||...|+|+|++|+||++||.+|+.+|.+||.+ |.+|-..+|||++.|| |.| |...|....+...|+
T Consensus 345 qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQc-R~R---Y~nvL~~s~K~~rW~ 416 (939)
T KOG0049|consen 345 QLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQC-RER---YTNVLNRSAKVERWT 416 (939)
T ss_pred hhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHH-HHH---HHHHHHHhhccCcee
Confidence 5667999999999999999999999999999999965 9999999999999999 999 667776666555543
No 14
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.78 E-value=2.1e-09 Score=103.73 Aligned_cols=70 Identities=31% Similarity=0.591 Sum_probs=62.8
Q ss_pred CchhhHHHhhhccCCCCCCCCCCHHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhhhc
Q 040653 1 CGKSCRLRWLNYLRPDIKRGNISHDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQDH 75 (228)
Q Consensus 1 ~gKQCr~RW~n~L~P~ikk~~WT~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~~ 75 (228)
+.|||+.||..+|+|.|++.-|+.|||+.||.++..+...|..||..| |||++|| -.| ++.++-......
T Consensus 41 t~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrtIa~i~-gr~~~qc-~eR---y~~ll~~~~s~~ 110 (617)
T KOG0050|consen 41 TARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRTIADIM-GRTSQQC-LER---YNNLLDVYVSYH 110 (617)
T ss_pred chhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccchHHHHh-hhhHHHH-HHH---HHHHHHHHHhhh
Confidence 479999999999999999999999999999999999999999999998 9999999 777 777766554433
No 15
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=98.27 E-value=6.4e-07 Score=62.43 Aligned_cols=30 Identities=47% Similarity=0.863 Sum_probs=27.8
Q ss_pred CchhhHHHhhhccCCCCCCCCCCHHHHHHH
Q 040653 1 CGKSCRLRWLNYLRPDIKRGNISHDEDELI 30 (228)
Q Consensus 1 ~gKQCr~RW~n~L~P~ikk~~WT~EED~lL 30 (228)
++.||+.||.++|+|.+++++||++||++|
T Consensus 31 t~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 31 TPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp -HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 468999999999999999999999999987
No 16
>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=97.63 E-value=6.7e-05 Score=53.10 Aligned_cols=45 Identities=16% Similarity=0.203 Sum_probs=38.6
Q ss_pred CCCCCHHHHHHHHHHHHHhcC-ch---HHhhccCC-CC-Chhhhhhhhcccc
Q 040653 19 RGNISHDEDELIIRLLNLLAN-RW---SLIAGRLP-GR-TDNENMKSRIIGA 64 (228)
Q Consensus 19 k~~WT~EED~lLl~lv~~~G~-kW---s~IA~~Lp-GR-Td~q~~KnR~~kw 64 (228)
+-.||+||..+.+++++.+|. .| ..|+..+. .| |..|| +.|++||
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV-~SH~QKy 53 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQV-ASHLQKY 53 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHH-HHHHHHH
Confidence 568999999999999999995 99 99999874 34 99999 9995544
No 17
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=97.63 E-value=5.6e-05 Score=74.96 Aligned_cols=68 Identities=24% Similarity=0.408 Sum_probs=58.2
Q ss_pred chhhHHHhhhccCCC--CCCCCCCHHHHHHHHHHHH-------Hh-------c------------CchHHhhccCCCCCh
Q 040653 2 GKSCRLRWLNYLRPD--IKRGNISHDEDELIIRLLN-------LL-------A------------NRWSLIAGRLPGRTD 53 (228)
Q Consensus 2 gKQCr~RW~n~L~P~--ikk~~WT~EED~lLl~lv~-------~~-------G------------~kWs~IA~~LpGRTd 53 (228)
+..||+||.+|..++ .+++.||.||+++||++|+ ++ | =+|+.|+..+..|+-
T Consensus 417 P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~ 496 (607)
T KOG0051|consen 417 PMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSR 496 (607)
T ss_pred cHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCc
Confidence 467999999999998 5999999999999999996 34 1 159999999999999
Q ss_pred hhhhhhhccccchhhhHHhh
Q 040653 54 NENMKSRIIGAPTLENKKLQ 73 (228)
Q Consensus 54 ~q~~KnR~~kw~~~l~kk~~ 73 (228)
.|| |.. |+.++.+...
T Consensus 497 ~qC-r~K---w~kl~~~~s~ 512 (607)
T KOG0051|consen 497 IQC-RYK---WYKLTTSPSF 512 (607)
T ss_pred chH-HHH---HHHHHhhHHh
Confidence 999 888 9888866543
No 18
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=97.52 E-value=6.2e-05 Score=74.61 Aligned_cols=49 Identities=27% Similarity=0.378 Sum_probs=45.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHH
Q 040653 18 KRGNISHDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKK 71 (228)
Q Consensus 18 kk~~WT~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk 71 (228)
++|.||+||++.|..+|.++|+.|+.|+..| ||.+..| +.| |..+.+..
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~c-rd~---wr~~~~~g 431 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDC-RDR---WRQYVKCG 431 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHH-HHH---HHHhhccc
Confidence 8999999999999999999999999999999 9999999 999 87777554
No 19
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=97.51 E-value=4.5e-05 Score=74.56 Aligned_cols=62 Identities=27% Similarity=0.336 Sum_probs=56.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhc-CchHHhhccCCCCChhhhhhhhccccchhhhHHhhhcCCCCCC
Q 040653 16 DIKRGNISHDEDELIIRLLNLLA-NRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQDHHQSPSS 81 (228)
Q Consensus 16 ~ikk~~WT~EED~lLl~lv~~~G-~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~~~~~~~~ 81 (228)
.++.|.|+..||+.|+.+++.|| ++|+.||+.|.-|+.++| ++| |+.++.+.++...+..+.
T Consensus 17 ~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~-~~r---w~~~lnp~lk~~~~~~ee 79 (512)
T COG5147 17 KRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQS-SNR---WNNHLNPQLKKKNWSEEE 79 (512)
T ss_pred eecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccc-cch---hhhhhchhcccccccHHH
Confidence 46788999999999999999999 679999999999999999 999 999999998887776443
No 20
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.35 E-value=8.7e-05 Score=72.35 Aligned_cols=60 Identities=27% Similarity=0.323 Sum_probs=54.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHhc-CchHHhhccCCCCChhhhhhhhccccchhhhHHhhhcCCCCC
Q 040653 17 IKRGNISHDEDELIIRLLNLLA-NRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQDHHQSPS 80 (228)
Q Consensus 17 ikk~~WT~EED~lLl~lv~~~G-~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~~~~~~~ 80 (228)
++-|-|+.-||++|-..|.+|| +.|+.|++.|+..|..|| ++| |...+.+.++...++..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC-~~r---w~e~ldp~i~~tews~e 65 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQC-KAR---WEEWLDPAIKKTEWSRE 65 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHH-HHH---HHHHhCHHHhhhhhhhh
Confidence 5667899999999999999999 779999999999999999 999 88999998888887644
No 21
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.34 E-value=0.00016 Score=69.16 Aligned_cols=47 Identities=21% Similarity=0.293 Sum_probs=42.7
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhc-CchHHhhccCCCCChhhhhhhhc
Q 040653 14 RPDIKRGNISHDEDELIIRLLNLLA-NRWSLIAGRLPGRTDNENMKSRI 61 (228)
Q Consensus 14 ~P~ikk~~WT~EED~lLl~lv~~~G-~kWs~IA~~LpGRTd~q~~KnR~ 61 (228)
.-.|-...||.+|+-+||+++..|| ++|..||.++..||..+| |.||
T Consensus 67 s~~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeec-k~hy 114 (438)
T KOG0457|consen 67 SFPILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEEC-KEHY 114 (438)
T ss_pred CCCCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHH-HHHH
Confidence 3456677899999999999999999 999999999999999999 9994
No 22
>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=96.88 E-value=0.00077 Score=48.91 Aligned_cols=50 Identities=14% Similarity=0.256 Sum_probs=30.7
Q ss_pred CCCCCHHHHHHHHHHHHHh--------cCc-hHHhhccCC-CCChhhhhhhhccccchhhhHHh
Q 040653 19 RGNISHDEDELIIRLLNLL--------ANR-WSLIAGRLP-GRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 19 k~~WT~EED~lLl~lv~~~--------G~k-Ws~IA~~Lp-GRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
|.+||.|||++|++.|..+ |++ |..++..-| .+|-..- |+| |...|+.+.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSw-R~R---y~K~L~~~~ 61 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSW-RDR---YLKHLRGRP 61 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHH-HHH---HHHHT----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHH-HHH---HHHHHhccc
Confidence 5689999999999999643 233 999999877 7777766 999 766665543
No 23
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.37 E-value=0.0027 Score=46.90 Aligned_cols=50 Identities=30% Similarity=0.433 Sum_probs=35.3
Q ss_pred CCCCCHHHHHHHHHHHHH------hcC--------chHHhhccC----CCCChhhhhhhhccccchhhhHHh
Q 040653 19 RGNISHDEDELIIRLLNL------LAN--------RWSLIAGRL----PGRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 19 k~~WT~EED~lLl~lv~~------~G~--------kWs~IA~~L----pGRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
|..||.+|-..||++... +++ .|..||..| ..||..|| +++ |..+.+.-.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc-~~K---w~~L~~~Yk 68 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQC-RNK---WKNLKKKYK 68 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHH-HHH---HHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHH-HHH---HHHHHHHHH
Confidence 458999999999999887 321 499999987 36999999 999 888665443
No 24
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.23 E-value=0.0046 Score=60.74 Aligned_cols=42 Identities=14% Similarity=0.388 Sum_probs=38.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhh
Q 040653 18 KRGNISHDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSR 60 (228)
Q Consensus 18 kk~~WT~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR 60 (228)
.+..||.+|..+||+.++.||-.|.+||.++.+||..|| --+
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqC-I~k 293 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQC-ILK 293 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHH-HHH
Confidence 356899999999999999999999999999999999999 555
No 25
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=96.06 E-value=0.0051 Score=52.08 Aligned_cols=53 Identities=17% Similarity=0.209 Sum_probs=43.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhc-------CchHHhhccCCCCChhhhhhhhccccchhhhHHhhhc
Q 040653 18 KRGNISHDEDELIIRLLNLLA-------NRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQDH 75 (228)
Q Consensus 18 kk~~WT~EED~lLl~lv~~~G-------~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~~ 75 (228)
+...||.|||.+|-+.|-.|= .-...++..| +||+-+| .-| ||+.+++.....
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAAC-GFR---WNs~VRkqY~~~ 62 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAAC-GFR---WNAYVRKQYEEA 62 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHh-cch---HHHHHHHHHHHH
Confidence 466899999999998888763 2378888888 8999999 999 999999876543
No 26
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=95.97 E-value=0.0062 Score=59.10 Aligned_cols=43 Identities=16% Similarity=0.304 Sum_probs=39.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhc
Q 040653 18 KRGNISHDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRI 61 (228)
Q Consensus 18 kk~~WT~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~ 61 (228)
...+||.+|..+||+.++.||..|.+||.++..||-.|| --||
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqC-Il~F 320 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQC-ILHF 320 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHH-HHHH
Confidence 445899999999999999999999999999999999999 5553
No 27
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.81 E-value=0.011 Score=55.18 Aligned_cols=45 Identities=31% Similarity=0.453 Sum_probs=40.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHhc-CchHHhhccCCCCChhhhhhhhcc
Q 040653 17 IKRGNISHDEDELIIRLLNLLA-NRWSLIAGRLPGRTDNENMKSRII 62 (228)
Q Consensus 17 ikk~~WT~EED~lLl~lv~~~G-~kWs~IA~~LpGRTd~q~~KnR~~ 62 (228)
|--..|+.+|+.+|++....+| ++|..||.++..|+..+| |.||.
