Query 031483
Match_columns 159
No_of_seqs 219 out of 1644
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 14:45:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031483.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031483hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0048 Transcription factor, 99.8 4.5E-21 9.7E-26 156.8 5.2 61 1-61 53-113 (238)
2 PLN03212 Transcription repress 99.8 1.1E-20 2.4E-25 154.5 5.5 60 1-60 69-128 (249)
3 PLN03091 hypothetical protein; 99.7 5.5E-18 1.2E-22 147.9 6.2 60 1-60 58-117 (459)
4 PLN03212 Transcription repress 99.7 3.9E-17 8.5E-22 133.7 5.4 61 5-65 20-82 (249)
5 PF13921 Myb_DNA-bind_6: Myb-l 99.6 2.8E-16 6E-21 102.5 5.7 59 13-90 1-59 (60)
6 KOG0048 Transcription factor, 99.6 2.4E-16 5.2E-21 129.0 5.4 70 5-93 4-75 (238)
7 PF00249 Myb_DNA-binding: Myb- 99.6 7.5E-16 1.6E-20 96.7 4.6 46 10-55 1-48 (48)
8 PLN03091 hypothetical protein; 99.6 1.6E-15 3.6E-20 132.5 5.6 70 5-93 9-80 (459)
9 smart00717 SANT SANT SWI3, AD 99.5 1.1E-13 2.4E-18 84.6 5.7 47 10-56 1-48 (49)
10 cd00167 SANT 'SWI3, ADA2, N-Co 99.4 1.4E-12 3E-17 78.6 5.3 44 12-55 1-45 (45)
11 KOG0049 Transcription factor, 99.3 2.3E-12 4.9E-17 117.1 4.9 63 3-65 353-416 (939)
12 COG5147 REB1 Myb superfamily p 98.6 3.9E-08 8.5E-13 88.4 4.5 59 2-60 64-122 (512)
13 KOG0049 Transcription factor, 98.5 3.6E-08 7.9E-13 90.2 2.2 79 2-100 245-325 (939)
14 KOG0051 RNA polymerase I termi 98.5 1.3E-07 2.9E-12 86.1 4.5 50 9-59 383-432 (607)
15 COG5147 REB1 Myb superfamily p 98.4 6.8E-08 1.5E-12 86.9 1.7 71 7-96 17-88 (512)
16 KOG0050 mRNA splicing protein 98.4 1.1E-07 2.3E-12 85.2 1.7 59 8-66 5-64 (617)
17 KOG0050 mRNA splicing protein 98.2 9.5E-07 2E-11 79.2 2.6 57 3-60 52-108 (617)
18 TIGR01557 myb_SHAQKYF myb-like 98.1 1.2E-05 2.7E-10 52.4 6.0 48 9-56 2-55 (57)
19 KOG0457 Histone acetyltransfer 97.9 1.8E-05 3.9E-10 69.7 5.6 53 7-59 69-123 (438)
20 TIGR02894 DNA_bind_RsfA transc 97.7 2.5E-05 5.3E-10 60.8 2.8 51 8-59 2-59 (161)
21 PF08914 Myb_DNA-bind_2: Rap1 97.6 9.6E-05 2.1E-09 49.4 3.7 50 10-59 2-61 (65)
22 PF13837 Myb_DNA-bind_4: Myb/S 97.3 0.00013 2.9E-09 50.2 2.4 54 10-63 1-72 (90)
23 COG5259 RSC8 RSC chromatin rem 97.3 0.00032 7E-09 62.6 4.3 46 9-54 278-323 (531)
24 KOG1279 Chromatin remodeling f 97.2 0.00049 1.1E-08 62.3 5.0 48 8-55 251-298 (506)
25 COG5114 Histone acetyltransfer 96.7 0.0017 3.7E-08 55.9 3.6 49 8-56 61-110 (432)
26 PF13873 Myb_DNA-bind_5: Myb/S 96.5 0.0038 8.2E-08 42.1 3.8 47 10-56 2-70 (78)
27 PRK13923 putative spore coat p 96.5 0.0015 3.3E-08 51.4 2.0 51 8-59 3-60 (170)
28 PF09111 SLIDE: SLIDE; InterP 96.1 0.007 1.5E-07 45.0 3.7 51 7-57 46-112 (118)
29 KOG0051 RNA polymerase I termi 95.7 0.0099 2.2E-07 54.8 3.6 61 2-62 426-514 (607)
30 PF13921 Myb_DNA-bind_6: Myb-l 95.1 0.015 3.3E-07 37.1 2.1 20 2-21 41-60 (60)
31 PF12776 Myb_DNA-bind_3: Myb/S 94.3 0.099 2.1E-06 36.1 4.7 46 12-57 1-64 (96)
32 PLN03142 Probable chromatin-re 93.3 0.12 2.7E-06 50.6 5.0 53 6-58 922-987 (1033)
33 KOG2656 DNA methyltransferase 93.0 0.094 2E-06 46.3 3.1 55 9-63 129-189 (445)
34 KOG4282 Transcription factor G 91.9 0.24 5.1E-06 42.4 4.3 49 11-59 55-117 (345)
35 COG5118 BDP1 Transcription ini 91.1 0.33 7.2E-06 42.9 4.4 46 11-56 366-411 (507)
36 PF08281 Sigma70_r4_2: Sigma-7 90.6 0.42 9.1E-06 29.6 3.4 40 15-55 12-51 (54)
37 PF13325 MCRS_N: N-terminal re 90.0 0.88 1.9E-05 36.8 5.7 51 9-59 72-130 (199)
38 KOG1194 Predicted DNA-binding 84.4 1.8 3.9E-05 39.1 4.8 45 10-54 187-231 (534)
39 PF11626 Rap1_C: TRF2-interact 80.0 2 4.3E-05 29.8 2.8 16 6-21 43-58 (87)
40 PF01388 ARID: ARID/BRIGHT DNA 77.8 4 8.7E-05 28.0 3.8 38 20-57 40-90 (92)
41 PF13404 HTH_AsnC-type: AsnC-t 76.8 5.3 0.00011 24.0 3.7 38 16-54 3-41 (42)
42 KOG4167 Predicted DNA-binding 76.4 4.5 9.8E-05 38.7 4.8 45 10-54 619-663 (907)
43 PF04545 Sigma70_r4: Sigma-70, 76.2 4.3 9.4E-05 24.6 3.3 40 16-56 7-46 (50)
44 KOG4468 Polycomb-group transcr 75.6 3.5 7.6E-05 38.6 3.8 49 10-58 88-146 (782)
45 PF13325 MCRS_N: N-terminal re 74.9 5.9 0.00013 32.0 4.5 81 12-93 1-86 (199)
46 smart00501 BRIGHT BRIGHT, ARID 74.5 5 0.00011 27.8 3.6 38 20-57 36-86 (93)
47 smart00595 MADF subfamily of S 74.0 2.5 5.4E-05 28.6 2.0 23 32-55 30-52 (89)
48 KOG2009 Transcription initiati 72.0 5.6 0.00012 37.0 4.2 50 6-55 405-454 (584)
49 PF07750 GcrA: GcrA cell cycle 70.6 4.9 0.00011 31.2 3.1 41 12-53 2-42 (162)
50 PRK11179 DNA-binding transcrip 70.1 8.9 0.00019 28.9 4.4 43 16-59 9-52 (153)
51 TIGR02985 Sig70_bacteroi1 RNA 68.5 8.4 0.00018 27.9 3.9 38 17-55 117-154 (161)
52 cd08319 Death_RAIDD Death doma 66.0 7.8 0.00017 26.9 3.0 29 18-47 2-30 (83)
53 PRK11169 leucine-responsive tr 63.7 10 0.00022 28.9 3.6 44 15-59 13-57 (164)
54 PF11035 SnAPC_2_like: Small n 61.5 22 0.00048 30.9 5.5 51 3-53 14-68 (344)
55 cd08803 Death_ank3 Death domai 60.9 12 0.00026 25.9 3.3 29 18-47 4-32 (84)
56 PF10545 MADF_DNA_bdg: Alcohol 60.1 6.4 0.00014 25.8 1.7 26 31-56 28-54 (85)
57 cd08317 Death_ank Death domain 56.1 11 0.00025 25.6 2.5 29 18-47 4-32 (84)
58 KOG4329 DNA-binding protein [G 55.6 28 0.00061 31.0 5.2 44 11-54 278-322 (445)
59 PF09420 Nop16: Ribosome bioge 55.5 43 0.00093 25.7 5.9 48 8-55 112-163 (164)
60 PRK09652 RNA polymerase sigma 52.9 20 0.00043 26.5 3.6 35 19-54 134-168 (182)
61 PRK09643 RNA polymerase sigma 52.0 21 0.00046 27.5 3.7 38 16-54 137-174 (192)
62 cd08804 Death_ank2 Death domai 51.2 18 0.00039 24.9 2.8 31 18-49 4-34 (84)
63 TIGR02937 sigma70-ECF RNA poly 51.0 22 0.00048 24.9 3.4 38 17-55 114-151 (158)
64 PRK11924 RNA polymerase sigma 49.3 23 0.00051 26.1 3.4 35 19-54 131-165 (179)
65 PF07638 Sigma70_ECF: ECF sigm 47.9 30 0.00064 26.7 3.9 38 16-54 138-175 (185)
66 smart00344 HTH_ASNC helix_turn 47.4 45 0.00097 23.0 4.5 43 16-59 3-46 (108)
67 PRK09641 RNA polymerase sigma 47.2 27 0.00058 26.2 3.5 35 20-55 143-177 (187)
68 cd08318 Death_NMPP84 Death dom 46.8 24 0.00053 24.2 2.9 25 22-47 11-35 (86)
69 PRK12523 RNA polymerase sigma 45.2 33 0.00072 25.7 3.8 39 18-57 124-162 (172)
70 cd06171 Sigma70_r4 Sigma70, re 44.4 44 0.00096 19.0 3.5 39 13-53 11-49 (55)
71 PRK09047 RNA polymerase factor 44.4 38 0.00082 24.7 3.9 33 22-55 115-147 (161)
72 PF10440 WIYLD: Ubiquitin-bind 43.2 19 0.00041 24.0 1.8 18 20-37 31-48 (65)
73 cd08777 Death_RIP1 Death Domai 42.8 26 0.00056 24.3 2.6 29 20-49 4-32 (86)
74 PF13936 HTH_38: Helix-turn-he 42.7 21 0.00046 21.4 1.9 38 11-50 3-40 (44)
75 PRK12530 RNA polymerase sigma 42.3 37 0.00081 26.0 3.7 33 22-55 143-175 (189)
76 PRK12529 RNA polymerase sigma 42.2 40 0.00086 25.6 3.8 40 18-58 132-171 (178)
77 TIGR02948 SigW_bacill RNA poly 40.8 35 0.00076 25.6 3.3 27 28-55 151-177 (187)
78 TIGR02954 Sig70_famx3 RNA poly 40.5 40 0.00086 25.1 3.5 38 18-56 124-161 (169)
79 cd08805 Death_ank1 Death domai 40.4 33 0.00071 23.8 2.8 22 18-39 4-25 (84)
80 TIGR02939 RpoE_Sigma70 RNA pol 40.3 30 0.00065 26.0 2.8 27 28-55 153-179 (190)
81 PRK12531 RNA polymerase sigma 40.3 43 0.00094 25.7 3.8 35 21-56 149-183 (194)