T Consensus 61 I~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~-k~Hyl 106 (432)
T COG5114 61 IGEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEI-KSHYL 106 (432)
T ss_pred ccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHH-HHHHH
Confidence 3345799999999999999999 999999999999999999 99963
No 28
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.65 E-value=0.011 Score=43.02 Aligned_cols=52 Identities=27% Similarity=0.387 Sum_probs=38.7
Q ss_pred CCCCCHHHHHHHHHHHHHhc----C-------------chHHhhccC-----CCCChhhhhhhhccccchhhhHH
Q 040653 19 RGNISHDEDELIIRLLNLLA----N-------------RWSLIAGRL-----PGRTDNENMKSRIIGAPTLENKK 71 (228)
Q Consensus 19 k~~WT~EED~lLl~lv~~~G----~-------------kWs~IA~~L-----pGRTd~q~~KnR~~kw~~~l~kk 71 (228)
+..||.+|.++|++++.++- + -|..|+..| +.||..++ |..|..+....+++
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~l-kkkW~nlk~~~Kk~ 75 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQL-KKKWKNLKSKAKKK 75 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHH-HHHHHHHHHHHHHH
Confidence 46899999999999999863 1 399999876 36999999 99943333333333
No 29
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=93.81 E-value=0.045 Score=46.82 Aligned_cols=51 Identities=14% Similarity=0.196 Sum_probs=40.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhcC----c---hHHhhccCCCCChhhhhhhhccccchhhhHHh
Q 040653 17 IKRGNISHDEDELIIRLLNLLAN----R---WSLIAGRLPGRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 17 ikk~~WT~EED~lLl~lv~~~G~----k---Ws~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
.++..||.|||.+|-+.|-.|+. + ...++..| +||..+| .-| |+..++++.
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac-~fR---wNs~vrk~Y 60 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAAC-GFR---WNSVVRKQY 60 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHH-HhH---HHHHHHHHH
Confidence 45678999999999888887772 2 45556667 8999999 888 999998654
No 30
>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=91.89 E-value=0.13 Score=41.38 Aligned_cols=50 Identities=26% Similarity=0.391 Sum_probs=37.9
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhcC----chHHhhcc------------CCCCChhhhhhhhccccchhhh
Q 040653 16 DIKRGNISHDEDELIIRLLNLLAN----RWSLIAGR------------LPGRTDNENMKSRIIGAPTLEN 69 (228)
Q Consensus 16 ~ikk~~WT~EED~lLl~lv~~~G~----kWs~IA~~------------LpGRTd~q~~KnR~~kw~~~l~ 69 (228)
.-++..||++||..||-++.+||- .|..|... |..||+..+ ..| ..++++
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el-~rR---~~tLi~ 111 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQEL-QRR---CNTLIK 111 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHH-HHH---HHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHH-HHH---HHHHHH
Confidence 556778999999999999999995 79888653 246999999 888 666665
No 31
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=88.10 E-value=0.9 Score=48.51 Aligned_cols=52 Identities=19% Similarity=0.264 Sum_probs=41.3
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhc-CchHHhhc------------cCCCCChhhhhhhhccccchhhhH
Q 040653 15 PDIKRGNISHDEDELIIRLLNLLA-NRWSLIAG------------RLPGRTDNENMKSRIIGAPTLENK 70 (228)
Q Consensus 15 P~ikk~~WT~EED~lLl~lv~~~G-~kWs~IA~------------~LpGRTd~q~~KnR~~kw~~~l~k 70 (228)
+.-++..||+|||..||-++.+|| ++|..|-. ++..||...+ ..| ..++++-
T Consensus 922 ~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~-~~r---~~~l~~~ 986 (1033)
T PLN03142 922 GQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQEL-ARR---CDTLIRL 986 (1033)
T ss_pred CCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHH-HHH---HHHHHHH
Confidence 444556799999999999999999 78999833 2358999999 999 6666653
No 32
>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=85.93 E-value=0.98 Score=33.49 Aligned_cols=40 Identities=23% Similarity=0.372 Sum_probs=30.5
Q ss_pred CCCHHHHHHHHHHHHHh---cC----------chHHhhccC---CC--CChhhhhhhhc
Q 040653 21 NISHDEDELIIRLLNLL---AN----------RWSLIAGRL---PG--RTDNENMKSRI 61 (228)
Q Consensus 21 ~WT~EED~lLl~lv~~~---G~----------kWs~IA~~L---pG--RTd~q~~KnR~ 61 (228)
.||+++++.||++..+. |+ .|..|+..| +| .|..|| ||||
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~ql-knk~ 58 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQL-KNKW 58 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHH-HHHH
Confidence 59999999999998653 21 299998876 33 466889 9993
No 33
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=85.72 E-value=0.84 Score=44.65 Aligned_cols=51 Identities=10% Similarity=0.074 Sum_probs=42.1
Q ss_pred CCCCCHHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhH
Q 040653 19 RGNISHDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENK 70 (228)
Q Consensus 19 k~~WT~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~k 70 (228)
...||.||--++-+++..||....+|-+.||.|+-..+ ..+|.-|...+..
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSl-vqyYy~~KK~~~~ 237 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASL-VQYYYSWKKTREY 237 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHH-HHHHHHHHHHhhH
Confidence 44699999999999999999999999999999999999 4444446655443
No 34
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=85.59 E-value=0.79 Score=44.03 Aligned_cols=62 Identities=23% Similarity=0.248 Sum_probs=50.4
Q ss_pred HHhhhccCCCCCCCCCCHHHHHHHHHHHHHhcCchHHhhcc-----CCC-CChhhhhhhhccccchhhhHHhhhcC
Q 040653 7 LRWLNYLRPDIKRGNISHDEDELIIRLLNLLANRWSLIAGR-----LPG-RTDNENMKSRIIGAPTLENKKLQDHH 76 (228)
Q Consensus 7 ~RW~n~L~P~ikk~~WT~EED~lLl~lv~~~G~kWs~IA~~-----LpG-RTd~q~~KnR~~kw~~~l~kk~~~~~ 76 (228)
+-|.++|+- ..||.+|=.-|++|++.|-=+|-.||.+ ++. ||-.++ |.| |+...++-++...
T Consensus 122 eEYe~~l~d----n~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdL-KeR---yY~v~r~l~kAr~ 189 (445)
T KOG2656|consen 122 EEYEAHLND----NSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDL-KER---YYSVCRKLLKARA 189 (445)
T ss_pred HHHHHhhcc----ccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHH-HHH---HHHHHHHHHHccC
Confidence 345666553 6899999999999999999999999998 665 999999 999 7777776555443
No 35
>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=83.28 E-value=1.4 Score=29.44 Aligned_cols=35 Identities=23% Similarity=0.254 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhh
Q 040653 24 HDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSR 60 (228)
Q Consensus 24 ~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR 60 (228)
++++..++.++...|-.|..||..+ |.|...| +.+
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v-~~~ 46 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTV-KRR 46 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHH-HHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHH-HHH
Confidence 5778899999999999999999999 8999999 877
No 36
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=78.88 E-value=6 Score=41.02 Aligned_cols=62 Identities=8% Similarity=-0.014 Sum_probs=48.5
Q ss_pred HhhhccCCCC---CCCCCCHHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhH
Q 040653 8 RWLNYLRPDI---KRGNISHDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENK 70 (228)
Q Consensus 8 RW~n~L~P~i---kk~~WT~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~k 70 (228)
||..|+--+- ....||+.|-.+.-+++-.|-...-.|++.++|+|-.|| =.+|..|+..++-
T Consensus 605 ~~~~h~la~Y~Y~gSd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqC-VeyYYtWKK~~~~ 669 (907)
T KOG4167|consen 605 RLKCHPLANYHYAGSDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQC-VEYYYTWKKIMRL 669 (907)
T ss_pred CccccccceeeecCcccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHH-HHHHHHHHHhccc
Confidence 5555544332 133699999999999999999999999999999999999 5555559887654
No 37
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=77.29 E-value=2.4 Score=40.81 Aligned_cols=42 Identities=26% Similarity=0.377 Sum_probs=39.0
Q ss_pred CCCCHHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhcc
Q 040653 20 GNISHDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRII 62 (228)
Q Consensus 20 ~~WT~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~ 62 (228)
.+||.+|=++..++....|..++.|+..+|.|.-.|| |..|.
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqI-KaKfi 407 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQI-KAKFI 407 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHH-HHHHH
Confidence 3799999999999999999999999999999999999 88843
No 38
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=74.48 E-value=5 Score=37.07 Aligned_cols=49 Identities=18% Similarity=0.279 Sum_probs=38.5
Q ss_pred CCCCHHHHHHHHHHHHHhc----------CchHHhhccC----CCCChhhhhhhhccccchhhhHHh
Q 040653 20 GNISHDEDELIIRLLNLLA----------NRWSLIAGRL----PGRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 20 ~~WT~EED~lLl~lv~~~G----------~kWs~IA~~L----pGRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
.+|+.+|=..||++....- ..|..||..+ .-||+.+| |++ |..+.++-.
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qc-k~K---~~nl~k~Yk 117 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQC-KAK---IENLKKKYK 117 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHH-HHH---HHHHHHHHH
Confidence 6799999999999887532 3499999954 35999999 999 777666543
No 39
>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=71.98 E-value=16 Score=30.79 Aligned_cols=38 Identities=21% Similarity=0.159 Sum_probs=33.2
Q ss_pred CCCHHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhh
Q 040653 21 NISHDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSR 60 (228)
Q Consensus 21 ~WT~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR 60 (228)
.||+|+.++|-+|..+ |-.=++||..|.|.|-|+| -.+
T Consensus 2 ~Wtde~~~~L~~lw~~-G~SasqIA~~lg~vsRnAV-iGk 39 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GLSASQIARQLGGVSRNAV-IGK 39 (162)
T ss_pred CCCHHHHHHHHHHHHc-CCCHHHHHHHhCCcchhhh-hhh
Confidence 5999999999999865 8889999999988999998 554
No 40
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=66.58 E-value=10 Score=33.35 Aligned_cols=50 Identities=14% Similarity=0.161 Sum_probs=36.2
Q ss_pred CCCCCHHHHHHHHHHHHHhcC---chHHhh-----ccCCCCChhhhhhhhccccchhhhHHh
Q 040653 19 RGNISHDEDELIIRLLNLLAN---RWSLIA-----GRLPGRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 19 k~~WT~EED~lLl~lv~~~G~---kWs~IA-----~~LpGRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
|.+||.+||++|......... .+.+|= -+-++||..+. ..+ |..+.+..+
T Consensus 73 kalfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L-~~H---W~lmkqy~L 130 (199)
T PF13325_consen 73 KALFSKEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSL-QDH---WRLMKQYHL 130 (199)
T ss_pred cCCCCHHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHH-HHH---HHHHHHhch
Confidence 568999999999997766543 466662 23489999999 999 875444433
No 41
>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=60.21 E-value=9 Score=28.75 Aligned_cols=16 Identities=31% Similarity=0.603 Sum_probs=9.4
Q ss_pred CCCCCCCCCHHHHHHH
Q 040653 15 PDIKRGNISHDEDELI 30 (228)
Q Consensus 15 P~ikk~~WT~EED~lL 30 (228)
|.-..|=||+|+|+.|
T Consensus 43 P~n~~GiWT~eDD~~L 58 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEML 58 (87)
T ss_dssp -TT-TT---HHHHHHH
T ss_pred CCCCCCCcCHHHHHHH
Confidence 5556778999999998
No 42
>PLN03162 golden-2 like transcription factor; Provisional
Probab=59.68 E-value=37 Score=32.96 Aligned_cols=52 Identities=10% Similarity=-0.061 Sum_probs=42.4
Q ss_pred CCCCHHHHHHHHHHHHHhcC---chHHhhcc--CCCCChhhhhhhhccccchhhhHHh
Q 040653 20 GNISHDEDELIIRLLNLLAN---RWSLIAGR--LPGRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 20 ~~WT~EED~lLl~lv~~~G~---kWs~IA~~--LpGRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
-.||+|=-+..+++|.++|. .=+.|-+. ++|=|-..| |.|++||+.++++..
T Consensus 238 LrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenV-KSHLQKYRl~rk~l~ 294 (526)
T PLN03162 238 VDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNI-ASHLQKYRSHRRHLA 294 (526)
T ss_pred ccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHH-HHHHHHHHHhccccc
Confidence 46999999999999999993 25666555 489999999 999888888777543
No 43
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=59.06 E-value=41 Score=32.55 Aligned_cols=52 Identities=17% Similarity=0.067 Sum_probs=42.9
Q ss_pred CCCHHHHHHHHHHHHHhcCchHHhh-ccCCCCChhhhhhhhccccchhhhHHhh
Q 040653 21 NISHDEDELIIRLLNLLANRWSLIA-GRLPGRTDNENMKSRIIGAPTLENKKLQ 73 (228)
Q Consensus 21 ~WT~EED~lLl~lv~~~G~kWs~IA-~~LpGRTd~q~~KnR~~kw~~~l~kk~~ 73 (228)
-|+++|=...-+-.+.||.....|. ..++-|+-..| -..|..|+..-+..+-
T Consensus 279 ~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgEl-VeyYYlWKkSeryd~~ 331 (445)
T KOG4329|consen 279 GWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGEL-VEYYYLWKKSERYDVF 331 (445)
T ss_pred cCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHH-HHHHHHhhcCcchhhH
Confidence 5999999999999999999999995 46999999999 5556668776665543
No 44
>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=58.20 E-value=9.1 Score=29.90 Aligned_cols=33 Identities=18% Similarity=0.148 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhh
Q 040653 26 EDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSR 60 (228)
Q Consensus 26 ED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR 60 (228)
++..++.+.-..|-.+..||..| |.+...| +++
T Consensus 117 ~~r~il~l~~~~~~~~~eIA~~l-gis~~tv-~~~ 149 (161)
T TIGR02985 117 QCRKIFILSRFEGKSYKEIAEEL-GISVKTV-EYH 149 (161)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHH-CCCHHHH-HHH
Confidence 44555566555678899999998 8899999 888
No 45
>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=58.03 E-value=9.8 Score=28.72 Aligned_cols=29 Identities=21% Similarity=0.350 Sum_probs=24.7
Q ss_pred HHHHHHHHHHhcCchHHhhccCCCCChhhh
Q 040653 27 DELIIRLLNLLANRWSLIAGRLPGRTDNEN 56 (228)
Q Consensus 27 D~lLl~lv~~~G~kWs~IA~~LpGRTd~q~ 56 (228)
|+.|..+...+|..|..+|.+| |=|..+|
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 6666665
No 46
>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=53.75 E-value=27 Score=33.03 Aligned_cols=41 Identities=27% Similarity=0.391 Sum_probs=33.6
Q ss_pred CCCCHHHHHHHHHHHHHh-cCc---hHHhhccCCCCChhhhhhhhc
Q 040653 20 GNISHDEDELIIRLLNLL-ANR---WSLIAGRLPGRTDNENMKSRI 61 (228)
Q Consensus 20 ~~WT~EED~lLl~lv~~~-G~k---Ws~IA~~LpGRTd~q~~KnR~ 61 (228)
..||.-|...||++..-. |.. -+.|++.++||+..+| ++.+
T Consensus 22 ~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI-~~fl 66 (344)
T PF11035_consen 22 AAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEI-RDFL 66 (344)
T ss_pred ccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHH-HHHH
Confidence 469999999999887765 433 5789999999999999 8763
No 47
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=52.60 E-value=18 Score=30.18 Aligned_cols=45 Identities=16% Similarity=0.081 Sum_probs=31.4
Q ss_pred HHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhh
Q 040653 27 DELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQ 73 (228)
Q Consensus 27 D~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~ 73 (228)
+..++.|....|-....||..| |-+...| |+|+.+-...|++.+.
T Consensus 139 ~r~i~~l~~~~g~s~~EIA~~l-g~s~~tV-~~rl~rar~~Lr~~l~ 183 (192)
T PRK09643 139 QRAALVAVDMQGYSVADAARML-GVAEGTV-KSRCARGRARLAELLG 183 (192)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CcCHHHH-HHHHHHHHHHHHHHHH
Confidence 4455555556777899999999 7888889 9994433555555444
No 48
>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=51.73 E-value=15 Score=24.05 Aligned_cols=35 Identities=23% Similarity=0.218 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhh
Q 040653 24 HDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSR 60 (228)
Q Consensus 24 ~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR 60 (228)
++++..||.+.-..|-.+..||..| |-|...| +.+
T Consensus 6 ~~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V-~~~ 40 (50)
T PF04545_consen 6 PPREREVIRLRYFEGLTLEEIAERL-GISRSTV-RRI 40 (50)
T ss_dssp -HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHH-HHH
T ss_pred CHHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHH-HHH
Confidence 3567777777777777899999999 7788878 776
No 49
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=51.34 E-value=16 Score=29.14 Aligned_cols=44 Identities=11% Similarity=-0.004 Sum_probs=29.5
Q ss_pred HHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhh
Q 040653 28 ELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQ 73 (228)
Q Consensus 28 ~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~ 73 (228)
..++.+....|-.-..||..| |-+...| |+|+.+=...|++.+.
T Consensus 112 r~v~~l~~~~g~s~~EIA~~l-gis~~tV-~~~l~Rar~~Lr~~l~ 155 (160)
T PRK09642 112 RDVVLAHYLEEKSYQEIALQE-KIEVKTV-EMKLYRARKWIKKHWK 155 (160)
T ss_pred HHHHHHHHHhCCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHHh
Confidence 334444445666789999999 8888889 9995544555555443
No 50
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=48.28 E-value=17 Score=29.04 Aligned_cols=43 Identities=23% Similarity=0.145 Sum_probs=28.7
Q ss_pred HHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHH
Q 040653 27 DELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKK 71 (228)
Q Consensus 27 D~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk 71 (228)
+..++.+....|-.+..||..| |.+...| ++++.+-...|++.
T Consensus 133 ~r~vl~l~~~~~~s~~eIA~~l-gis~~tV-~~~l~ra~~~Lr~~ 175 (182)
T PRK09652 133 LRTAITLREIEGLSYEEIAEIM-GCPIGTV-RSRIFRAREALRAK 175 (182)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHH
Confidence 3444555555677899999999 7888888 88843333344433
No 51
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=47.69 E-value=16 Score=29.63 Aligned_cols=34 Identities=21% Similarity=0.054 Sum_probs=23.9
Q ss_pred HHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhcc
Q 040653 27 DELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRII 62 (228)
Q Consensus 27 D~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~ 62 (228)
+..++.+....|..+..||..| |-|...| ++++.
T Consensus 141 ~r~il~l~~~~~~s~~eIA~~l-gis~~~v-~~~l~ 174 (187)
T PRK09641 141 YRTVIVLKYIEDLSLKEISEIL-DLPVGTV-KTRIH 174 (187)
T ss_pred HHHHhhhHHhhCCCHHHHHHHH-CCCHHHH-HHHHH
Confidence 3344444445667789999999 7888888 88843
No 52
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=46.47 E-value=19 Score=28.67 Aligned_cols=43 Identities=26% Similarity=0.152 Sum_probs=28.0
Q ss_pred HHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHh
Q 040653 28 ELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 28 ~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
..++.++...|-.+..||..| |-|...| ++++.+-...|++.+
T Consensus 131 r~i~~l~~~~~~~~~eIA~~l-gis~~tv-~~~~~ra~~~lr~~l 173 (179)
T PRK11924 131 REVFLLRYVEGLSYREIAEIL-GVPVGTV-KSRLRRARQLLRECL 173 (179)
T ss_pred HHHhhHHHHcCCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHH
Confidence 344445555677899999999 7888888 888443344444433
No 53
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=45.96 E-value=22 Score=29.43 Aligned_cols=45 Identities=16% Similarity=0.051 Sum_probs=30.2
Q ss_pred HHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhhhc
Q 040653 29 LIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQDH 75 (228)
Q Consensus 29 lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~~ 75 (228)
.++.|+...|-.-..||..| |-+...| |+|+++=...|++.+...
T Consensus 143 ~i~~L~~~~g~s~~EIA~~l-gis~~tV-k~~l~Rar~~Lr~~l~~~ 187 (195)
T PRK12532 143 RVFTLKEILGFSSDEIQQMC-GISTSNY-HTIMHRARESLRQCLQIK 187 (195)
T ss_pred HHhhhHHHhCCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHHHHh
Confidence 33444445566789999998 8888889 998554455566555444
No 54
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=45.65 E-value=23 Score=28.57 Aligned_cols=43 Identities=23% Similarity=0.082 Sum_probs=28.5
Q ss_pred HHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhh
Q 040653 29 LIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQ 73 (228)
Q Consensus 29 lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~ 73 (228)
.++.|+...|-.-..||..| |.+...| |.|+.+=...|++.+.
T Consensus 125 ~vl~L~~~~g~s~~EIA~~l-gis~~tV-~~~l~ra~~~Lr~~l~ 167 (173)
T PRK09645 125 AVLVRSYYRGWSTAQIAADL-GIPEGTV-KSRLHYALRALRLALQ 167 (173)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CcCHHHH-HHHHHHHHHHHHHHhh
Confidence 34444445566788999998 7888889 9985444445555443
No 55
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=45.29 E-value=26 Score=27.70 Aligned_cols=42 Identities=17% Similarity=0.059 Sum_probs=28.2
Q ss_pred HHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhh
Q 040653 30 IIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQ 73 (228)
Q Consensus 30 Ll~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~ 73 (228)
++.|+...|-.-..||..| |-+...| |+|+.+=...|++.+.
T Consensus 114 v~~l~~~~g~s~~EIA~~l-gis~~tV-~~~l~ra~~~Lr~~l~ 155 (161)
T PRK09047 114 AFLLRYWEDMDVAETAAAM-GCSEGSV-KTHCSRATHALAKALE 155 (161)
T ss_pred HHHHHHHhcCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHHH
Confidence 3444445666789999999 7899999 9985443444444443
No 56
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=43.98 E-value=21 Score=29.79 Aligned_cols=47 Identities=21% Similarity=0.061 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhhh
Q 040653 26 EDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQD 74 (228)
Q Consensus 26 ED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~ 74 (228)
++..++.|....|-....||..| |-+...| |.|+.+=...|++.+..
T Consensus 120 ~~r~i~~L~~~~g~s~~EIA~~L-gis~~tV-k~~l~Rar~~Lr~~l~~ 166 (187)
T PRK12516 120 DQREAIILVGASGFAYEEAAEIC-GCAVGTI-KSRVNRARQRLQEILQI 166 (187)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHHHh
Confidence 34455666666778899999999 7888889 99955555555555544
No 57
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=43.78 E-value=29 Score=30.51 Aligned_cols=44 Identities=18% Similarity=0.066 Sum_probs=33.7
Q ss_pred CCCHHHHHHHHHHHHHhcCchHHhhccC---CCCChhhhhhhhccccchhhh
Q 040653 21 NISHDEDELIIRLLNLLANRWSLIAGRL---PGRTDNENMKSRIIGAPTLEN 69 (228)
Q Consensus 21 ~WT~EED~lLl~lv~~~G~kWs~IA~~L---pGRTd~q~~KnR~~kw~~~l~ 69 (228)
.|++++|-+|+..|.. |+.-..|+.-+ -.-|-.++ ..| |+.+|-
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei-~~R---W~~lly 47 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEI-EER---WYALLY 47 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHH-HHH---HHHHHc
Confidence 5999999999988876 66677776643 35677888 999 888763
No 58
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=42.83 E-value=23 Score=29.49 Aligned_cols=43 Identities=9% Similarity=-0.044 Sum_probs=29.4
Q ss_pred HHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHh
Q 040653 28 ELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 28 ~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
..++.|+...|-....||..| |-+...| |.|+.+=...|++.+
T Consensus 140 R~v~~L~~~~g~s~~EIA~~l-gis~~tV-k~~l~RAr~~Lr~~l 182 (189)
T PRK12530 140 ARVFMMREYLELSSEQICQEC-DISTSNL-HVLLYRARLQLQACL 182 (189)
T ss_pred HHHHhHHHHcCCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHH
Confidence 334444445667899999999 8999999 999554444454444
No 59
>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=42.11 E-value=18 Score=29.51 Aligned_cols=34 Identities=21% Similarity=0.092 Sum_probs=22.6
Q ss_pred HhcCchHHhhccCCCCChhhhhhhhccccchhhhHH
Q 040653 36 LLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKK 71 (228)
Q Consensus 36 ~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk 71 (228)
..|-....||..| |-|.+.| |+|+.+-...|++.