82 PRK09645 RNA polymerase sigma 40.1 44 0.00094 24.9 3.7 36 19-55 124-159 (173)
83 PRK09642 RNA polymerase sigma 39.9 47 0.001 24.4 3.8 34 20-54 113-146 (160)
84 PRK12512 RNA polymerase sigma 39.4 46 0.00099 25.1 3.7 39 17-56 135-173 (184)
85 PRK12527 RNA polymerase sigma 39.3 50 0.0011 24.2 3.9 39 17-56 109-147 (159)
86 TIGR02943 Sig70_famx1 RNA poly 39.2 48 0.001 25.4 3.9 34 21-55 139-172 (188)
87 COG2963 Transposase and inacti 38.3 86 0.0019 22.1 4.8 46 10-56 5-51 (116)
88 PRK04217 hypothetical protein; 38.2 85 0.0019 22.9 4.8 43 11-55 41-83 (110)
89 PRK09648 RNA polymerase sigma 37.9 50 0.0011 25.1 3.7 37 18-55 144-180 (189)
90 PRK11923 algU RNA polymerase s 37.9 43 0.00093 25.5 3.4 27 27-54 152-178 (193)
91 PRK09637 RNA polymerase sigma 37.8 47 0.001 25.4 3.6 38 17-55 110-147 (181)
92 smart00005 DEATH DEATH domain, 37.7 35 0.00077 22.7 2.6 30 17-47 4-34 (88)
93 cd08311 Death_p75NR Death doma 37.4 31 0.00068 23.4 2.3 33 15-49 2-34 (77)
94 PRK09651 RNA polymerase sigma 36.3 42 0.00091 25.2 3.1 36 20-56 126-161 (172)
95 cd08779 Death_PIDD Death Domai 36.2 33 0.00071 23.6 2.2 21 19-39 3-23 (86)
96 PF02954 HTH_8: Bacterial regu 36.2 72 0.0016 18.7 3.5 34 16-50 5-38 (42)
97 PRK12514 RNA polymerase sigma 35.8 54 0.0012 24.6 3.6 34 21-55 137-170 (179)
98 PRK12515 RNA polymerase sigma 35.6 57 0.0012 24.8 3.8 36 19-55 137-172 (189)
99 PRK12528 RNA polymerase sigma 34.9 62 0.0013 23.8 3.8 37 19-56 119-155 (161)
100 PRK13919 putative RNA polymera 34.4 60 0.0013 24.4 3.7 28 27-55 149-176 (186)
101 PRK09649 RNA polymerase sigma 34.4 55 0.0012 25.0 3.5 36 20-56 137-172 (185)
102 PF08109 Antimicrobial14: Lact 34.4 10 0.00023 21.1 -0.4 10 147-156 7-16 (31)
103 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 34.2 66 0.0014 20.2 3.2 35 16-51 7-41 (50)
104 TIGR02999 Sig-70_X6 RNA polyme 33.3 66 0.0014 24.1 3.7 35 20-55 141-175 (183)
105 PRK06759 RNA polymerase factor 32.4 71 0.0015 23.1 3.7 36 20-56 113-148 (154)
106 PRK12545 RNA polymerase sigma 32.4 65 0.0014 25.0 3.7 27 27-54 153-179 (201)
107 TIGR02952 Sig70_famx2 RNA poly 32.4 68 0.0015 23.5 3.6 32 22-54 131-162 (170)
108 PRK12536 RNA polymerase sigma 32.1 69 0.0015 24.2 3.7 37 18-55 134-170 (181)
109 PLN03162 golden-2 like transcr 32.0 1.4E+02 0.003 26.8 5.9 46 9-54 236-286 (526)
110 cd08306 Death_FADD Fas-associa 32.0 59 0.0013 22.3 3.0 30 19-49 3-32 (86)
111 PRK12532 RNA polymerase sigma 31.6 66 0.0014 24.5 3.6 29 24-53 147-175 (195)
112 PRK12516 RNA polymerase sigma 31.5 70 0.0015 24.6 3.7 38 17-55 120-157 (187)
113 PRK01905 DNA-binding protein F 30.8 1.1E+02 0.0024 20.4 4.1 37 14-51 35-71 (77)
114 PRK12520 RNA polymerase sigma 30.6 76 0.0017 24.1 3.7 28 27-55 145-172 (191)
115 PRK12537 RNA polymerase sigma 30.0 75 0.0016 24.0 3.6 34 22-56 142-175 (182)
116 TIGR02983 SigE-fam_strep RNA p 29.9 75 0.0016 23.2 3.5 40 16-56 113-152 (162)
117 PRK05602 RNA polymerase sigma 29.8 71 0.0015 24.1 3.4 37 17-54 132-168 (186)
118 PRK12524 RNA polymerase sigma 29.7 78 0.0017 24.2 3.7 34 20-54 143-176 (196)
119 PRK12542 RNA polymerase sigma 29.4 81 0.0018 23.8 3.7 34 21-55 130-163 (185)
120 TIGR02960 SigX5 RNA polymerase 28.8 73 0.0016 26.4 3.6 29 26-55 155-183 (324)
121 TIGR02950 SigM_subfam RNA poly 28.7 26 0.00055 25.5 0.7 26 29-55 121-146 (154)
122 COG1522 Lrp Transcriptional re 28.6 1.1E+02 0.0023 22.3 4.1 43 16-59 8-51 (154)
123 PLN03142 Probable chromatin-re 28.4 87 0.0019 31.4 4.5 45 11-55 825-870 (1033)
124 PRK12547 RNA polymerase sigma 28.3 92 0.002 23.1 3.8 36 19-55 118-153 (164)
125 TIGR02984 Sig-70_plancto1 RNA 28.2 87 0.0019 23.4 3.6 33 22-55 149-181 (189)
126 PF09905 DUF2132: Uncharacteri 27.4 60 0.0013 21.6 2.2 23 18-42 12-34 (64)
127 PRK00118 putative DNA-binding 26.8 1E+02 0.0023 22.2 3.6 39 15-54 19-57 (104)
128 PRK09646 RNA polymerase sigma 26.6 96 0.0021 23.7 3.7 36 19-55 148-183 (194)
129 PF12091 DUF3567: Protein of u 26.0 21 0.00046 25.1 -0.1 15 144-158 62-76 (85)
130 cd01670 Death Death Domain: a 26.0 64 0.0014 20.9 2.2 20 21-40 2-21 (79)
131 PRK06811 RNA polymerase factor 26.0 1E+02 0.0022 23.4 3.7 39 16-55 134-172 (189)
132 PRK11922 RNA polymerase sigma 25.6 48 0.001 26.4 1.9 27 28-55 164-190 (231)
133 PRK15411 rcsA colanic acid cap 25.6 1.7E+02 0.0036 23.0 4.9 43 12-57 137-179 (207)
134 PRK09415 RNA polymerase factor 25.4 90 0.002 23.5 3.3 34 21-55 135-168 (179)
135 PRK00430 fis global DNA-bindin 25.3 1.6E+02 0.0034 20.7 4.2 34 16-50 55-88 (95)
136 COG5352 Uncharacterized protei 24.7 66 0.0014 24.9 2.3 38 12-50 2-39 (169)
137 PRK09639 RNA polymerase sigma 24.4 1.1E+02 0.0024 22.4 3.6 36 18-55 117-152 (166)
138 PRK12526 RNA polymerase sigma 24.4 1.1E+02 0.0024 23.7 3.7 29 27-56 167-195 (206)
139 PRK06986 fliA flagellar biosyn 24.2 98 0.0021 24.6 3.4 37 19-56 190-226 (236)
140 PRK12546 RNA polymerase sigma 24.2 99 0.0022 23.8 3.4 37 17-54 117-153 (188)
141 PRK12544 RNA polymerase sigma 24.1 1.2E+02 0.0025 23.8 3.8 27 28-55 163-189 (206)
142 PRK09636 RNA polymerase sigma 24.0 1.1E+02 0.0024 25.2 3.8 28 27-55 129-156 (293)
143 PF00531 Death: Death domain; 23.6 1.1E+02 0.0024 19.7 3.1 23 25-48 8-30 (83)
144 PRK10100 DNA-binding transcrip 23.3 1.2E+02 0.0027 24.1 3.8 43 12-57 155-197 (216)
145 PRK12519 RNA polymerase sigma 23.3 92 0.002 23.6 3.0 30 24-54 152-181 (194)
146 PRK15201 fimbriae regulatory p 23.2 1.5E+02 0.0032 24.0 4.1 43 12-57 133-175 (198)
147 PRK09647 RNA polymerase sigma 23.2 1.2E+02 0.0027 23.6 3.8 28 27-55 152-179 (203)
148 PRK09638 RNA polymerase sigma 23.0 46 0.001 24.8 1.3 30 24-54 137-166 (176)
149 PF04504 DUF573: Protein of un 22.9 1.1E+02 0.0024 21.6 3.1 19 10-28 4-22 (98)
150 PRK10360 DNA-binding transcrip 22.6 1.5E+02 0.0033 21.6 4.1 44 11-57 136-179 (196)
151 COG2197 CitB Response regulato 22.5 1.4E+02 0.003 23.6 4.0 44 12-58 148-191 (211)
152 PF05263 DUF722: Protein of un 22.3 93 0.002 23.4 2.7 32 17-49 85-118 (130)
153 TIGR02989 Sig-70_gvs1 RNA poly 22.1 1.4E+02 0.003 21.6 3.7 31 22-53 120-150 (159)
154 PRK12538 RNA polymerase sigma 21.7 1E+02 0.0023 24.7 3.1 33 22-55 180-212 (233)
155 KOG0384 Chromodomain-helicase 20.9 83 0.0018 32.2 2.7 27 10-36 1133-1160(1373)
156 TIGR02957 SigX4 RNA polymerase 20.9 1.4E+02 0.0029 24.6 3.7 29 26-55 121-149 (281)
157 PRK08241 RNA polymerase factor 20.8 1.1E+02 0.0025 25.5 3.3 28 28-56 168-195 (339)
158 TIGR02959 SigZ RNA polymerase 20.2 1.6E+02 0.0035 21.9 3.8 36 18-54 105-140 (170)
No 1
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.83 E-value=4.5e-21 Score=156.85 Aligned_cols=61 Identities=69% Similarity=1.200 Sum_probs=58.8
Q ss_pred CCcCCCCCCCCCCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhccccCC
Q 031483 1 MNYLSPNVNRGNFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLSKKLGI 61 (159)
Q Consensus 1 ~NyL~P~lkk~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~~~~~~ 61 (159)
+|||+|+|+||.||+|||++|+++|..+|++|+.||++|||||+|.|||+|+..|++++..