T Consensus 152 ~~~~s~~EIA~~l-gis~~tv-~~~l~rar~~Lr~~ 185 (190)
T TIGR02939 152 LEGLSYEDIARIM-DCPVGTV-RSRIFRAREAIAIR 185 (190)
T ss_pred hcCCCHHHHHHHH-CcCHHHH-HHHHHHHHHHHHHH
Confidence 3456788999888 6778888 88844334444433
No 60
>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=41.51 E-value=30 Score=26.05 Aligned_cols=29 Identities=21% Similarity=0.250 Sum_probs=24.2
Q ss_pred HHHHHHHHHHhcCchHHhhccCCCCChhhh
Q 040653 27 DELIIRLLNLLANRWSLIAGRLPGRTDNEN 56 (228)
Q Consensus 27 D~lLl~lv~~~G~kWs~IA~~LpGRTd~q~ 56 (228)
|..|..+...+|..|..+|..| |=+...|
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI 32 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEI 32 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHH
Confidence 6788889999999999999998 5555554
No 61
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=40.65 E-value=28 Score=28.39 Aligned_cols=44 Identities=7% Similarity=0.087 Sum_probs=27.9
Q ss_pred HHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHh
Q 040653 27 DELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 27 D~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
+..++.++...|-....||..| |-+...| +.|+.+=...|+..+
T Consensus 136 ~r~v~~l~~~~g~s~~eIA~~l-~is~~tV-~~~l~ra~~~Lr~~l 179 (184)
T PRK12512 136 QRDVVQSISVEGASIKETAAKL-SMSEGAV-RVALHRGLAALAAKF 179 (184)
T ss_pred HHHHHHHHHHcCCCHHHHHHHh-CCCHHHH-HHHHHHHHHHHHHHh
Confidence 3444455555567789999998 7888888 888433333444443
No 62
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=39.92 E-value=30 Score=28.77 Aligned_cols=40 Identities=15% Similarity=0.013 Sum_probs=25.8
Q ss_pred HHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHH
Q 040653 30 IIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKK 71 (228)
Q Consensus 30 Ll~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk 71 (228)
++.+....|-....||..| |-+...| |.|+.+-...|++.
T Consensus 149 v~~l~~~eg~s~~EIA~~l-gis~~tV-k~rl~ra~~~Lr~~ 188 (194)
T PRK12531 149 VLQAVYLEELPHQQVAEMF-DIPLGTV-KSRLRLAVEKLRHS 188 (194)
T ss_pred HHHHHHHcCCCHHHHHHHh-CcCHHHH-HHHHHHHHHHHHHH
Confidence 4444444566788899888 7888889 98844333344433
No 63
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=39.86 E-value=25 Score=28.94 Aligned_cols=42 Identities=24% Similarity=0.181 Sum_probs=27.4
Q ss_pred HHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhh
Q 040653 30 IIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQ 73 (228)
Q Consensus 30 Ll~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~ 73 (228)
++.+...-|-....||..| |-|...| ++|+.+-...|++.++
T Consensus 146 v~~l~~~~g~s~~eIA~~l-gis~~tv-~~~l~Rar~~Lr~~l~ 187 (193)
T PRK11923 146 ALTLREFDGLSYEDIASVM-QCPVGTV-RSRIFRAREAIDKALQ 187 (193)
T ss_pred HHhhHHhcCCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHHH
Confidence 3444444556688899988 7788888 8885554555555443
No 64
>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=39.73 E-value=23 Score=26.64 Aligned_cols=34 Identities=24% Similarity=0.231 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhh
Q 040653 25 DEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSR 60 (228)
Q Consensus 25 EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR 60 (228)
+.+..++.++-..|..+..||..+ |-+...| +++
T Consensus 113 ~~~~~ii~~~~~~g~s~~eIA~~l-~~s~~~v-~~~ 146 (158)
T TIGR02937 113 EREREVLVLRYLEGLSYKEIAEIL-GISVGTV-KRR 146 (158)
T ss_pred HHHHHHHhhHHhcCCCHHHHHHHH-CCCHHHH-HHH
Confidence 344455556656688899999998 5677777 777
No 65
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=39.39 E-value=31 Score=28.30 Aligned_cols=45 Identities=13% Similarity=-0.048 Sum_probs=28.5
Q ss_pred HHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhhh
Q 040653 28 ELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQD 74 (228)
Q Consensus 28 ~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~ 74 (228)
..++.+....|-....||..| |-+...| |+|..+-...|++.+..
T Consensus 134 r~i~~l~~~~g~s~~EIA~~l-gis~~tV-~~~l~Rar~~Lr~~l~~ 178 (186)
T PRK05602 134 REAIVLQYYQGLSNIEAAAVM-DISVDAL-ESLLARGRRALRAQLAD 178 (186)
T ss_pred HHHhhHHHhcCCCHHHHHHHh-CcCHHHH-HHHHHHHHHHHHHHHHh
Confidence 334444445566778888888 7778888 88854444555555443
No 66
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=39.22 E-value=24 Score=28.61 Aligned_cols=25 Identities=20% Similarity=0.048 Sum_probs=18.5
Q ss_pred HhcCchHHhhccCCCCChhhhhhhhcc
Q 040653 36 LLANRWSLIAGRLPGRTDNENMKSRII 62 (228)
Q Consensus 36 ~~G~kWs~IA~~LpGRTd~q~~KnR~~ 62 (228)
..|.....||..| |.+...| ++|+.
T Consensus 150 ~~g~s~~eIA~~l-gis~~~v-~~~l~ 174 (187)
T TIGR02948 150 MEDLSLKEISEIL-DLPVGTV-KTRIH 174 (187)
T ss_pred hcCCCHHHHHHHH-CCCHHHH-HHHHH
Confidence 3456678888888 7788888 88843
No 67
>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=38.17 E-value=33 Score=28.54 Aligned_cols=43 Identities=12% Similarity=0.010 Sum_probs=29.5
Q ss_pred HHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhh
Q 040653 29 LIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQ 73 (228)
Q Consensus 29 lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~ 73 (228)
.++.++...|-....||..| |-+.+.| |.|+.+=...|++.+.
T Consensus 138 ~v~~l~~~~g~s~~EIA~~l-gis~~tv-k~rl~Rar~~Lr~~l~ 180 (188)
T TIGR02943 138 RVFMMREVLGFESDEICQEL-EISTSNC-HVLLYRARLSLRACLS 180 (188)
T ss_pred HHHHHHHHhCCCHHHHHHHh-CCCHHHH-HHHHHHHHHHHHHHHH
Confidence 34555555667789999999 8888889 9985544444554443
No 68
>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=38.11 E-value=27 Score=27.79 Aligned_cols=28 Identities=25% Similarity=0.079 Sum_probs=19.8
Q ss_pred HHHHHHhcCchHHhhccCCCCChhhhhhhh
Q 040653 31 IRLLNLLANRWSLIAGRLPGRTDNENMKSR 60 (228)
Q Consensus 31 l~lv~~~G~kWs~IA~~LpGRTd~q~~KnR 60 (228)
+.+..-.|-.-..||..| |.+...| ++|
T Consensus 131 l~l~~~~g~s~~eIA~~l-~is~~tv-~~~ 158 (170)
T TIGR02952 131 IALRFGQNLPIAEVARIL-GKTEGAV-KIL 158 (170)
T ss_pred HHHHHhcCCCHHHHHHHH-CCCHHHH-HHH
Confidence 333334566778888888 7778888 887
No 69
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=37.76 E-value=39 Score=26.86 Aligned_cols=42 Identities=19% Similarity=0.098 Sum_probs=26.4
Q ss_pred HHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHh
Q 040653 29 LIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 29 lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
.++.++...|-.-..||..| |-+...| ++|+.+=...|+..+
T Consensus 112 ~v~~l~~~~~~s~~eIA~~l-gis~~tv-~~~l~ra~~~Lr~~l 153 (159)
T PRK12527 112 DSFLLRKLEGLSHQQIAEHL-GISRSLV-EKHIVNAMKHCRVRM 153 (159)
T ss_pred HHHHHHHHcCCCHHHHHHHh-CCCHHHH-HHHHHHHHHHHHHHH
Confidence 33444444555678999998 7888888 888443344444443
No 70
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=37.35 E-value=31 Score=28.97 Aligned_cols=41 Identities=20% Similarity=0.087 Sum_probs=28.7
Q ss_pred HHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhhhc
Q 040653 33 LLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQDH 75 (228)
Q Consensus 33 lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~~ 75 (228)
|+...|-.-..||..| |.+...| |.|+.+=...|++.+...
T Consensus 150 L~~~eg~s~~EIA~~l-gis~~tV-k~~l~RAr~~Lr~~l~~~ 190 (201)
T PRK12545 150 MREFLDFEIDDICTEL-TLTANHC-SVLLYRARTRLRTCLSEK 190 (201)
T ss_pred HHHHcCCCHHHHHHHH-CcCHHHH-HHHHHHHHHHHHHHHHHH
Confidence 3334556789999999 8888989 999655556666655443
No 71
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=37.24 E-value=35 Score=27.44 Aligned_cols=41 Identities=20% Similarity=0.058 Sum_probs=26.6
Q ss_pred HHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhH
Q 040653 28 ELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENK 70 (228)
Q Consensus 28 ~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~k 70 (228)
..++.++...|-....||..| |-+...| |+|+.+=...|+.
T Consensus 118 r~v~~l~~~~g~s~~eIA~~l-gis~~tV-~~~l~Rar~~Lr~ 158 (164)
T PRK12547 118 REAIILIGASGFSYEDAAAIC-GCAVGTI-KSRVSRARNRLQE 158 (164)
T ss_pred HHHHHHHHHcCCCHHHHHHHh-CCCHHHH-HHHHHHHHHHHHH
Confidence 334555555667789999998 7778888 8884433333333
No 72
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=35.70 E-value=34 Score=27.75 Aligned_cols=37 Identities=14% Similarity=0.009 Sum_probs=24.5
Q ss_pred HHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhh
Q 040653 31 IRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLEN 69 (228)
Q Consensus 31 l~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~ 69 (228)
+.+....|-.-..||..| |.+...| |+|+.+=...|+
T Consensus 138 ~~l~~~~g~s~~eIA~~l-gis~~tV-~~~l~Rar~~Lr 174 (179)
T PRK12514 138 VRRAYLEGLSYKELAERH-DVPLNTM-RTWLRRSLLKLR 174 (179)
T ss_pred HHHHHHcCCCHHHHHHHH-CCChHHH-HHHHHHHHHHHH
Confidence 333334466788999999 8899999 888443333333
No 73
>PHA02972 hypothetical protein; Provisional
Probab=35.69 E-value=32 Score=26.92 Aligned_cols=18 Identities=39% Similarity=0.853 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHhhcceee
Q 040653 195 FRALFLYTYIWVLHMNYI 212 (228)
Q Consensus 195 ~~~~~~~~~~~~~~~~~~ 212 (228)
|.-+|+|+++|+.+.|.|
T Consensus 50 fnilfLYifS~if~iN~i 67 (109)
T PHA02972 50 FNILFLYIFSCIFDINII 67 (109)
T ss_pred HHHHHHHHHHHHhcCceE
Confidence 677899999999988754
No 74
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=35.62 E-value=34 Score=27.84 Aligned_cols=42 Identities=17% Similarity=0.194 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHhc-CchHHhhccCCCCChhhhhhhhccccchhhhHH
Q 040653 25 DEDELIIRLLNLLA-NRWSLIAGRLPGRTDNENMKSRIIGAPTLENKK 71 (228)
Q Consensus 25 EED~lLl~lv~~~G-~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk 71 (228)
+-|..||++..+-| -.|+.||..+ |-+...| ++| ++.+....
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV-~~R---i~rL~~~G 51 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTI-HVR---VEKMKQAG 51 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHH-HHH---HHHHHHCC
Confidence 56888888888877 5699999999 8999999 999 55555443
No 75
>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=35.36 E-value=29 Score=25.60 Aligned_cols=29 Identities=28% Similarity=0.528 Sum_probs=23.1
Q ss_pred HHHHHHHHHHhcCchHHhhccCCCCChhhh
Q 040653 27 DELIIRLLNLLANRWSLIAGRLPGRTDNEN 56 (228)
Q Consensus 27 D~lLl~lv~~~G~kWs~IA~~LpGRTd~q~ 56 (228)
|..|..+.+.+|..|.++|..| |=+..+|
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI 32 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDI 32 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHH
Confidence 5567888899999999999999 5555544
No 76
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=34.96 E-value=38 Score=27.75 Aligned_cols=33 Identities=21% Similarity=0.066 Sum_probs=25.3
Q ss_pred HHHHHHHHHhcCchHHhhccCCCCChhhhhhhhcc
Q 040653 28 ELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRII 62 (228)
Q Consensus 28 ~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~ 62 (228)
..++.++...|-....||..| |.+...| |+|+.
T Consensus 135 r~v~~l~~~~g~s~~EIA~~l-~is~~tV-~~~l~ 167 (181)
T PRK12536 135 RLPIVHVKLEGLSVAETAQLT-GLSESAV-KVGIH 167 (181)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHH-HHHHH
Confidence 334555666777899999999 8899999 99843
No 77
>KOG2535 consensus RNA polymerase II elongator complex, subunit ELP3/histone acetyltransferase [Chromatin structure and dynamics; Transcription]
Probab=34.55 E-value=20 Score=34.62 Aligned_cols=12 Identities=58% Similarity=1.270 Sum_probs=9.6
Q ss_pred ecCCCCeEEEec
Q 040653 212 INNDGSICVYCE 223 (228)
Q Consensus 212 ~~~~~~~~~~~~ 223 (228)
|+-.|.|||||.
T Consensus 109 Ia~TGNiCVYCP 120 (554)
T KOG2535|consen 109 IAFTGNICVYCP 120 (554)
T ss_pred eeccCCEEEECC
Confidence 556788999995
No 78
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=34.34 E-value=30 Score=25.24 Aligned_cols=18 Identities=33% Similarity=0.702 Sum_probs=15.0
Q ss_pred HHHHHHHHHhcCchHHhh
Q 040653 28 ELIIRLLNLLANRWSLIA 45 (228)
Q Consensus 28 ~lLl~lv~~~G~kWs~IA 45 (228)
..|.+|.+.||++|..|-
T Consensus 30 ~vl~~LL~lY~~nW~lIE 47 (65)
T PF10440_consen 30 PVLKNLLKLYDGNWELIE 47 (65)
T ss_pred HHHHHHHHHHcCCchhhh
Confidence 357788899999999985
No 79
>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=33.91 E-value=30 Score=31.04 Aligned_cols=39 Identities=21% Similarity=0.087 Sum_probs=26.8
Q ss_pred HHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHh
Q 040653 32 RLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 32 ~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
.|+...|-.-..||..| |.+...| |+|+.+=...|++.+
T Consensus 152 ~L~~~~g~s~~EIA~~l-gis~~tV-~~~l~Rar~~Lr~~l 190 (324)
T TIGR02960 152 LLRDVLGWRAAETAELL-GTSTASV-NSALQRARATLDEVG 190 (324)
T ss_pred hhHHHhCCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHhc
Confidence 34444667789999999 8999999 999544444444443
No 80
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=33.45 E-value=37 Score=34.45 Aligned_cols=45 Identities=22% Similarity=0.357 Sum_probs=41.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhc
Q 040653 16 DIKRGNISHDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRI 61 (228)
Q Consensus 16 ~ikk~~WT~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~ 61 (228)
....++||.+|=++--......|.+.+.|+..+|+|+..|| |..|
T Consensus 406 ~~~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~i-K~K~ 450 (584)
T KOG2009|consen 406 KLETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQI-KAKF 450 (584)
T ss_pred ccccCcccchhhHHhhhHHhhhcccccccccccccccHHHH-HHHH
Confidence 45567899999999999999999999999999999999999 8774
No 81
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=33.16 E-value=37 Score=27.28 Aligned_cols=30 Identities=17% Similarity=0.084 Sum_probs=20.9
Q ss_pred HHHHHHHhcCchHHhhccCCCCChhhhhhhhc
Q 040653 30 IIRLLNLLANRWSLIAGRLPGRTDNENMKSRI 61 (228)
Q Consensus 30 Ll~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~ 61 (228)
++.++...|-....||..| |-|...| ++|+
T Consensus 127 i~~l~~~~g~s~~eiA~~l-gis~~tv-~~~l 156 (169)
T TIGR02954 127 AIILRYYHDLTIKEIAEVM-NKPEGTV-KTYL 156 (169)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHH-HHHH
Confidence 3444444566788888888 6688888 8883
No 82
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=33.14 E-value=44 Score=27.05 Aligned_cols=33 Identities=18% Similarity=0.098 Sum_probs=25.4
Q ss_pred HHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhc
Q 040653 27 DELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRI 61 (228)
Q Consensus 27 D~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~ 61 (228)
+..++.|....|-....||..| |.+...| |.|+
T Consensus 124 ~r~v~~L~~~~g~s~~EIA~~l-gis~~tV-~~~l 156 (172)
T PRK12523 124 ARAAFLYNRLDGMGHAEIAERL-GVSVSRV-RQYL 156 (172)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHH-HHHH
Confidence 4455566666777899999999 8888889 9883
No 83
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=33.01 E-value=43 Score=27.79 Aligned_cols=31 Identities=19% Similarity=0.132 Sum_probs=21.6
Q ss_pred HHHHHHHhcCchHHhhccCCCCChhhhhhhhcc
Q 040653 30 IIRLLNLLANRWSLIAGRLPGRTDNENMKSRII 62 (228)
Q Consensus 30 Ll~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~ 62 (228)
++.+....|-....||..| |-+...| |+|..
T Consensus 150 vl~l~~~~~~s~~EIA~~L-gis~~tV-k~~l~ 180 (194)
T PRK09646 150 SVTLAYYGGLTYREVAERL-AVPLGTV-KTRMR 180 (194)
T ss_pred HHHHHHHcCCCHHHHHHHh-CCChHhH-HHHHH
Confidence 3334444556789999998 6688888 88843
No 84
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=32.79 E-value=48 Score=27.57 Aligned_cols=42 Identities=12% Similarity=-0.103 Sum_probs=28.4
Q ss_pred HHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHh
Q 040653 29 LIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 29 lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
.++.|+...|-.+..||..| |=+...| |+|+.+=...|++.+
T Consensus 143 ~i~~L~~~~g~s~~eIA~~l-gis~~tV-~~~l~Ra~~~Lr~~l 184 (196)
T PRK12524 143 QAVVLRHIEGLSNPEIAEVM-EIGVEAV-ESLTARGKRALAALL 184 (196)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CcCHHHH-HHHHHHHHHHHHHHH
Confidence 34555555677899999998 7778888 888544444444443
No 85
>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=32.51 E-value=43 Score=25.02 Aligned_cols=29 Identities=21% Similarity=0.353 Sum_probs=24.6
Q ss_pred HHHHHHHHHHhcCchHHhhccCCCCChhhh
Q 040653 27 DELIIRLLNLLANRWSLIAGRLPGRTDNEN 56 (228)
Q Consensus 27 D~lLl~lv~~~G~kWs~IA~~LpGRTd~q~ 56 (228)
|..|-.+.+.+|..|..+|..| |=++..|
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI 32 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQI 32 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 5677788899999999999999 6777777
No 86
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=32.16 E-value=45 Score=34.22 Aligned_cols=26 Identities=15% Similarity=0.341 Sum_probs=24.5
Q ss_pred CCCCCHHHHHHHHHHHHHhcCchHHh
Q 040653 19 RGNISHDEDELIIRLLNLLANRWSLI 44 (228)
Q Consensus 19 k~~WT~EED~lLl~lv~~~G~kWs~I 44 (228)
|..||.+|++-...+.+++|.....|
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~V 113 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKV 113 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHH
Confidence 67899999999999999999999888
No 87
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=32.16 E-value=46 Score=27.38 Aligned_cols=41 Identities=17% Similarity=0.124 Sum_probs=26.6
Q ss_pred HHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHH
Q 040653 29 LIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKK 71 (228)
Q Consensus 29 lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk 71 (228)
.++.+....|-....||..| |-|...| ++|+.+=...|++.
T Consensus 138 ~vl~l~~~~~~s~~eIA~~l-gis~~tV-~~~l~Rar~~Lr~~ 178 (189)
T PRK12515 138 EIIDLVYYHEKSVEEVGEIV-GIPESTV-KTRMFYARKKLAEL 178 (189)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CcCHHHH-HHHHHHHHHHHHHH
Confidence 33444445667789999999 7788889 99844333333333
No 88
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=32.11 E-value=43 Score=27.67 Aligned_cols=44 Identities=23% Similarity=0.138 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHH
Q 040653 26 EDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKK 71 (228)
Q Consensus 26 ED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk 71 (228)
++..++.+....|-....||..| |-+...| |+|+.+=...|++.
T Consensus 110 ~~r~i~~l~~~~g~~~~EIA~~l-gis~~tV-~~~l~Rar~~Lr~~ 153 (181)
T PRK09637 110 KYAEALRLTELEGLSQKEIAEKL-GLSLSGA-KSRVQRGRVKLKEL 153 (181)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHh-CCCHHHH-HHHHHHHHHHHHHH
Confidence 34445555556778899999999 7888889 99844333333333
No 89
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=30.80 E-value=46 Score=27.30 Aligned_cols=32 Identities=16% Similarity=0.045 Sum_probs=23.4
Q ss_pred HHHHHHHHHhcCchHHhhccCCCCChhhhhhhhc
Q 040653 28 ELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRI 61 (228)
Q Consensus 28 ~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~ 61 (228)
..++.++...|.....||..| |-+...| +.|+
T Consensus 145 r~i~~l~~~~g~s~~EIA~~l-gis~~tV-~~~l 176 (189)
T PRK09648 145 REILILRVVVGLSAEETAEAV-GSTPGAV-RVAQ 176 (189)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHH-HHHH
Confidence 344455555677899999999 7888888 8883
No 90
>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=30.59 E-value=46 Score=26.95 Aligned_cols=30 Identities=17% Similarity=0.005 Sum_probs=21.3
Q ss_pred HHHHHHhcCchHHhhccCCCCChhhhhhhhcc
Q 040653 31 IRLLNLLANRWSLIAGRLPGRTDNENMKSRII 62 (228)
Q Consensus 31 l~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~ 62 (228)
+.|....|-....||..| |-+...| |+|+.