T Consensus 53 ~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrWs~IA~~LPGRTDNeIKN~Wnt~lkkkl~~ 113 (238)
T KOG0048|consen 53 TNYLRPDLKRGNFSDEEEDLIIKLHALLGNRWSLIAGRLPGRTDNEVKNHWNTHLKKKLLK 113 (238)
T ss_pred hcccCCCccCCCCCHHHHHHHHHHHHHHCcHHHHHHhhCCCcCHHHHHHHHHHHHHHHHHH
Confidence 6999999999999999999999999999999999999999999999999999999998743
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.82 E-value=1.1e-20 Score=154.50 Aligned_cols=60 Identities=70% Similarity=1.276 Sum_probs=57.7
Q ss_pred CCcCCCCCCCCCCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhccccC
Q 031483 1 MNYLSPNVNRGNFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLSKKLG 60 (159)
Q Consensus 1 ~NyL~P~lkk~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~~~~~ 60 (159)
+|||+|.+++++||.|||++|++++..||++|+.||++|||||+++|||||+.++++++.
T Consensus 69 ~N~L~P~I~kgpWT~EED~lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~ 128 (249)
T PLN03212 69 MNYLRPSVKRGGITSDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLL 128 (249)
T ss_pred HHhhchhcccCCCChHHHHHHHHHHHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHH
Confidence 489999999999999999999999999999999999999999999999999999998864
No 3
>PLN03091 hypothetical protein; Provisional
Probab=99.72 E-value=5.5e-18 Score=147.90 Aligned_cols=60 Identities=58% Similarity=1.124 Sum_probs=57.4
Q ss_pred CCcCCCCCCCCCCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhccccC
Q 031483 1 MNYLSPNVNRGNFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLSKKLG 60 (159)
Q Consensus 1 ~NyL~P~lkk~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~~~~~ 60 (159)
+|||+|.|++++||+|||++|+++|.+||++|++||++|||||+++|||||+.++++++.
T Consensus 58 ~NyLdP~IkKgpWT~EED~lLLeL~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr 117 (459)
T PLN03091 58 INYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLR 117 (459)
T ss_pred HhccCCcccCCCCCHHHHHHHHHHHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 489999999999999999999999999999999999999999999999999999988653
No 4
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.68 E-value=3.9e-17 Score=133.72 Aligned_cols=61 Identities=26% Similarity=0.433 Sum_probs=55.0
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhC-CCchhhhhcC-CCCCHHHHHHHHHHhhccccCCCccC
Q 031483 5 SPNVNRGNFTEEEDDLIIRLHKLLG-NRWALIAKRV-PGRTDNQVKNYWNSHLSKKLGIKDQT 65 (159)
Q Consensus 5 ~P~lkk~~WT~eED~~L~~lv~~~G-~~W~~Ia~~l-pgRT~~q~knRw~~~l~~~~~~~~~~ 65 (159)
.+.+++++||+|||++|+++|++|| .+|..||+++ +|||+.|||.||.++|++.++..+|+
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT 82 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGIT 82 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCC
Confidence 5789999999999999999999999 5799999998 69999999999999999999444444
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=99.65 E-value=2.8e-16 Score=102.45 Aligned_cols=59 Identities=37% Similarity=0.671 Sum_probs=49.9
Q ss_pred CCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhccccCCCccCCCCCCCCCccccCCCCCCChhhhcc
Q 031483 13 FTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLSKKLGIKDQTRGVGDSPSLTQSQKIQPITDQNANA 90 (159)
Q Consensus 13 WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~~~~~~~~~~~~~~~s~~~~~~~~~~~~t~~e~~~ 90 (159)
||+|||++|+++|..||++|..||.+|+.||..+|++||+.+|++++ ...+|+.+++..
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~-------------------~~~~wt~eEd~~ 59 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKI-------------------SRGPWTKEEDQR 59 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTS-------------------TSSSSSHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccc-------------------cCCCcCHHHHhc
Confidence 99999999999999999999999999966999999999999888776 567788777653
No 6
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.63 E-value=2.4e-16 Score=128.96 Aligned_cols=70 Identities=27% Similarity=0.404 Sum_probs=62.4
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCC-CchhhhhcCC-CCCHHHHHHHHHHhhccccCCCccCCCCCCCCCccccCCCCC
Q 031483 5 SPNVNRGNFTEEEDDLIIRLHKLLGN-RWALIAKRVP-GRTDNQVKNYWNSHLSKKLGIKDQTRGVGDSPSLTQSQKIQP 82 (159)
Q Consensus 5 ~P~lkk~~WT~eED~~L~~lv~~~G~-~W~~Ia~~lp-gRT~~q~knRw~~~l~~~~~~~~~~~~~~~s~~~~~~~~~~~ 82 (159)
.|.+.+|+||+|||++|+++|++||. +|..||+.++ ||++++||.||.+||++.+ ++++
T Consensus 4 k~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~i-------------------krg~ 64 (238)
T KOG0048|consen 4 NPELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDL-------------------KRGN 64 (238)
T ss_pred CccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCc-------------------cCCC
Confidence 45667899999999999999999995 5999999999 9999999999999999999 5778
Q ss_pred CChhhhcccCC
Q 031483 83 ITDQNANAIID 93 (159)
Q Consensus 83 ~t~~e~~~l~~ 93 (159)
||.+|+..|+.
T Consensus 65 fT~eEe~~Ii~ 75 (238)
T KOG0048|consen 65 FSDEEEDLIIK 75 (238)
T ss_pred CCHHHHHHHHH
Confidence 88888776654
No 7
>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=99.61 E-value=7.5e-16 Score=96.70 Aligned_cols=46 Identities=43% Similarity=0.764 Sum_probs=42.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCC-chhhhhcCC-CCCHHHHHHHHHHhh
Q 031483 10 RGNFTEEEDDLIIRLHKLLGNR-WALIAKRVP-GRTDNQVKNYWNSHL 55 (159)
Q Consensus 10 k~~WT~eED~~L~~lv~~~G~~-W~~Ia~~lp-gRT~~q~knRw~~~l 55 (159)
|++||+|||++|++++.+||.. |..||..|| |||..||++||+.++
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 6899999999999999999988 999999999 999999999999875
No 8
>PLN03091 hypothetical protein; Provisional
Probab=99.58 E-value=1.6e-15 Score=132.49 Aligned_cols=70 Identities=24% Similarity=0.458 Sum_probs=62.3
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCC-CchhhhhcCC-CCCHHHHHHHHHHhhccccCCCccCCCCCCCCCccccCCCCC
Q 031483 5 SPNVNRGNFTEEEDDLIIRLHKLLGN-RWALIAKRVP-GRTDNQVKNYWNSHLSKKLGIKDQTRGVGDSPSLTQSQKIQP 82 (159)
Q Consensus 5 ~P~lkk~~WT~eED~~L~~lv~~~G~-~W~~Ia~~lp-gRT~~q~knRw~~~l~~~~~~~~~~~~~~~s~~~~~~~~~~~ 82 (159)
.+.+++++||+|||++|+++|.+||. +|..||+.++ ||+++|||.||.++|++.+ ++++
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~I-------------------kKgp 69 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDL-------------------KRGT 69 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcc-------------------cCCC
Confidence 46799999999999999999999995 6999999884 9999999999999999999 5677
Q ss_pred CChhhhcccCC
Q 031483 83 ITDQNANAIID 93 (159)
Q Consensus 83 ~t~~e~~~l~~ 93 (159)
||.+|+..|+.
T Consensus 70 WT~EED~lLLe 80 (459)
T PLN03091 70 FSQQEENLIIE 80 (459)
T ss_pred CCHHHHHHHHH
Confidence 88888776554
No 9
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.47 E-value=1.1e-13 Score=84.61 Aligned_cols=47 Identities=51% Similarity=0.929 Sum_probs=44.5
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 10 RGNFTEEEDDLIIRLHKLLG-NRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 10 k~~WT~eED~~L~~lv~~~G-~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
+++||++||.+|+.++..|| .+|..||..||+||+.+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 47899999999999999999 999999999999999999999998765
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=99.36 E-value=1.4e-12 Score=78.58 Aligned_cols=44 Identities=45% Similarity=0.829 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHHhC-CCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 12 NFTEEEDDLIIRLHKLLG-NRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 12 ~WT~eED~~L~~lv~~~G-~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
+||++||.+|+.++..+| .+|..||..|++||..+|++||..++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999998753
No 11
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.29 E-value=2.3e-12 Score=117.07 Aligned_cols=63 Identities=29% Similarity=0.574 Sum_probs=57.9
Q ss_pred cCCCCCCCCCCCHHHHHHHHHHHHHhCCC-chhhhhcCCCCCHHHHHHHHHHhhccccCCCccC
Q 031483 3 YLSPNVNRGNFTEEEDDLIIRLHKLLGNR-WALIAKRVPGRTDNQVKNYWNSHLSKKLGIKDQT 65 (159)
Q Consensus 3 yL~P~lkk~~WT~eED~~L~~lv~~~G~~-W~~Ia~~lpgRT~~q~knRw~~~l~~~~~~~~~~ 65 (159)
.|+|.+++|+||.+||.+|+.+|.+||.+ |.+|-..||||++.|||.||.+.|....+...|+
T Consensus 353 ~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~ 416 (939)
T KOG0049|consen 353 TLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAKVERWT 416 (939)
T ss_pred ccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhccCcee
Confidence 58999999999999999999999999976 9999999999999999999999999998444444
No 12
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.60 E-value=3.9e-08 Score=88.37 Aligned_cols=59 Identities=34% Similarity=0.539 Sum_probs=56.5
Q ss_pred CcCCCCCCCCCCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhccccC
Q 031483 2 NYLSPNVNRGNFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLSKKLG 60 (159)
Q Consensus 2 NyL~P~lkk~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~~~~~ 60 (159)
|||+|.+++..|+.+||..|+.+..++|.+|+.||..+||||+.+|.+||...+.....
T Consensus 64 ~~lnp~lk~~~~~~eed~~li~l~~~~~~~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 64 NHLNPQLKKKNWSEEEDEQLIDLDKELGTQWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhchhcccccccHHHHHHHHHHHHhcCchhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 79999999999999999999999999999999999999999999999999988887664
No 13
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.53 E-value=3.6e-08 Score=90.17 Aligned_cols=79 Identities=18% Similarity=0.277 Sum_probs=65.5
Q ss_pred CcCCCCCCCCCCCHHHHHHHHHHHHHhCC-CchhhhhcCCC-CCHHHHHHHHHHhhccccCCCccCCCCCCCCCccccCC
Q 031483 2 NYLSPNVNRGNFTEEEDDLIIRLHKLLGN-RWALIAKRVPG-RTDNQVKNYWNSHLSKKLGIKDQTRGVGDSPSLTQSQK 79 (159)
Q Consensus 2 NyL~P~lkk~~WT~eED~~L~~lv~~~G~-~W~~Ia~~lpg-RT~~q~knRw~~~l~~~~~~~~~~~~~~~s~~~~~~~~ 79 (159)
|||+|+++|..|++|||+.|..++..+|- .|-+||..+.. |++.||-.++++.++.-.
T Consensus 245 n~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~-------------------- 304 (939)
T KOG0049|consen 245 NELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLS-------------------- 304 (939)
T ss_pred hhcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHH--------------------
Confidence 89999999999999999999999999995 69999999975 999999999999887765
Q ss_pred CCCCChhhhcccCCCCCCCCC
Q 031483 80 IQPITDQNANAIIDPCDENTK 100 (159)
Q Consensus 80 ~~~~t~~e~~~l~~~~~~~~~ 100 (159)
...|+.+++-.++.-...++.
T Consensus 305 ekeWsEEed~kL~alV~~~~~ 325 (939)
T KOG0049|consen 305 EKEWSEEEDTKLIALVKITSI 325 (939)
T ss_pred hhhcchhhhHHHHHHHHHhhc
Confidence 135777777666554444433
No 14
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.48 E-value=1.3e-07 Score=86.08 Aligned_cols=50 Identities=28% Similarity=0.518 Sum_probs=47.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhcccc
Q 031483 9 NRGNFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLSKKL 59 (159)
Q Consensus 9 kk~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~~~~ 59 (159)
++|.||++|++.|..+|.++|+.|..|+..| ||.+..|+.||+.+++..-
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~ 432 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGS 432 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhcccc
Confidence 8999999999999999999999999999999 9999999999999887753
No 15
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.44 E-value=6.8e-08 Score=86.86 Aligned_cols=71 Identities=28% Similarity=0.479 Sum_probs=62.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC-CchhhhhcCCCCCHHHHHHHHHHhhccccCCCccCCCCCCCCCccccCCCCCCCh
Q 031483 7 NVNRGNFTEEEDDLIIRLHKLLGN-RWALIAKRVPGRTDNQVKNYWNSHLSKKLGIKDQTRGVGDSPSLTQSQKIQPITD 85 (159)
Q Consensus 7 ~lkk~~WT~eED~~L~~lv~~~G~-~W~~Ia~~lpgRT~~q~knRw~~~l~~~~~~~~~~~~~~~s~~~~~~~~~~~~t~ 85 (159)
.++.|.|+..||+.|..+|.+||+ +|+.||..|.-|++++|++||+.++.+.+ +...|+.
T Consensus 17 ~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~l-------------------k~~~~~~ 77 (512)
T COG5147 17 KRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQL-------------------KKKNWSE 77 (512)
T ss_pred eecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhc-------------------ccccccH
Confidence 567899999999999999999994 69999999999999999999999999999 5667777
Q ss_pred hhhcccCCCCC
Q 031483 86 QNANAIIDPCD 96 (159)
Q Consensus 86 ~e~~~l~~~~~ 96 (159)
+++.++++...
T Consensus 78 eed~~li~l~~ 88 (512)
T COG5147 78 EEDEQLIDLDK 88 (512)
T ss_pred HHHHHHHHHHH
Confidence 77777665444
No 16
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.39 E-value=1.1e-07 Score=85.16 Aligned_cols=59 Identities=22% Similarity=0.435 Sum_probs=53.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC-CchhhhhcCCCCCHHHHHHHHHHhhccccCCCccCC
Q 031483 8 VNRGNFTEEEDDLIIRLHKLLGN-RWALIAKRVPGRTDNQVKNYWNSHLSKKLGIKDQTR 66 (159)
Q Consensus 8 lkk~~WT~eED~~L~~lv~~~G~-~W~~Ia~~lpgRT~~q~knRw~~~l~~~~~~~~~~~ 66 (159)
++.|.|+.-||++|...|.+||. +|++|++.++..|..||++||..++.+.++...|.+
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~ 64 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSR 64 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhh
Confidence 57789999999999999999995 599999999999999999999999999995554443
No 17
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.17 E-value=9.5e-07 Score=79.17 Aligned_cols=57 Identities=30% Similarity=0.570 Sum_probs=53.9
Q ss_pred cCCCCCCCCCCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhccccC
Q 031483 3 YLSPNVNRGNFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLSKKLG 60 (159)
Q Consensus 3 yL~P~lkk~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~~~~~ 60 (159)
||+|.|++..|+.+||+.|+.++..+...|..||..| |||++||-.||+.++.....
T Consensus 52 ~ldp~i~~tews~eederlLhlakl~p~qwrtIa~i~-gr~~~qc~eRy~~ll~~~~s 108 (617)
T KOG0050|consen 52 WLDPAIKKTEWSREEDERLLHLAKLEPTQWRTIADIM-GRTSQQCLERYNNLLDVYVS 108 (617)
T ss_pred HhCHHHhhhhhhhhHHHHHHHHHHhcCCccchHHHHh-hhhHHHHHHHHHHHHHHHHh
Confidence 6899999999999999999999999999999999998 99999999999999877663
No 18
>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=98.09 E-value=1.2e-05 Score=52.40 Aligned_cols=48 Identities=23% Similarity=0.263 Sum_probs=41.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC-Cc---hhhhhcCC-CC-CHHHHHHHHHHhhc
Q 031483 9 NRGNFTEEEDDLIIRLHKLLGN-RW---ALIAKRVP-GR-TDNQVKNYWNSHLS 56 (159)
Q Consensus 9 kk~~WT~eED~~L~~lv~~~G~-~W---~~Ia~~lp-gR-T~~q~knRw~~~l~ 56 (159)
.+-.||+||....+++++.+|. .| ..|+..|. .| |..||+.|.+.+..
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 4668999999999999999996 99 99999875 35 99999999987653
No 19
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.91 E-value=1.8e-05 Score=69.71 Aligned_cols=53 Identities=19% Similarity=0.411 Sum_probs=46.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CCchhhhhcCCCCCHHHHHHHHHHhh-cccc
Q 031483 7 NVNRGNFTEEEDDLIIRLHKLLG-NRWALIAKRVPGRTDNQVKNYWNSHL-SKKL 59 (159)
Q Consensus 7 ~lkk~~WT~eED~~L~~lv~~~G-~~W~~Ia~~lpgRT~~q~knRw~~~l-~~~~ 59 (159)
.+-...||.+|+-+|++++..|| ++|..||.++..||..+||.+|..+. +..+
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv~s~~ 123 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFVNSPI 123 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHhcCcc
Confidence 45567899999999999999999 89999999999999999999988544 4444
No 20
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.71 E-value=2.5e-05 Score=60.79 Aligned_cols=51 Identities=22% Similarity=0.342 Sum_probs=44.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHh---CC----CchhhhhcCCCCCHHHHHHHHHHhhcccc
Q 031483 8 VNRGNFTEEEDDLIIRLHKLL---GN----RWALIAKRVPGRTDNQVKNYWNSHLSKKL 59 (159)
Q Consensus 8 lkk~~WT~eED~~L~~lv~~~---G~----~W~~Ia~~lpgRT~~q~knRw~~~l~~~~ 59 (159)
.+...||.|||.+|.+.|-.| |+ -...++..+ +||..+|.-||++++|+..
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY 59 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQY 59 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHH
Confidence 356789999999999999987 53 278888888 9999999999999999875
No 21
>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=97.56 E-value=9.6e-05 Score=49.44 Aligned_cols=50 Identities=28% Similarity=0.474 Sum_probs=33.1
Q ss_pred CCCCCHHHHHHHHHHHHHh---C-----CC-chhhhhcCC-CCCHHHHHHHHHHhhcccc
Q 031483 10 RGNFTEEEDDLIIRLHKLL---G-----NR-WALIAKRVP-GRTDNQVKNYWNSHLSKKL 59 (159)
Q Consensus 10 k~~WT~eED~~L~~lv~~~---G-----~~-W~~Ia~~lp-gRT~~q~knRw~~~l~~~~ 59 (159)
|.+||.+||++|+..|.++ | ++ |..++..-| .+|-...|+||...|+++.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~ 61 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRP 61 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence 5689999999999999654 2 23 999999877 9999999999998887764
No 22
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.35 E-value=0.00013 Score=50.16 Aligned_cols=54 Identities=39% Similarity=0.600 Sum_probs=38.3
Q ss_pred CCCCCHHHHHHHHHHHHH------hC--C------CchhhhhcCC----CCCHHHHHHHHHHhhccccCCCc
Q 031483 10 RGNFTEEEDDLIIRLHKL------LG--N------RWALIAKRVP----GRTDNQVKNYWNSHLSKKLGIKD 63 (159)
Q Consensus 10 k~~WT~eED~~L~~lv~~------~G--~------~W~~Ia~~lp----gRT~~q~knRw~~~l~~~~~~~~ 63 (159)
|..||.+|-..|++++.. ++ + -|..||..|. .||..||+++|.++.+.-...+.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~k~ 72 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKIKD 72 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCSSS
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 457999999999999887 21 1 3999999873 69999999999998776554433
No 23
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.25 E-value=0.00032 Score=62.56 Aligned_cols=46 Identities=20% Similarity=0.317 Sum_probs=42.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 9 NRGNFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 9 kk~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
...+||.+|-.+|++.++.||..|.+||.++..||..||--|+-++
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 4568999999999999999999999999999999999999998754
No 24
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.20 E-value=0.00049 Score=62.25 Aligned_cols=48 Identities=23% Similarity=0.366 Sum_probs=44.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 8 VNRGNFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 8 lkk~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
-.+..||.+|..+|++.+..||..|.+||.++.+||..||--++..+-
T Consensus 251 ~~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~LP 298 (506)
T KOG1279|consen 251 SARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRLP 298 (506)
T ss_pred cCCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhcC
Confidence 356789999999999999999999999999999999999999987543
No 25
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=96.68 E-value=0.0017 Score=55.86 Aligned_cols=49 Identities=20% Similarity=0.411 Sum_probs=43.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC-CCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 8 VNRGNFTEEEDDLIIRLHKLLG-NRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 8 lkk~~WT~eED~~L~~lv~~~G-~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
|--..|+..|+-+|++.+..+| ++|.-||.++..|+...||.||..+..