T Consensus 143 ~~l~~~~g~s~~EIA~~l-gis~~tV-k~~l~ 172 (183)
T TIGR02999 143 VELRFFAGLTVEEIAELL-GVSVRTV-ERDWR 172 (183)
T ss_pred HHHHHHcCCCHHHHHHHh-CCCHHHH-HHHHH
Confidence 333444556788999988 7888888 88843
No 91
>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=30.57 E-value=48 Score=24.76 Aligned_cols=26 Identities=31% Similarity=0.438 Sum_probs=20.7
Q ss_pred HHHHHHHhcCchHHhhccCCCCChhhh
Q 040653 30 IIRLLNLLANRWSLIAGRLPGRTDNEN 56 (228)
Q Consensus 30 Ll~lv~~~G~kWs~IA~~LpGRTd~q~ 56 (228)
|..+....|..|..+|..| |=++.+|
T Consensus 10 l~~ia~~iG~~Wk~Lar~L-Gls~~dI 35 (86)
T cd08318 10 ITVFANKLGEDWKTLAPHL-EMKDKEI 35 (86)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 3346788999999999999 6677666
No 92
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=30.06 E-value=49 Score=27.10 Aligned_cols=42 Identities=10% Similarity=0.137 Sum_probs=27.7
Q ss_pred HHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHh
Q 040653 29 LIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 29 lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
.++.|....|-.-..||..| |-+...| |+|+.+=...|++.+
T Consensus 129 ~i~~l~~~~g~s~~EIA~~l-gis~~tV-k~~l~Rar~~Lr~~l 170 (185)
T PRK12542 129 QVFKYKVFYNLTYQEISSVM-GITEANV-RKQFERARKRVQNMI 170 (185)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHH
Confidence 34444445667789999999 7888889 998544344444433
No 93
>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=29.16 E-value=48 Score=21.60 Aligned_cols=34 Identities=26% Similarity=0.418 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHhc-CchHHhhccCCCCChhhhhhhh
Q 040653 25 DEDELIIRLLNLLA-NRWSLIAGRLPGRTDNENMKSR 60 (228)
Q Consensus 25 EED~lLl~lv~~~G-~kWs~IA~~LpGRTd~q~~KnR 60 (228)
+=|..||++...-| -.|..||..+ |=|...| ..|
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~l-glS~~~v-~~R 37 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEEL-GLSESTV-RRR 37 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHH-TS-HHHH-HHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHH-CcCHHHH-HHH
Confidence 45788888888888 4599999998 8888889 888
No 94
>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=28.39 E-value=38 Score=25.38 Aligned_cols=21 Identities=19% Similarity=0.343 Sum_probs=19.0
Q ss_pred HHHHHHHHHhcCchHHhhccC
Q 040653 28 ELIIRLLNLLANRWSLIAGRL 48 (228)
Q Consensus 28 ~lLl~lv~~~G~kWs~IA~~L 48 (228)
.-|..+.+.+|..|..+|.+|
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L 23 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL 23 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc
Confidence 457889999999999999998
No 95
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=28.08 E-value=54 Score=26.68 Aligned_cols=24 Identities=21% Similarity=0.034 Sum_probs=18.2
Q ss_pred HhcCchHHhhccCCCCChhhhhhhhc
Q 040653 36 LLANRWSLIAGRLPGRTDNENMKSRI 61 (228)
Q Consensus 36 ~~G~kWs~IA~~LpGRTd~q~~KnR~ 61 (228)
..|-.-..||..| |-|...| |.|+
T Consensus 149 ~~~~s~~eIA~~l-gis~~~V-~~~l 172 (186)
T PRK13919 149 YQGYTHREAAQLL-GLPLGTL-KTRA 172 (186)
T ss_pred HcCCCHHHHHHHH-CcCHHHH-HHHH
Confidence 3455678899988 7888888 8883
No 96
>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=27.72 E-value=54 Score=21.02 Aligned_cols=23 Identities=30% Similarity=0.205 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHhcCchHHhhccC
Q 040653 26 EDELIIRLLNLLANRWSLIAGRL 48 (228)
Q Consensus 26 ED~lLl~lv~~~G~kWs~IA~~L 48 (228)
|-+.|.++...+|++.+..|..|
T Consensus 6 E~~~i~~aL~~~~gn~~~aA~~L 28 (42)
T PF02954_consen 6 EKQLIRQALERCGGNVSKAARLL 28 (42)
T ss_dssp HHHHHHHHHHHTTT-HHHHHHHH
T ss_pred HHHHHHHHHHHhCCCHHHHHHHH
Confidence 77889999999999999999988
No 97
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=27.51 E-value=53 Score=27.02 Aligned_cols=42 Identities=17% Similarity=-0.005 Sum_probs=27.3
Q ss_pred HHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhhhcC
Q 040653 33 LLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQDHH 76 (228)
Q Consensus 33 lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~~~ 76 (228)
|....|-.-..||..| |-+.+.| |+|+.+=...|++.+....
T Consensus 142 l~~~~g~s~~EIA~~l-gis~~tV-~~~l~Rar~~Lr~~l~~~~ 183 (191)
T PRK12520 142 MREWLELETEEICQEL-QITATNA-WVLLYRARMRLRECLDLHW 183 (191)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHHHHHH
Confidence 3333456678899888 8888889 9985444445555554443
No 98
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=27.51 E-value=23 Score=28.59 Aligned_cols=33 Identities=21% Similarity=0.140 Sum_probs=21.3
Q ss_pred HhcCchHHhhccCCCCChhhhhhhhccccchhhhH
Q 040653 36 LLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENK 70 (228)
Q Consensus 36 ~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~k 70 (228)
..|-....||..| |-+...| +.++.+=...|++
T Consensus 140 ~~g~s~~eIA~~l-~is~~~V-~~~l~ra~~~l~~ 172 (176)
T PRK09638 140 YYGYTYEEIAKML-NIPEGTV-KSRVHHGIKQLRK 172 (176)
T ss_pred hcCCCHHHHHHHH-CCChhHH-HHHHHHHHHHHHH
Confidence 4566788999988 6677778 8773333333333
No 99
>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=27.31 E-value=61 Score=23.33 Aligned_cols=30 Identities=23% Similarity=0.392 Sum_probs=22.1
Q ss_pred HHHHHHHHHHH-hcCchHHhhccCCCCChhhh
Q 040653 26 EDELIIRLLNL-LANRWSLIAGRLPGRTDNEN 56 (228)
Q Consensus 26 ED~lLl~lv~~-~G~kWs~IA~~LpGRTd~q~ 56 (228)
-++.|..++.. .|..|..+|..|+- ++.+|
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~Lg~-~~~~i 34 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKLGL-SEADI 34 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHcCC-CHHHH
Confidence 35667777777 89999999999953 44444
No 100
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=27.28 E-value=47 Score=25.10 Aligned_cols=28 Identities=14% Similarity=0.220 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhcCchHHhhccCCCCChhh
Q 040653 27 DELIIRLLNLLANRWSLIAGRLPGRTDNE 55 (228)
Q Consensus 27 D~lLl~lv~~~G~kWs~IA~~LpGRTd~q 55 (228)
|..|..+.+.+|..|.++|..| |=+...
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L-~vs~~d 31 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL-QFSVED 31 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc-CCCHHH
Confidence 5677888999999999999998 444433
No 101
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=27.01 E-value=66 Score=27.29 Aligned_cols=37 Identities=22% Similarity=0.154 Sum_probs=24.3
Q ss_pred HhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhhh
Q 040653 36 LLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQD 74 (228)
Q Consensus 36 ~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~ 74 (228)
..|..-..||..| |-+...| |+++.+=...|++.+..
T Consensus 152 ~~g~s~~EIA~~L-gis~~tV-~~~l~RArk~Lr~~l~~ 188 (203)
T PRK09647 152 IEGLSYEEIAATL-GVKLGTV-RSRIHRGRQQLRAALAA 188 (203)
T ss_pred HcCCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHHHH
Confidence 3455678888888 7788888 88854444555554443
No 102
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=26.86 E-value=53 Score=27.49 Aligned_cols=45 Identities=20% Similarity=0.045 Sum_probs=31.0
Q ss_pred HHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhh
Q 040653 27 DELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQ 73 (228)
Q Consensus 27 D~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~ 73 (228)
...++.|+...|-....||..| |-+...| |+|+.+=...|++.+.
T Consensus 118 ~r~v~~L~~~~g~s~~EIA~~L-giS~~tV-k~~l~Rar~~Lr~~l~ 162 (188)
T PRK12546 118 QREALILVGASGFSYEEAAEMC-GVAVGTV-KSRANRARARLAELLQ 162 (188)
T ss_pred HhHHhhhHHhcCCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHHh
Confidence 3445555556777899999999 7888889 9985544555555443
No 103
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=26.75 E-value=49 Score=27.27 Aligned_cols=44 Identities=18% Similarity=0.133 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHhc-CchHHhhccCCCCChhhhhhhhccccchhhhHHh
Q 040653 24 HDEDELIIRLLNLLA-NRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 24 ~EED~lLl~lv~~~G-~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
.+-|..||.+-.+-| -.|+.||..+ |-+...| ++| ++.+.+..+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv-~~R---i~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPC-LER---VRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHH-HHH---HHHHHHCCC
Confidence 456888888877777 5699999999 8889999 999 666555444
No 104
>PRK08295 RNA polymerase factor sigma-70; Validated
Probab=26.54 E-value=65 Score=26.66 Aligned_cols=34 Identities=18% Similarity=0.098 Sum_probs=22.9
Q ss_pred hcCchHHhhccCCCCChhhhhhhhccccchhhhHHh
Q 040653 37 LANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 37 ~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
.|-.-..||..| |-+...| ++|+.+-...|++.+
T Consensus 169 e~~s~~EIA~~l-gis~~tV-~~~l~rar~~Lr~~l 202 (208)
T PRK08295 169 DGKSYQEIAEEL-NRHVKSI-DNALQRVKRKLEKYL 202 (208)
T ss_pred ccCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHH
Confidence 455678888888 7888888 888544444444443
No 105
>PRK12538 RNA polymerase sigma factor; Provisional
Probab=26.39 E-value=48 Score=28.91 Aligned_cols=40 Identities=15% Similarity=-0.094 Sum_probs=26.8
Q ss_pred HHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhh
Q 040653 32 RLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQ 73 (228)
Q Consensus 32 ~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~ 73 (228)
.|....|-.-..||..| |-+...| |+|+.+=...|++.+.
T Consensus 181 ~L~~~eg~s~~EIA~~L-gis~~tV-k~~l~RAr~kLr~~l~ 220 (233)
T PRK12538 181 ILSYHENMSNGEIAEVM-DTTVAAV-ESLLKRGRQQLRDLLR 220 (233)
T ss_pred hhHHhcCCCHHHHHHHH-CcCHHHH-HHHHHHHHHHHHHHHH
Confidence 33334556678999998 8888889 9985544555555443
No 106
>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=26.31 E-value=60 Score=24.43 Aligned_cols=28 Identities=29% Similarity=0.396 Sum_probs=22.3
Q ss_pred HHHHHHHHHhcCchHHhhccCCCCChhhh
Q 040653 28 ELIIRLLNLLANRWSLIAGRLPGRTDNEN 56 (228)
Q Consensus 28 ~lLl~lv~~~G~kWs~IA~~LpGRTd~q~ 56 (228)
+-|-.+....|..|..+|..| |=++.+|
T Consensus 3 ~~l~~l~~~lG~~Wk~lar~L-G~s~~eI 30 (86)
T cd08777 3 KHLDLLRENLGKKWKRCARKL-GFTESEI 30 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHc-CCCHHHH
Confidence 345556688999999999999 6777777
No 107
>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=25.89 E-value=59 Score=25.77 Aligned_cols=35 Identities=20% Similarity=0.151 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhc
Q 040653 25 DEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRI 61 (228)
Q Consensus 25 EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~ 61 (228)
+++..++.+....|-.-..||..| |-+...| |+|+
T Consensus 113 ~~~r~i~~l~~~~g~s~~eIA~~l-gis~~tV-~~~l 147 (162)
T TIGR02983 113 ARQRAVVVLRYYEDLSEAQVAEAL-GISVGTV-KSRL 147 (162)
T ss_pred HHHHHHhhhHHHhcCCHHHHHHHh-CCCHHHH-HHHH
Confidence 355566666666777789999988 7888888 8883
No 108
>cd08311 Death_p75NR Death domain of p75 Neurotophin Receptor. Death Domain (DD) found in p75 neurotrophin receptor (p75NTR, NGFR, TNFRSF16). p75NTR binds members of the neurotrophin (NT) family including nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT3, among others. It contains an NT-binding extracellular region that bears four cysteine-rich repeats, a transmembrane domain, and an intracellular DD. p75NTR plays roles in the immune, vascular, and nervous systems, and has been shown to promote cell death or survival, and to induce neurite outgrowth or collapse depending on its ligands and co-receptors. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptor
Probab=25.81 E-value=55 Score=24.25 Aligned_cols=33 Identities=24% Similarity=0.397 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhh
Q 040653 24 HDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKS 59 (228)
Q Consensus 24 ~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~Kn 59 (228)
.||-++||..- ..|..|...|..| |=++..| ++
T Consensus 2 ~~~v~~ll~~~-nlG~dW~~LA~~L-G~~~~~I-~~ 34 (77)
T cd08311 2 QEEVEKLLESG-RPGRDWRSLAGEL-GYEDEAI-DT 34 (77)
T ss_pred hHHHHHHHhCC-CCccCHHHHHHHc-CCCHHHH-HH
Confidence 57888888322 5788999999999 6777777 54
No 109
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=25.75 E-value=87 Score=25.60 Aligned_cols=31 Identities=16% Similarity=-0.046 Sum_probs=24.4
Q ss_pred HHHHHHHHHhcCchHHhhccCCCCChhhhhhhh
Q 040653 28 ELIIRLLNLLANRWSLIAGRLPGRTDNENMKSR 60 (228)
Q Consensus 28 ~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR 60 (228)
..++.|+...|-....||..| |-+.+.| |.|
T Consensus 133 R~v~~L~~~~g~s~~EIA~~l-gis~~tV-k~~ 163 (178)
T PRK12529 133 KQAFLMATLDGMKQKDIAQAL-DIALPTV-KKY 163 (178)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHH-HHH
Confidence 344556666778899999999 8888889 988
No 110
>PRK12540 RNA polymerase sigma factor; Provisional
Probab=25.64 E-value=67 Score=26.59 Aligned_cols=44 Identities=18% Similarity=0.029 Sum_probs=28.7
Q ss_pred HHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhhhc
Q 040653 30 IIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQDH 75 (228)
Q Consensus 30 Ll~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~~ 75 (228)
++.|....|-.-..||..| |-+...| |.|+.+=...|++.+...