T Consensus 61 I~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 61 IGEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred ccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 3345799999999999999999 899999999999999999999876554
No 26
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.50 E-value=0.0038 Score=42.12 Aligned_cols=47 Identities=30% Similarity=0.548 Sum_probs=39.4
Q ss_pred CCCCCHHHHHHHHHHHHHh-----C------------CCchhhhhcC-----CCCCHHHHHHHHHHhhc
Q 031483 10 RGNFTEEEDDLIIRLHKLL-----G------------NRWALIAKRV-----PGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 10 k~~WT~eED~~L~~lv~~~-----G------------~~W~~Ia~~l-----pgRT~~q~knRw~~~l~ 56 (159)
+..||.+|..+|++++.++ | .-|..|+..| +.||..++|..|..+..
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~ 70 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKS 70 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHH
Confidence 5689999999999999986 3 1399999877 36999999999997654
No 27
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.49 E-value=0.0015 Score=51.41 Aligned_cols=51 Identities=20% Similarity=0.298 Sum_probs=41.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC----C---chhhhhcCCCCCHHHHHHHHHHhhcccc
Q 031483 8 VNRGNFTEEEDDLIIRLHKLLGN----R---WALIAKRVPGRTDNQVKNYWNSHLSKKL 59 (159)
Q Consensus 8 lkk~~WT~eED~~L~~lv~~~G~----~---W~~Ia~~lpgRT~~q~knRw~~~l~~~~ 59 (159)
.++..||.|||.+|.+.|-.|+. + ...++..+ +||..+|..||+..++++.
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Y 60 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQY 60 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHH
Confidence 46788999999999888888863 2 45555666 8999999999999999764
No 28
>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=96.13 E-value=0.007 Score=44.95 Aligned_cols=51 Identities=22% Similarity=0.430 Sum_probs=41.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC----CchhhhhcC------------CCCCHHHHHHHHHHhhcc
Q 031483 7 NVNRGNFTEEEDDLIIRLHKLLGN----RWALIAKRV------------PGRTDNQVKNYWNSHLSK 57 (159)
Q Consensus 7 ~lkk~~WT~eED~~L~~lv~~~G~----~W~~Ia~~l------------pgRT~~q~knRw~~~l~~ 57 (159)
.-++..||.+||..|+-++.+||- .|..|...+ ..||+..+..|...+++-
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~ 112 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKL 112 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHH
Confidence 667889999999999999999995 698886533 479999999999988764
No 29
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=95.72 E-value=0.0099 Score=54.81 Aligned_cols=61 Identities=21% Similarity=0.383 Sum_probs=50.0
Q ss_pred CcCCCC--CCCCCCCHHHHHHHHHHHH-------Hh-------C------------CCchhhhhcCCCCCHHHHHHHHHH
Q 031483 2 NYLSPN--VNRGNFTEEEDDLIIRLHK-------LL-------G------------NRWALIAKRVPGRTDNQVKNYWNS 53 (159)
Q Consensus 2 NyL~P~--lkk~~WT~eED~~L~~lv~-------~~-------G------------~~W~~Ia~~lpgRT~~q~knRw~~ 53 (159)
+|..+. .+++.||.||.+.|+++|. ++ | =+|+.|+..+..|+.-||+-.|..
T Consensus 426 ~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~k 505 (607)
T KOG0051|consen 426 QYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYK 505 (607)
T ss_pred HhhccccccccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHH
Confidence 456665 5899999999999999996 33 1 259999998899999999999999
Q ss_pred hhccccCCC
Q 031483 54 HLSKKLGIK 62 (159)
Q Consensus 54 ~l~~~~~~~ 62 (159)
++......+
T Consensus 506 l~~~~s~n~ 514 (607)
T KOG0051|consen 506 LTTSPSFNK 514 (607)
T ss_pred HHhhHHhhc
Confidence 887766433
No 30
>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=95.14 E-value=0.015 Score=37.13 Aligned_cols=20 Identities=45% Similarity=0.815 Sum_probs=18.2
Q ss_pred CcCCCCCCCCCCCHHHHHHH
Q 031483 2 NYLSPNVNRGNFTEEEDDLI 21 (159)
Q Consensus 2 NyL~P~lkk~~WT~eED~~L 21 (159)
++|+|.+++++||++||++|
T Consensus 41 ~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 41 NHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp HTTSTTSTSSSSSHHHHHHH
T ss_pred HHCcccccCCCcCHHHHhcC
Confidence 36899999999999999987
No 31
>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=94.31 E-value=0.099 Score=36.12 Aligned_cols=46 Identities=30% Similarity=0.503 Sum_probs=35.0
Q ss_pred CCCHHHHHHHHHHHHHh---CC----------CchhhhhcCC---C--CCHHHHHHHHHHhhcc
Q 031483 12 NFTEEEDDLIIRLHKLL---GN----------RWALIAKRVP---G--RTDNQVKNYWNSHLSK 57 (159)
Q Consensus 12 ~WT~eED~~L~~lv~~~---G~----------~W~~Ia~~lp---g--RT~~q~knRw~~~l~~ 57 (159)
.||++.++.|++++.+. |+ .|..|+..|. | .|..||++||..+-+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~ 64 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKD 64 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHH
Confidence 49999999999998764 21 2899998773 3 4778999999865433
No 32
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=93.33 E-value=0.12 Score=50.63 Aligned_cols=53 Identities=15% Similarity=0.271 Sum_probs=43.6
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhC-CCchhhhhcC------------CCCCHHHHHHHHHHhhccc
Q 031483 6 PNVNRGNFTEEEDDLIIRLHKLLG-NRWALIAKRV------------PGRTDNQVKNYWNSHLSKK 58 (159)
Q Consensus 6 P~lkk~~WT~eED~~L~~lv~~~G-~~W~~Ia~~l------------pgRT~~q~knRw~~~l~~~ 58 (159)
|.-++..||.+||..|+-++.+|| .+|..|-..+ ..||...+..|...+++--
T Consensus 922 ~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~~~ 987 (1033)
T PLN03142 922 GQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIRLI 987 (1033)
T ss_pred CCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHHHH
Confidence 455667899999999999999999 6798884322 5899999999999887653
No 33
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=92.95 E-value=0.094 Score=46.28 Aligned_cols=55 Identities=29% Similarity=0.382 Sum_probs=47.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCchhhhhc-----CCC-CCHHHHHHHHHHhhccccCCCc
Q 031483 9 NRGNFTEEEDDLIIRLHKLLGNRWALIAKR-----VPG-RTDNQVKNYWNSHLSKKLGIKD 63 (159)
Q Consensus 9 kk~~WT~eED~~L~~lv~~~G~~W~~Ia~~-----lpg-RT~~q~knRw~~~l~~~~~~~~ 63 (159)
....||.+|=+-|..|++.|.=+|..||.+ ++. ||-..+|.||+...+.-++...
T Consensus 129 ~dn~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~ 189 (445)
T KOG2656|consen 129 NDNSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARA 189 (445)
T ss_pred ccccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHccC
Confidence 447899999999999999999999999987 665 9999999999987777664443
No 34
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=91.86 E-value=0.24 Score=42.43 Aligned_cols=49 Identities=20% Similarity=0.296 Sum_probs=40.3
Q ss_pred CCCCHHHHHHHHHHHHHhC----------CCchhhhhcCC----CCCHHHHHHHHHHhhcccc
Q 031483 11 GNFTEEEDDLIIRLHKLLG----------NRWALIAKRVP----GRTDNQVKNYWNSHLSKKL 59 (159)
Q Consensus 11 ~~WT~eED~~L~~lv~~~G----------~~W~~Ia~~lp----gRT~~q~knRw~~~l~~~~ 59 (159)
..|+.+|=..||++....- ..|..||..+. -||+.|||++|.++.++-.
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk 117 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYK 117 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 6899999999999887642 34999999663 5999999999998877654
No 35
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=91.14 E-value=0.33 Score=42.91 Aligned_cols=46 Identities=17% Similarity=0.312 Sum_probs=42.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 11 GNFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 11 ~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
.+||.+|=++...+...+|...+.|+..||.|...|||-.|.+--+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek 411 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEK 411 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhh
Confidence 4899999999999999999999999999999999999999875433
No 36
>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=90.58 E-value=0.42 Score=29.59 Aligned_cols=40 Identities=25% Similarity=0.274 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 15 EEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 15 ~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
++++..++.++...|-.|.+||..+ |.|...|+.+.+..+
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~ 51 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRAR 51 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 5678888999899999999999999 899999999877554
No 37
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=90.02 E-value=0.88 Score=36.76 Aligned_cols=51 Identities=18% Similarity=0.308 Sum_probs=38.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC---Cchhhhh-----cCCCCCHHHHHHHHHHhhcccc
Q 031483 9 NRGNFTEEEDDLIIRLHKLLGN---RWALIAK-----RVPGRTDNQVKNYWNSHLSKKL 59 (159)
Q Consensus 9 kk~~WT~eED~~L~~lv~~~G~---~W~~Ia~-----~lpgRT~~q~knRw~~~l~~~~ 59 (159)
.+.+||.+|+++|......... .+.+|-. +-++||+.++..+|..+.+..+
T Consensus 72 ~kalfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~L 130 (199)
T PF13325_consen 72 SKALFSKEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHL 130 (199)
T ss_pred ccCCCCHHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhch
Confidence 3568999999999997766653 3665533 3379999999999996655555
No 38
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=84.44 E-value=1.8 Score=39.13 Aligned_cols=45 Identities=20% Similarity=0.362 Sum_probs=40.6
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 10 RGNFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 10 k~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
...||.||-.++-++...||+...+|-+.||.|+-..+...|+..
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~ 231 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSW 231 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHH
Confidence 467999999999999999999999999999999999988877644
No 39
>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=80.01 E-value=2 Score=29.79 Aligned_cols=16 Identities=31% Similarity=0.692 Sum_probs=9.8
Q ss_pred CCCCCCCCCHHHHHHH
Q 031483 6 PNVNRGNFTEEEDDLI 21 (159)
Q Consensus 6 P~lkk~~WT~eED~~L 21 (159)
|.--.|-||+++|+.|
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 6667889999999999
No 40
>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=77.76 E-value=4 Score=27.97 Aligned_cols=38 Identities=16% Similarity=0.293 Sum_probs=27.9
Q ss_pred HHHHHHHHhC--------CCchhhhhcCCC---CC--HHHHHHHHHHhhcc
Q 031483 20 LIIRLHKLLG--------NRWALIAKRVPG---RT--DNQVKNYWNSHLSK 57 (159)
Q Consensus 20 ~L~~lv~~~G--------~~W~~Ia~~lpg---RT--~~q~knRw~~~l~~ 57 (159)
.|..+|...| +.|..||..|.- -+ ..++|..|..+|.+
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 5677788887 469999998832 22 36899999988753
No 41
>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=76.83 E-value=5.3 Score=24.03 Aligned_cols=38 Identities=26% Similarity=0.360 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHhCC-CchhhhhcCCCCCHHHHHHHHHHh
Q 031483 16 EEDDLIIRLHKLLGN-RWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 16 eED~~L~~lv~~~G~-~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
+=|..|+.+...-|. .|..||..+ |=|...|.+|++.+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~l-glS~~~v~~Ri~rL 41 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEEL-GLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHH-TS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHH-CcCHHHHHHHHHHh
Confidence 347788888788785 599999999 88999999998753
No 42
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=76.36 E-value=4.5 Score=38.70 Aligned_cols=45 Identities=18% Similarity=0.254 Sum_probs=40.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 10 RGNFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 10 k~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
...||+.|-.+.-++...|.+..-.|++.++|+|..||-..|+..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHH
Confidence 457999999999999999999999999999999999999886643
No 43
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=76.22 E-value=4.3 Score=24.64 Aligned_cols=40 Identities=25% Similarity=0.353 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 16 EEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 16 eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
+++..++.++-..|-.+..||..+ |-|...|+.+....++
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~ 46 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALK 46 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHH
Confidence 456666666666667899999999 8888889888776654
No 44
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=75.63 E-value=3.5 Score=38.61 Aligned_cols=49 Identities=18% Similarity=0.457 Sum_probs=38.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCchhhhh----------cCCCCCHHHHHHHHHHhhccc
Q 031483 10 RGNFTEEEDDLIIRLHKLLGNRWALIAK----------RVPGRTDNQVKNYWNSHLSKK 58 (159)
Q Consensus 10 k~~WT~eED~~L~~lv~~~G~~W~~Ia~----------~lpgRT~~q~knRw~~~l~~~ 58 (159)
|..||-+|.+-...+.+++|+....|-. ...-+|-.|++.+|+..+++-
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m 146 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRM 146 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHH
Confidence 6789999999999999999999988822 222355678888888766653
No 45
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=74.88 E-value=5.9 Score=32.02 Aligned_cols=81 Identities=14% Similarity=0.108 Sum_probs=49.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhcC--C-CCCHHHHHHHHHHhhccccCCCccCC-CCCCCCC-ccccCCCCCCChh
Q 031483 12 NFTEEEDDLIIRLHKLLGNRWALIAKRV--P-GRTDNQVKNYWNSHLSKKLGIKDQTR-GVGDSPS-LTQSQKIQPITDQ 86 (159)
Q Consensus 12 ~WT~eED~~L~~lv~~~G~~W~~Ia~~l--p-gRT~~q~knRw~~~l~~~~~~~~~~~-~~~~s~~-~~~~~~~~~~t~~ 86 (159)
.|++.+|-+|+..| +.|+.-..|+.-+ - .-|-..+..||+.+|--..-.+.... -..-.+. ......+.+|+.+
T Consensus 1 rW~~~DDl~Li~av-~~~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~~ 79 (199)
T PF13325_consen 1 RWKPEDDLLLINAV-EQTNDLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSKE 79 (199)
T ss_pred CCCchhhHHHHHHH-HHhcCHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCHH
Confidence 59999999999885 4566666666533 3 34889999999998865432211111 1111111 1223456789988
Q ss_pred hhcccCC
Q 031483 87 NANAIID 93 (159)
Q Consensus 87 e~~~l~~ 93 (159)
|...|..
T Consensus 80 EE~lL~~ 86 (199)
T PF13325_consen 80 EEQLLGT 86 (199)
T ss_pred HHHHHHh
Confidence 8876654
No 46
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=74.53 E-value=5 Score=27.77 Aligned_cols=38 Identities=18% Similarity=0.331 Sum_probs=28.4
Q ss_pred HHHHHHHHhC--------CCchhhhhcCCC-----CCHHHHHHHHHHhhcc
Q 031483 20 LIIRLHKLLG--------NRWALIAKRVPG-----RTDNQVKNYWNSHLSK 57 (159)
Q Consensus 20 ~L~~lv~~~G--------~~W~~Ia~~lpg-----RT~~q~knRw~~~l~~ 57 (159)
.|..+|.+.| +.|..||..|.- ....++|..|..+|.+
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 4677788877 369999998742 2357889999888764
No 47
>smart00595 MADF subfamily of SANT domain.
Probab=74.00 E-value=2.5 Score=28.61 Aligned_cols=23 Identities=22% Similarity=0.442 Sum_probs=20.2
Q ss_pred chhhhhcCCCCCHHHHHHHHHHhh
Q 031483 32 WALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 32 W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
|..||..|.. |..+|+.+|+++-
T Consensus 30 W~~Ia~~l~~-~~~~~~~kw~~LR 52 (89)
T smart00595 30 WEEIAEELGL-SVEECKKRWKNLR 52 (89)
T ss_pred HHHHHHHHCc-CHHHHHHHHHHHH
Confidence 9999999955 9999999999764
No 48
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=71.96 E-value=5.6 Score=36.98 Aligned_cols=50 Identities=18% Similarity=0.331 Sum_probs=44.8
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 6 PNVNRGNFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 6 P~lkk~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
+....++||.+|=++.......+|.+.+.|+.-+|+|+..|+|..+..--
T Consensus 405 k~~~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE 454 (584)
T KOG2009|consen 405 KKLETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEE 454 (584)
T ss_pred CccccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhh
Confidence 45567899999999999999999999999999999999999999887433
No 49
>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=70.62 E-value=4.9 Score=31.22 Aligned_cols=41 Identities=22% Similarity=0.246 Sum_probs=34.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHH
Q 031483 12 NFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNS 53 (159)
Q Consensus 12 ~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~ 53 (159)
.||.|+.+.|.+|. .-|-.=++||..|.|.|-|.|--+-+.
T Consensus 2 ~Wtde~~~~L~~lw-~~G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHhCCcchhhhhhhhhc
Confidence 59999999999885 567888999999988999998776553
No 50
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=70.08 E-value=8.9 Score=28.89 Aligned_cols=43 Identities=14% Similarity=0.084 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHhCC-CchhhhhcCCCCCHHHHHHHHHHhhcccc
Q 031483 16 EEDDLIIRLHKLLGN-RWALIAKRVPGRTDNQVKNYWNSHLSKKL 59 (159)
Q Consensus 16 eED~~L~~lv~~~G~-~W~~Ia~~lpgRT~~q~knRw~~~l~~~~ 59 (159)
+-|..|+.+..+-|. .|+.||+.+ |-+...|++|++.+....+
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 468888888888884 699999999 9999999999998887765
No 51
>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=68.45 E-value=8.4 Score=27.95 Aligned_cols=38 Identities=21% Similarity=0.259 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 17 EDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 17 ED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
++..++.+.-..|-.+..||..+ |.+...|+.+.+...
T Consensus 117 ~~r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~ 154 (161)
T TIGR02985 117 QCRKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKAL 154 (161)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 44455555445678899999998 889999999987644
No 52
>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=66.03 E-value=7.8 Score=26.86 Aligned_cols=29 Identities=21% Similarity=0.471 Sum_probs=23.1
Q ss_pred HHHHHHHHHHhCCCchhhhhcCCCCCHHHH
Q 031483 18 DDLIIRLHKLLGNRWALIAKRVPGRTDNQV 47 (159)
Q Consensus 18 D~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~ 47 (159)
|+-|..++...|..|..+|.++ |=|..+|
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 5668889999999999999998 5555443
No 53
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=63.75 E-value=10 Score=28.94 Aligned_cols=44 Identities=16% Similarity=0.098 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHhCC-CchhhhhcCCCCCHHHHHHHHHHhhcccc
Q 031483 15 EEEDDLIIRLHKLLGN-RWALIAKRVPGRTDNQVKNYWNSHLSKKL 59 (159)
Q Consensus 15 ~eED~~L~~lv~~~G~-~W~~Ia~~lpgRT~~q~knRw~~~l~~~~ 59 (159)
.+-|.+|+.+..+-|. .|+.||+.+ |-+...|++|++.+.+..+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 4568888887777774 699999999 9999999999999888776
No 54
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=61.47 E-value=22 Score=30.86 Aligned_cols=51 Identities=24% Similarity=0.512 Sum_probs=37.5
Q ss_pred cCCCCCCCCCCCHHHHHHHHHHHHHh-CCC---chhhhhcCCCCCHHHHHHHHHH
Q 031483 3 YLSPNVNRGNFTEEEDDLIIRLHKLL-GNR---WALIAKRVPGRTDNQVKNYWNS 53 (159)
Q Consensus 3 yL~P~lkk~~WT~eED~~L~~lv~~~-G~~---W~~Ia~~lpgRT~~q~knRw~~ 53 (159)
|+-+...-..||.-|-..|+++.... |.. -..|+++++||+..+|++.-+.
T Consensus 14 y~g~~~gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~ 68 (344)
T PF11035_consen 14 YLGEVTGPAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQ 68 (344)
T ss_pred ccCCCCCcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHH
Confidence 34444445589999999888887765 544 4688999999999988775443
No 55
>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=60.95 E-value=12 Score=25.89 Aligned_cols=29 Identities=17% Similarity=0.345 Sum_probs=23.3
Q ss_pred HHHHHHHHHHhCCCchhhhhcCCCCCHHHH
Q 031483 18 DDLIIRLHKLLGNRWALIAKRVPGRTDNQV 47 (159)
Q Consensus 18 D~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~ 47 (159)
|..|..++...|..|..+|..| |=+...+
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 6678888999999999999998 5555443
No 56
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=60.11 E-value=6.4 Score=25.78 Aligned_cols=26 Identities=19% Similarity=0.414 Sum_probs=21.0
Q ss_pred CchhhhhcCCC-CCHHHHHHHHHHhhc
Q 031483 31 RWALIAKRVPG-RTDNQVKNYWNSHLS 56 (159)
Q Consensus 31 ~W~~Ia~~lpg-RT~~q~knRw~~~l~ 56 (159)
-|..||..|.+ -+..+|+.||.++-.