T Consensus 119 v~~L~~~~g~s~~EIA~~L-gis~~tV-~~~l~RAr~~Lr~~l~~~ 162 (182)
T PRK12540 119 ALILVGASGFSYEDAAAIC-GCAVGTI-KSRVNRARSKLSALLYVD 162 (182)
T ss_pred HhhHHHHcCCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHHHhc
Confidence 3344444566778899888 7778888 888555555555555543
No 111
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=25.54 E-value=56 Score=25.59 Aligned_cols=29 Identities=17% Similarity=-0.094 Sum_probs=19.6
Q ss_pred HHHHHHHhcCchHHhhccCCCCChhhhhhhh
Q 040653 30 IIRLLNLLANRWSLIAGRLPGRTDNENMKSR 60 (228)
Q Consensus 30 Ll~lv~~~G~kWs~IA~~LpGRTd~q~~KnR 60 (228)
++.+.-..|-....||..| |-+...| ++|
T Consensus 114 ii~l~~~~~~s~~EIA~~l-~is~~tV-~~~ 142 (154)
T PRK06759 114 IIFERFFVGKTMGEIALET-EMTYYQV-RWI 142 (154)
T ss_pred HHHHHHhcCCCHHHHHHHH-CCCHHHH-HHH
Confidence 3344444555678888888 7788888 777
No 112
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=25.05 E-value=36 Score=29.35 Aligned_cols=35 Identities=23% Similarity=0.152 Sum_probs=24.9
Q ss_pred hcCchHHhhccCCCCChhhhhhhhccccchhhhHHhh
Q 040653 37 LANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQ 73 (228)
Q Consensus 37 ~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~ 73 (228)
.|-....||..| |.+...| |+|+.+-...|++.+.
T Consensus 164 ~g~s~~EIAe~l-gis~~tV-k~~l~Rar~kLr~~l~ 198 (231)
T PRK11922 164 EELSVEETAQAL-GLPEETV-KTRLHRARRLLRESLA 198 (231)
T ss_pred cCCCHHHHHHHH-CcCHHHH-HHHHHHHHHHHHHHHH
Confidence 445678899888 7888889 9995555555555554
No 113
>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=24.76 E-value=84 Score=19.23 Aligned_cols=33 Identities=21% Similarity=0.151 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhh
Q 040653 26 EDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSR 60 (228)
Q Consensus 26 ED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR 60 (228)
++..++.++-.-|-.+..||..+ |-+...| +.+
T Consensus 14 ~~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i-~~~ 46 (55)
T cd06171 14 REREVILLRFGEGLSYEEIAEIL-GISRSTV-RQR 46 (55)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHH-CcCHHHH-HHH
Confidence 45666667666778899999998 5566666 544
No 114
>smart00595 MADF subfamily of SANT domain.
Probab=24.49 E-value=34 Score=24.83 Aligned_cols=23 Identities=35% Similarity=0.358 Sum_probs=18.8
Q ss_pred chHHhhccCCCCChhhhhhhhccccchh
Q 040653 40 RWSLIAGRLPGRTDNENMKSRIIGAPTL 67 (228)
Q Consensus 40 kWs~IA~~LpGRTd~q~~KnR~~kw~~~ 67 (228)
-|..||..|.. |..+| +.+ |+.+
T Consensus 29 aW~~Ia~~l~~-~~~~~-~~k---w~~L 51 (89)
T smart00595 29 AWEEIAEELGL-SVEEC-KKR---WKNL 51 (89)
T ss_pred HHHHHHHHHCc-CHHHH-HHH---HHHH
Confidence 39999999955 99999 998 6554
No 115
>PRK12513 RNA polymerase sigma factor; Provisional
Probab=23.96 E-value=31 Score=28.47 Aligned_cols=35 Identities=23% Similarity=0.025 Sum_probs=23.4
Q ss_pred hcCchHHhhccCCCCChhhhhhhhccccchhhhHHhh
Q 040653 37 LANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQ 73 (228)
Q Consensus 37 ~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~ 73 (228)
.|-....||..| |-+...| |+|..+-...|++.+.
T Consensus 154 ~g~s~~EIA~~l-gis~~tV-~~~l~ra~~~Lr~~l~ 188 (194)
T PRK12513 154 GDLELEEIAELT-GVPEETV-KSRLRYALQKLRELLA 188 (194)
T ss_pred cCCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHHH
Confidence 345678888888 6777888 8885444555555544
No 116
>TIGR03001 Sig-70_gmx1 RNA polymerase sigma-70 factor, Myxococcales family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in multiple copies in the order Myxococcales. This model supercedes TIGR02233, which has now been retired.
Probab=23.79 E-value=66 Score=28.39 Aligned_cols=42 Identities=10% Similarity=-0.045 Sum_probs=28.3
Q ss_pred HHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhhh
Q 040653 31 IRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQD 74 (228)
Q Consensus 31 l~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~ 74 (228)
+.|+...|-....||..| |-+.+.| |.|+.+=...|++.+..
T Consensus 170 ~~L~~~eg~S~~EIA~~L-gis~~TV-k~rl~RAr~~Lr~~l~~ 211 (244)
T TIGR03001 170 LRLHFVDGLSMDRIGAMY-QVHRSTV-SRWVAQARERLLERTRR 211 (244)
T ss_pred HHHHHHcCCCHHHHHHHH-CcCHHHH-HHHHHHHHHHHHHHHHH
Confidence 333444556789999999 7888889 99865545555555433
No 117
>PRK10137 alpha-glucosidase; Provisional
Probab=23.35 E-value=55 Score=34.41 Aligned_cols=41 Identities=20% Similarity=0.568 Sum_probs=36.8
Q ss_pred HHHhhhccCCCCCCCCCCHHHHHHHHHHHHHhcCchHHhhc
Q 040653 6 RLRWLNYLRPDIKRGNISHDEDELIIRLLNLLANRWSLIAG 46 (228)
Q Consensus 6 r~RW~n~L~P~ikk~~WT~EED~lLl~lv~~~G~kWs~IA~ 46 (228)
++||.+||+-.+....=+++.+++..++.+.+-.+|.--+.
T Consensus 286 ~~rw~~yl~~~l~~~~~~~~~~~l~~kA~~~L~~Nwr~~~g 326 (786)
T PRK10137 286 QQRWEEYLKKGLTNPDATPEQTRVAVKAMETLNGNWRSPAG 326 (786)
T ss_pred HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhcccccc
Confidence 68999999999998889999999999999999999977553
No 118
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=23.11 E-value=63 Score=26.53 Aligned_cols=34 Identities=24% Similarity=0.001 Sum_probs=20.8
Q ss_pred HhcCchHHhhccCCCCChhhhhhhhccccchhhhHH
Q 040653 36 LLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKK 71 (228)
Q Consensus 36 ~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk 71 (228)
..|-.-..||..| |-+...| |.|+.+-...|++.
T Consensus 155 ~~g~s~~EIA~~l-gis~~tV-~~~l~Ra~~~Lr~~ 188 (194)
T PRK12519 155 YEGLSQSEIAKRL-GIPLGTV-KARARQGLLKLREL 188 (194)
T ss_pred hcCCCHHHHHHHh-CCCHHHH-HHHHHHHHHHHHHH
Confidence 3455567788877 6677778 87744333444433
No 119
>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=23.09 E-value=74 Score=25.69 Aligned_cols=29 Identities=21% Similarity=0.280 Sum_probs=19.9
Q ss_pred HHHHHHHhcCchHHhhccCCCCChhhhhhhh
Q 040653 30 IIRLLNLLANRWSLIAGRLPGRTDNENMKSR 60 (228)
Q Consensus 30 Ll~lv~~~G~kWs~IA~~LpGRTd~q~~KnR 60 (228)
++.++...|-....||..| |-|...| +.+
T Consensus 148 vi~l~~~~g~s~~eIA~~l-gis~~~v-~~~ 176 (189)
T TIGR02984 148 VILLRHLEGLSFAEVAERM-DRSEGAV-SML 176 (189)
T ss_pred HHHHHHhcCCCHHHHHHHH-CcCHHHH-HHH
Confidence 3444444566678888888 7777878 777
No 120
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=22.76 E-value=82 Score=24.98 Aligned_cols=42 Identities=17% Similarity=0.106 Sum_probs=26.8
Q ss_pred HHHHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHh
Q 040653 28 ELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 28 ~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
+.++.+.. .|-.-..||..| |-+...| ++|+.+=...|++.+
T Consensus 118 r~il~l~~-~g~s~~eIA~~l-gis~~tV-~~~i~ra~~~Lr~~l 159 (166)
T PRK09639 118 RTVLLLRF-SGYSYKEIAEAL-GIKESSV-GTTLARAKKKFRKIY 159 (166)
T ss_pred HHHHHHHH-cCCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHH
Confidence 34444444 566678888888 7888888 888544444444443
No 121
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=22.52 E-value=1.6e+02 Score=24.55 Aligned_cols=43 Identities=19% Similarity=0.181 Sum_probs=32.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhcCchHHhhccCC----CCChhhhhhhh
Q 040653 17 IKRGNISHDEDELIIRLLNLLANRWSLIAGRLP----GRTDNENMKSR 60 (228)
Q Consensus 17 ikk~~WT~EED~lLl~lv~~~G~kWs~IA~~Lp----GRTd~q~~KnR 60 (228)
-....-|+.|-..|..|+.+||..+..+|.-.. =.|..|| +.+
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~ql-rrk 158 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQL-RRK 158 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHH-HHH
Confidence 345578999999999999999999998887532 2566666 555
No 122
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=22.44 E-value=87 Score=26.35 Aligned_cols=37 Identities=16% Similarity=-0.052 Sum_probs=23.3
Q ss_pred HHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHH
Q 040653 33 LLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKK 71 (228)
Q Consensus 33 lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk 71 (228)
+....|-.-..||..| |.+.+.| |.|+.+=...|++.
T Consensus 164 l~~~~g~s~~EIA~~l-gis~~tV-~~~l~Ra~~~Lr~~ 200 (206)
T PRK12526 164 GVYFQELSQEQLAQQL-NVPLGTV-KSRLRLALAKLKVQ 200 (206)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHH
Confidence 3333455678889888 7888888 88843333334333
No 123
>TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot: SIGM_BACSU) and is activated by various stressors.