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~ 54 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRD 54 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHH
Confidence 39999999963 578899999997554
No 57
>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=56.10 E-value=11 Score=25.59 Aligned_cols=29 Identities=24% Similarity=0.636 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhCCCchhhhhcCCCCCHHHH
Q 031483 18 DDLIIRLHKLLGNRWALIAKRVPGRTDNQV 47 (159)
Q Consensus 18 D~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~ 47 (159)
|..|..+++..|..|.++|.++ |=+..+|
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 4567788889999999999998 4555444
No 58
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=55.55 E-value=28 Score=30.97 Aligned_cols=44 Identities=23% Similarity=0.326 Sum_probs=39.0
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhhhh-cCCCCCHHHHHHHHHHh
Q 031483 11 GNFTEEEDDLIIRLHKLLGNRWALIAK-RVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 11 ~~WT~eED~~L~~lv~~~G~~W~~Ia~-~lpgRT~~q~knRw~~~ 54 (159)
..|+++|=...-+..+.||+....|.+ +++.|+-..|-..|+..
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHh
Confidence 479999999999999999999999965 89999999998877643
No 59
>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=55.48 E-value=43 Score=25.73 Aligned_cols=48 Identities=17% Similarity=0.163 Sum_probs=39.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCchhhhhcCC----CCCHHHHHHHHHHhh
Q 031483 8 VNRGNFTEEEDDLIIRLHKLLGNRWALIAKRVP----GRTDNQVKNYWNSHL 55 (159)
Q Consensus 8 lkk~~WT~eED~~L~~lv~~~G~~W~~Ia~~lp----gRT~~q~knRw~~~l 55 (159)
-....-|..|-..|..|+.+||..+..+|.-.. -.|..||+.+...+.
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~k 163 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKYK 163 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHhc
Confidence 345678899999999999999999999997432 479999999887653
No 60
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=52.88 E-value=20 Score=26.53 Aligned_cols=35 Identities=20% Similarity=0.184 Sum_probs=25.5
Q ss_pred HHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 19 DLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 19 ~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
..++.+....|-.+..||..| |.+...|+.+.+..
T Consensus 134 r~vl~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra 168 (182)
T PRK09652 134 RTAITLREIEGLSYEEIAEIM-GCPIGTVRSRIFRA 168 (182)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHH
Confidence 334444445678899999999 88888888876643
No 61
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=52.03 E-value=21 Score=27.51 Aligned_cols=38 Identities=18% Similarity=0.142 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 16 EEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 16 eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
+++..++.+....|-....||..| |-+...|++|+...
T Consensus 137 ~~~r~i~~l~~~~g~s~~EIA~~l-g~s~~tV~~rl~ra 174 (192)
T PRK09643 137 VEQRAALVAVDMQGYSVADAARML-GVAEGTVKSRCARG 174 (192)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 344555566566788899999999 88999999998543
No 62
>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=51.20 E-value=18 Score=24.86 Aligned_cols=31 Identities=19% Similarity=0.467 Sum_probs=24.4
Q ss_pred HHHHHHHHHHhCCCchhhhhcCCCCCHHHHHH
Q 031483 18 DDLIIRLHKLLGNRWALIAKRVPGRTDNQVKN 49 (159)
Q Consensus 18 D~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~kn 49 (159)
|..|-.+....|..|..+|..| |=+...|.+
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI~~ 34 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQIHQ 34 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 4567778889999999999999 566665544
No 63
>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=50.98 E-value=22 Score=24.89 Aligned_cols=38 Identities=21% Similarity=0.213 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 17 EDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 17 ED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
.+..++.++-..|..+..||+.+ |-+...|+++....+
T Consensus 114 ~~~~ii~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~ 151 (158)
T TIGR02937 114 REREVLVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRAR 151 (158)
T ss_pred HHHHHHhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 33444445545688999999998 668888888877644
No 64
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=49.25 E-value=23 Score=26.06 Aligned_cols=35 Identities=20% Similarity=0.172 Sum_probs=25.7
Q ss_pred HHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 19 DLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 19 ~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
..++.+....|-.+..||..| |-+...|+++....
T Consensus 131 r~i~~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra 165 (179)
T PRK11924 131 REVFLLRYVEGLSYREIAEIL-GVPVGTVKSRLRRA 165 (179)
T ss_pred HHHhhHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHH
Confidence 334445455678899999999 78888888887643
No 65
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=47.86 E-value=30 Score=26.72 Aligned_cols=38 Identities=18% Similarity=0.260 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 16 EEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 16 eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
++...++.+..-.|-.+.+||..+ |-+...|+++|...
T Consensus 138 ~~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~a 175 (185)
T PF07638_consen 138 PRQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRA 175 (185)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 455666666666788999999999 99999999999743
No 66
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=47.39 E-value=45 Score=23.03 Aligned_cols=43 Identities=23% Similarity=0.177 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHhCC-CchhhhhcCCCCCHHHHHHHHHHhhcccc
Q 031483 16 EEDDLIIRLHKLLGN-RWALIAKRVPGRTDNQVKNYWNSHLSKKL 59 (159)
Q Consensus 16 eED~~L~~lv~~~G~-~W~~Ia~~lpgRT~~q~knRw~~~l~~~~ 59 (159)
+.|..|+.+..+.|. .++.||..+ |-+...|++|...+....+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~ 46 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGV 46 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 467788888888774 699999999 9999999999998887765
No 67
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=47.24 E-value=27 Score=26.25 Aligned_cols=35 Identities=14% Similarity=0.016 Sum_probs=24.8
Q ss_pred HHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 20 LIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 20 ~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
.++.+....|..+..||..+ |-|...|+++.+...
T Consensus 143 ~il~l~~~~~~s~~eIA~~l-gis~~~v~~~l~Rar 177 (187)
T PRK09641 143 TVIVLKYIEDLSLKEISEIL-DLPVGTVKTRIHRGR 177 (187)
T ss_pred HHhhhHHhhCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 33334444567899999999 888889988876443
No 68
>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=46.77 E-value=24 Score=24.23 Aligned_cols=25 Identities=20% Similarity=0.480 Sum_probs=19.6
Q ss_pred HHHHHHhCCCchhhhhcCCCCCHHHH
Q 031483 22 IRLHKLLGNRWALIAKRVPGRTDNQV 47 (159)
Q Consensus 22 ~~lv~~~G~~W~~Ia~~lpgRT~~q~ 47 (159)
..+....|..|..+|.++ |-+..+|
T Consensus 11 ~~ia~~iG~~Wk~Lar~L-Gls~~dI 35 (86)
T cd08318 11 TVFANKLGEDWKTLAPHL-EMKDKEI 35 (86)
T ss_pred HHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 336688999999999999 6666655
No 69
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=45.18 E-value=33 Score=25.67 Aligned_cols=39 Identities=26% Similarity=0.341 Sum_probs=28.9
Q ss_pred HHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhcc
Q 031483 18 DDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLSK 57 (159)
Q Consensus 18 D~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~~ 57 (159)
...++.|....|-....||..+ |.+.+.|+.|-...+++
T Consensus 124 ~r~v~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 162 (172)
T PRK12523 124 ARAAFLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQ 162 (172)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 4445555555678899999999 88999999987655443
No 70
>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=44.43 E-value=44 Score=18.97 Aligned_cols=39 Identities=21% Similarity=0.241 Sum_probs=25.8
Q ss_pred CCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHH
Q 031483 13 FTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNS 53 (159)
Q Consensus 13 WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~ 53 (159)
.+++ +..++.++-..|-.+..||..+ |-+...|+.+.+.
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~ 49 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHR 49 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHH
Confidence 3444 4555555556778899999988 5666777665543
No 71
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=44.39 E-value=38 Score=24.75 Aligned_cols=33 Identities=18% Similarity=0.068 Sum_probs=24.5
Q ss_pred HHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 22 IRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 22 ~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
+.++...|-.-..||..+ |-+.+.|+.|....+
T Consensus 115 ~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~ 147 (161)
T PRK09047 115 FLLRYWEDMDVAETAAAM-GCSEGSVKTHCSRAT 147 (161)
T ss_pred HHHHHHhcCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 333344567789999999 889999999876544
No 72
>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=43.21 E-value=19 Score=24.04 Aligned_cols=18 Identities=33% Similarity=0.672 Sum_probs=14.7
Q ss_pred HHHHHHHHhCCCchhhhh
Q 031483 20 LIIRLHKLLGNRWALIAK 37 (159)
Q Consensus 20 ~L~~lv~~~G~~W~~Ia~ 37 (159)
.|.+|.+.||++|..|-.
T Consensus 31 vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 31 VLKNLLKLYDGNWELIEE 48 (65)
T ss_pred HHHHHHHHHcCCchhhhc
Confidence 577888899999998853
No 73
>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=42.77 E-value=26 Score=24.27 Aligned_cols=29 Identities=24% Similarity=0.556 Sum_probs=22.5
Q ss_pred HHHHHHHHhCCCchhhhhcCCCCCHHHHHH
Q 031483 20 LIIRLHKLLGNRWALIAKRVPGRTDNQVKN 49 (159)
Q Consensus 20 ~L~~lv~~~G~~W~~Ia~~lpgRT~~q~kn 49 (159)
-|-.+....|..|..+|.+| |=++.+|.+
T Consensus 4 ~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 4 HLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 34556678899999999999 677776655
No 74
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=42.70 E-value=21 Score=21.36 Aligned_cols=38 Identities=34% Similarity=0.347 Sum_probs=18.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHH
Q 031483 11 GNFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNY 50 (159)
Q Consensus 11 ~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knR 50 (159)
..+|.+|-..|..+ ..-|..=..||+.| ||+..-|.+.
T Consensus 3 ~~Lt~~eR~~I~~l-~~~G~s~~~IA~~l-g~s~sTV~re 40 (44)
T PF13936_consen 3 KHLTPEERNQIEAL-LEQGMSIREIAKRL-GRSRSTVSRE 40 (44)
T ss_dssp ---------HHHHH-HCS---HHHHHHHT-T--HHHHHHH
T ss_pred cchhhhHHHHHHHH-HHcCCCHHHHHHHH-CcCcHHHHHH
Confidence 45788888887777 45788889999999 8888877653
No 75
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=42.34 E-value=37 Score=26.01 Aligned_cols=33 Identities=6% Similarity=0.014 Sum_probs=24.6
Q ss_pred HHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 22 IRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 22 ~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
+.|....|-....||..| |.+...||.|.+...