Probab=22.36 E-value=26 Score=27.47 Aligned_cols=22 Identities=23% Similarity=0.129 Sum_probs=17.1
Q ss_pred cCchHHhhccCCCCChhhhhhhhc
Q 040653 38 ANRWSLIAGRLPGRTDNENMKSRI 61 (228)
Q Consensus 38 G~kWs~IA~~LpGRTd~q~~KnR~ 61 (228)
|-.+..||..| |=+...| ++|+
T Consensus 121 g~s~~eIA~~l-gis~~tv-~~~l 142 (154)
T TIGR02950 121 EFSYKEIAELL-NLSLAKV-KSNL 142 (154)
T ss_pred cCcHHHHHHHH-CCCHHHH-HHHH
Confidence 45688999988 7778888 8883
No 124
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=22.24 E-value=77 Score=26.41 Aligned_cols=34 Identities=21% Similarity=0.230 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhhh
Q 040653 25 DEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKSR 60 (228)
Q Consensus 25 EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR 60 (228)
++...++++..--|-.+..||..| |-+...| +.|
T Consensus 138 ~~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV-~r~ 171 (185)
T PF07638_consen 138 PRQRRVVELRFFEGLSVEEIAERL-GISERTV-RRR 171 (185)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHH-CcCHHHH-HHH
Confidence 455666777667788999999999 8888889 888
No 125
>PRK09644 RNA polymerase sigma factor SigM; Provisional
Probab=22.22 E-value=87 Score=25.04 Aligned_cols=38 Identities=18% Similarity=0.081 Sum_probs=23.9
Q ss_pred HHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHh
Q 040653 33 LLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKL 72 (228)
Q Consensus 33 lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~ 72 (228)
+....|-.-..||..| |-+...+ |.|+.+-...|++.+
T Consensus 119 l~~~~g~s~~eIA~~l-gis~~tv-~~~l~Rar~~Lr~~l 156 (165)
T PRK09644 119 LCDVHELTYEEAASVL-DLKLNTY-KSHLFRGRKRLKALL 156 (165)
T ss_pred hHHHhcCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHH
Confidence 3334555668888888 6688888 888544444444443
No 126
>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=22.00 E-value=99 Score=22.67 Aligned_cols=32 Identities=13% Similarity=0.225 Sum_probs=21.4
Q ss_pred HHHHHHHHhc--------CchHHhhccCCC---CCh--hhhhhhhc
Q 040653 29 LIIRLLNLLA--------NRWSLIAGRLPG---RTD--NENMKSRI 61 (228)
Q Consensus 29 lLl~lv~~~G--------~kWs~IA~~LpG---RTd--~q~~KnR~ 61 (228)
.|-.+|..+| ++|..||..|.. -+. .++ |..|
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L-~~~Y 84 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQL-RQHY 84 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHH-HHHH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHH-HHHH
Confidence 5677788887 369999999732 222 345 7773
No 127
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=21.83 E-value=75 Score=26.20 Aligned_cols=33 Identities=30% Similarity=0.329 Sum_probs=22.7
Q ss_pred HHHHHHHHHHhcCchHHhhccCCCCChhhhhhhhc
Q 040653 27 DELIIRLLNLLANRWSLIAGRLPGRTDNENMKSRI 61 (228)
Q Consensus 27 D~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~ 61 (228)
+..++.|...-|-.-..||..| |.|...| ++|.
T Consensus 136 ~r~i~~l~~~~g~s~~EIAe~l-gis~~~V-~~~l 168 (189)
T PRK06811 136 DREIFIRRYLLGEKIEEIAKKL-GLTRSAI-DNRL 168 (189)
T ss_pred HHHHHHHHHHccCCHHHHHHHH-CCCHHHH-HHHH
Confidence 3444444444456678899888 7888888 8883
No 128
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=21.82 E-value=95 Score=23.06 Aligned_cols=34 Identities=18% Similarity=0.212 Sum_probs=22.9
Q ss_pred HHHHHHHHhcC--------chHHhhccCCCC-----Chhhhhhhhccc
Q 040653 29 LIIRLLNLLAN--------RWSLIAGRLPGR-----TDNENMKSRIIG 63 (228)
Q Consensus 29 lLl~lv~~~G~--------kWs~IA~~LpGR-----Td~q~~KnR~~k 63 (228)
.|..+|.++|+ +|..||..|.-. ...++ |..|.+
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~l-k~~Y~k 82 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSL-RKHYER 82 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHH-HHHHHH
Confidence 47778888884 699999987432 23445 777433
No 129
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.79 E-value=24 Score=25.76 Aligned_cols=11 Identities=55% Similarity=1.147 Sum_probs=9.4
Q ss_pred eEEEecccccC
Q 040653 218 ICVYCEDRLAI 228 (228)
Q Consensus 218 ~~~~~~~~~~~ 228 (228)
.|.-|++|+||
T Consensus 33 mC~eC~~Rva~ 43 (68)
T COG4896 33 MCPECEHRVAI 43 (68)
T ss_pred echhhHhhhch
Confidence 68899999986
No 130
>PRK12535 RNA polymerase sigma factor; Provisional
Probab=21.70 E-value=94 Score=26.09 Aligned_cols=38 Identities=13% Similarity=-0.038 Sum_probs=24.9
Q ss_pred HhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhhhc
Q 040653 36 LLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQDH 75 (228)
Q Consensus 36 ~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~~~ 75 (228)
..|-.-..||..| |.+.+.| |+|+.+=...|++.+...
T Consensus 147 ~~g~s~~EIAe~l-gis~~tV-~~~l~Rar~~Lr~~l~~~ 184 (196)
T PRK12535 147 VLGYTYEEAAKIA-DVRVGTI-RSRVARARADLIAATATG 184 (196)
T ss_pred HhCCCHHHHHHHh-CCCHHHH-HHHHHHHHHHHHHHhccc
Confidence 3445678888888 7888889 998544444555544443
No 131
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=21.55 E-value=72 Score=26.33 Aligned_cols=30 Identities=23% Similarity=0.160 Sum_probs=22.5
Q ss_pred HHHHHHHHhcCchHHhhccCCCCChhhhhhhh
Q 040653 29 LIIRLLNLLANRWSLIAGRLPGRTDNENMKSR 60 (228)
Q Consensus 29 lLl~lv~~~G~kWs~IA~~LpGRTd~q~~KnR 60 (228)
.++.|....|-.-..||..| |-+...| |.|
T Consensus 137 ~v~~L~~~~g~s~~EIA~~l-gis~~tV-k~~ 166 (185)
T PRK09649 137 EALLLTQLLGLSYADAAAVC-GCPVGTI-RSR 166 (185)
T ss_pred HHhhhHHHcCCCHHHHHHHH-CCCHHHH-HHH
Confidence 34444445666789999999 7888889 998
No 132
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=21.44 E-value=66 Score=20.72 Aligned_cols=33 Identities=30% Similarity=0.282 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHhcCchHHhhccCCCCChhhhhhh
Q 040653 24 HDEDELIIRLLNLLANRWSLIAGRLPGRTDNENMKS 59 (228)
Q Consensus 24 ~EED~lLl~lv~~~G~kWs~IA~~LpGRTd~q~~Kn 59 (228)
.++=..++.++.+ |.....||..| |-+...| .+
T Consensus 4 ~~~R~~ii~l~~~-G~s~~~ia~~l-gvs~~Tv-~~ 36 (50)
T PF13384_consen 4 EERRAQIIRLLRE-GWSIREIAKRL-GVSRSTV-YR 36 (50)
T ss_dssp ------HHHHHHH-T--HHHHHHHH-TS-HHHH-HH
T ss_pred hhHHHHHHHHHHC-CCCHHHHHHHH-CcCHHHH-HH
Confidence 3444567777777 99999999999 6777777 44
No 133
>PRK12544 RNA polymerase sigma factor; Provisional
Probab=21.00 E-value=89 Score=26.55 Aligned_cols=38 Identities=8% Similarity=-0.055 Sum_probs=25.7
Q ss_pred HHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhh
Q 040653 34 LNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQ 73 (228)
Q Consensus 34 v~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~ 73 (228)
+.-.|-.-..||..| |-|.+.| |+|+.+=...|++.+.
T Consensus 160 ~~~~g~s~~EIAe~l-gis~~tV-~~~l~RAr~~Lr~~l~ 197 (206)
T PRK12544 160 REFIELETNEICHAV-DLSVSNL-NVLLYRARLRLRECLE 197 (206)
T ss_pred HHHcCCCHHHHHHHH-CcCHHHH-HHHHHHHHHHHHHHHH
Confidence 333455678999999 7888889 9985544455555444
No 134
>PF14867 Lantibiotic_a: Lantibiotic alpha; PDB: 2KTN_A.
Probab=20.65 E-value=33 Score=21.75 Aligned_cols=20 Identities=25% Similarity=0.669 Sum_probs=7.3
Q ss_pred HHHHhhcceeecCCCCeEEE
Q 040653 202 TYIWVLHMNYINNDGSICVY 221 (228)
Q Consensus 202 ~~~~~~~~~~~~~~~~~~~~ 221 (228)
...|+..+.+.-|||.+|.+
T Consensus 4 ~~~~~~lS~~lGN~G~~CT~ 23 (32)
T PF14867_consen 4 SCTWFNLSCVLGNKGYVCTY 23 (32)
T ss_dssp ----TTS--SSSS---S---
T ss_pred cccEEEEEEEeccCCCEEeE
Confidence 34677889999999999975
No 135
>PRK07037 extracytoplasmic-function sigma-70 factor; Validated
Probab=20.36 E-value=1.1e+02 Score=24.14 Aligned_cols=23 Identities=22% Similarity=0.056 Sum_probs=14.4
Q ss_pred HhcCchHHhhccCCCCChhhhhhhh
Q 040653 36 LLANRWSLIAGRLPGRTDNENMKSR 60 (228)
Q Consensus 36 ~~G~kWs~IA~~LpGRTd~q~~KnR 60 (228)
..|-.=..||..| |-+...| +.+
T Consensus 123 ~~~~s~~EIA~~l-gis~~tV-~~~ 145 (163)
T PRK07037 123 LHGETQKDIAREL-GVSPTLV-NFM 145 (163)
T ss_pred HcCCCHHHHHHHH-CCCHHHH-HHH
Confidence 3445567777776 5666666 666
No 136
>PRK12543 RNA polymerase sigma factor; Provisional
Probab=20.35 E-value=98 Score=25.20 Aligned_cols=42 Identities=31% Similarity=0.088 Sum_probs=26.0
Q ss_pred HHHHHHHhcCchHHhhccCCCCChhhhhhhhccccchhhhHHhh
Q 040653 30 IIRLLNLLANRWSLIAGRLPGRTDNENMKSRIIGAPTLENKKLQ 73 (228)
Q Consensus 30 Ll~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~~kw~~~l~kk~~ 73 (228)
++.+....|-.-..||..| |-+...| |+|+.+-...|++.+.
T Consensus 125 i~~l~~~e~~s~~EIA~~l-gis~~tV-~~~l~ra~~~Lr~~l~ 166 (179)
T PRK12543 125 VIILRYLHDYSQEEIAQLL-QIPIGTV-KSRIHAALKKLRQKEQ 166 (179)
T ss_pred HHHHHHHccCCHHHHHHHH-CCCHHHH-HHHHHHHHHHHHHHHH
Confidence 3444444555678888888 6777778 8885544555554443
No 137
>PRK12534 RNA polymerase sigma factor; Provisional
Probab=20.04 E-value=98 Score=25.22 Aligned_cols=28 Identities=21% Similarity=0.104 Sum_probs=19.2
Q ss_pred HHHHHhcCchHHhhccCCCCChhhhhhhhc
Q 040653 32 RLLNLLANRWSLIAGRLPGRTDNENMKSRI 61 (228)
Q Consensus 32 ~lv~~~G~kWs~IA~~LpGRTd~q~~KnR~ 61 (228)
.+....|-....||..| |=+...| ++|.
T Consensus 147 ~l~~~~g~s~~eIA~~l-gis~~~v-~~~l 174 (187)
T PRK12534 147 RTAFFEGITYEELAART-DTPIGTV-KSWI 174 (187)
T ss_pred HHHHHcCCCHHHHHHHh-CCChhHH-HHHH
Confidence 34444566788888888 6667777 7773
Done!