T Consensus 143 ~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~RAr 175 (189)
T PRK12530 143 FMMREYLELSSEQICQEC-DISTSNLHVLLYRAR 175 (189)
T ss_pred HhHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 333334567899999999 999999999876443
No 76
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=42.17 E-value=40 Score=25.55 Aligned_cols=40 Identities=18% Similarity=0.076 Sum_probs=30.0
Q ss_pred HHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhccc
Q 031483 18 DDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLSKK 58 (159)
Q Consensus 18 D~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~~~ 58 (159)
...++.|+...|-....||..+ |-+.+.||.|.+..+..-
T Consensus 132 ~R~v~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~ 171 (178)
T PRK12529 132 VKQAFLMATLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTC 171 (178)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3444555555678899999999 889999999987665543
No 77
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=40.76 E-value=35 Score=25.61 Aligned_cols=27 Identities=11% Similarity=-0.092 Sum_probs=20.7
Q ss_pred hCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 28 LGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 28 ~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
.|.....||..+ |.+.+.|+++.+...
T Consensus 151 ~g~s~~eIA~~l-gis~~~v~~~l~Rar 177 (187)
T TIGR02948 151 EDLSLKEISEIL-DLPVGTVKTRIHRGR 177 (187)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 456788999988 778889988876433
No 78
>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=40.53 E-value=40 Score=25.06 Aligned_cols=38 Identities=21% Similarity=0.196 Sum_probs=26.4
Q ss_pred HHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 18 DDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 18 D~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
+..++.++...|-+...||..+ |-|...|++|....++
T Consensus 124 ~r~i~~l~~~~g~s~~eiA~~l-gis~~tv~~~l~Ra~~ 161 (169)
T TIGR02954 124 YQTAIILRYYHDLTIKEIAEVM-NKPEGTVKTYLHRALK 161 (169)
T ss_pred HhHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3344444445567889999988 7788999988775443
No 79
>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=40.36 E-value=33 Score=23.79 Aligned_cols=22 Identities=23% Similarity=0.475 Sum_probs=19.1
Q ss_pred HHHHHHHHHHhCCCchhhhhcC
Q 031483 18 DDLIIRLHKLLGNRWALIAKRV 39 (159)
Q Consensus 18 D~~L~~lv~~~G~~W~~Ia~~l 39 (159)
|-.|...++..|..|.++|..|
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L 25 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL 25 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc
Confidence 5567788899999999999987
No 80
>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=40.34 E-value=30 Score=26.05 Aligned_cols=27 Identities=15% Similarity=0.022 Sum_probs=20.9
Q ss_pred hCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 28 LGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 28 ~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
.|-....||..+ |-|.+.|+++.+...
T Consensus 153 ~~~s~~EIA~~l-gis~~tv~~~l~rar 179 (190)
T TIGR02939 153 EGLSYEDIARIM-DCPVGTVRSRIFRAR 179 (190)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 456789999988 778889998876443
No 81
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=40.25 E-value=43 Score=25.68 Aligned_cols=35 Identities=11% Similarity=-0.000 Sum_probs=25.0
Q ss_pred HHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 21 IIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 21 L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
++.+....|-...+||..| |-+...|+.|.+..++
T Consensus 149 v~~l~~~eg~s~~EIA~~l-gis~~tVk~rl~ra~~ 183 (194)
T PRK12531 149 VLQAVYLEELPHQQVAEMF-DIPLGTVKSRLRLAVE 183 (194)
T ss_pred HHHHHHHcCCCHHHHHHHh-CcCHHHHHHHHHHHHH
Confidence 3334344567789999998 8899999998764443
No 82
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=40.07 E-value=44 Score=24.89 Aligned_cols=36 Identities=22% Similarity=0.171 Sum_probs=26.0
Q ss_pred HHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 19 DLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 19 ~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
..++.|..-.|-.-..||..+ |.+...|+.|.+..+
T Consensus 124 r~vl~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~ 159 (173)
T PRK09645 124 RAVLVRSYYRGWSTAQIAADL-GIPEGTVKSRLHYAL 159 (173)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 334444445577789999999 888999999877444
No 83
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=39.90 E-value=47 Score=24.38 Aligned_cols=34 Identities=15% Similarity=0.005 Sum_probs=24.7
Q ss_pred HHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 20 LIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 20 ~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
.++.+....|-.-..||..+ |-+...|++|....
T Consensus 113 ~v~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra 146 (160)
T PRK09642 113 DVVLAHYLEEKSYQEIALQE-KIEVKTVEMKLYRA 146 (160)
T ss_pred HHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHHHHH
Confidence 33444444567789999999 88999999986643
No 84
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=39.40 E-value=46 Score=25.10 Aligned_cols=39 Identities=10% Similarity=0.133 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 17 EDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 17 ED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
++..++.++...|-....||..| |-+...|+.+....++
T Consensus 135 ~~r~v~~l~~~~g~s~~eIA~~l-~is~~tV~~~l~ra~~ 173 (184)
T PRK12512 135 RQRDVVQSISVEGASIKETAAKL-SMSEGAVRVALHRGLA 173 (184)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 34445555555678899999999 8888999998775443
No 85
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=39.26 E-value=50 Score=24.25 Aligned_cols=39 Identities=21% Similarity=0.141 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 17 EDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 17 ED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
++..++.++...|-.-..||..| |-+...|+.|....++
T Consensus 109 ~~r~v~~l~~~~~~s~~eIA~~l-gis~~tv~~~l~ra~~ 147 (159)
T PRK12527 109 ACRDSFLLRKLEGLSHQQIAEHL-GISRSLVEKHIVNAMK 147 (159)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 34444555545567789999999 8899999998765443
No 86
>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=39.20 E-value=48 Score=25.45 Aligned_cols=34 Identities=9% Similarity=0.115 Sum_probs=24.9
Q ss_pred HHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 21 IIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 21 L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
++.++...|.....||..| |-+.+.|+.|....+
T Consensus 139 v~~l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar 172 (188)
T TIGR02943 139 VFMMREVLGFESDEICQEL-EISTSNCHVLLYRAR 172 (188)
T ss_pred HHHHHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHH
Confidence 3444444567889999999 889999998876543
No 87
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=38.25 E-value=86 Score=22.10 Aligned_cols=46 Identities=15% Similarity=0.128 Sum_probs=36.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCchhhhhcCCCC-CHHHHHHHHHHhhc
Q 031483 10 RGNFTEEEDDLIIRLHKLLGNRWALIAKRVPGR-TDNQVKNYWNSHLS 56 (159)
Q Consensus 10 k~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgR-T~~q~knRw~~~l~ 56 (159)
+..||+|.-..+++++..-|..=+.||+.+ |- ..+++..-++.+..
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l~~W~~~~~~ 51 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQLYKWRIQLQK 51 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHHHHHHHHHHH
Confidence 678999999999999999999899999999 64 66666554444433
No 88
>PRK04217 hypothetical protein; Provisional
Probab=38.20 E-value=85 Score=22.86 Aligned_cols=43 Identities=26% Similarity=0.083 Sum_probs=33.7
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 11 GNFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 11 ~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
..-|.+| ..++.+....|-....||+.+ |.+...|+.+++...
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RAr 83 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSAR 83 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 3455555 677777777888999999999 899999999987543
No 89
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=37.92 E-value=50 Score=25.07 Aligned_cols=37 Identities=24% Similarity=0.210 Sum_probs=26.7
Q ss_pred HHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 18 DDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 18 D~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
+..++.++...|.....||..| |-+...|+.|.+..+
T Consensus 144 ~r~i~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~ 180 (189)
T PRK09648 144 QREILILRVVVGLSAEETAEAV-GSTPGAVRVAQHRAL 180 (189)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3444555555578899999999 888888888876544
No 90
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=37.88 E-value=43 Score=25.47 Aligned_cols=27 Identities=15% Similarity=0.019 Sum_probs=20.7
Q ss_pred HhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 27 LLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 27 ~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
..|-....||..+ |-+.+.|++|....
T Consensus 152 ~~g~s~~eIA~~l-gis~~tv~~~l~Ra 178 (193)
T PRK11923 152 FDGLSYEDIASVM-QCPVGTVRSRIFRA 178 (193)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHH
Confidence 3456788999988 77888888887643
No 91
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=37.78 E-value=47 Score=25.37 Aligned_cols=38 Identities=21% Similarity=0.144 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 17 EDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 17 ED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
++..++.+....|-....||..| |-+...|++|.....
T Consensus 110 ~~r~i~~l~~~~g~~~~EIA~~l-gis~~tV~~~l~Rar 147 (181)
T PRK09637 110 KYAEALRLTELEGLSQKEIAEKL-GLSLSGAKSRVQRGR 147 (181)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHh-CCCHHHHHHHHHHHH
Confidence 34445555555678899999999 888889988876443
No 92
>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=37.68 E-value=35 Score=22.68 Aligned_cols=30 Identities=17% Similarity=0.423 Sum_probs=21.3
Q ss_pred HHHHHHHHHHH-hCCCchhhhhcCCCCCHHHH
Q 031483 17 EDDLIIRLHKL-LGNRWALIAKRVPGRTDNQV 47 (159)
Q Consensus 17 ED~~L~~lv~~-~G~~W~~Ia~~lpgRT~~q~ 47 (159)
-++.|..++.. .|..|..+|+.++- +..++
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~Lg~-~~~~i 34 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKLGL-SEADI 34 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHcCC-CHHHH
Confidence 34566677777 89999999999953 44443
No 93
>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=37.37 E-value=31 Score=23.44 Aligned_cols=33 Identities=21% Similarity=0.441 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHH
Q 031483 15 EEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKN 49 (159)
Q Consensus 15 ~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~kn 49 (159)
.||-++|+.. -..|..|...|..| |=++..|++
T Consensus 2 ~~~v~~ll~~-~nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLES-GRPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhC-CCCccCHHHHHHHc-CCCHHHHHH
Confidence 5777888743 24678999999999 666666655
No 94
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=36.32 E-value=42 Score=25.22 Aligned_cols=36 Identities=25% Similarity=0.303 Sum_probs=26.1
Q ss_pred HHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 20 LIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 20 ~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
.++.++...|-...+||..+ |-+...|++|....++
T Consensus 126 ~i~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~ 161 (172)
T PRK09651 126 EAFLLSQLDGLTYSEIAHKL-GVSVSSVKKYVAKATE 161 (172)
T ss_pred HHhhhhhccCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 33344444567789999999 8899999998775543
No 95
>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=36.17 E-value=33 Score=23.64 Aligned_cols=21 Identities=19% Similarity=0.422 Sum_probs=18.6
Q ss_pred HHHHHHHHHhCCCchhhhhcC
Q 031483 19 DLIIRLHKLLGNRWALIAKRV 39 (159)
Q Consensus 19 ~~L~~lv~~~G~~W~~Ia~~l 39 (159)
.-|..++...|..|..+|.++
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L 23 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL 23 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc
Confidence 457788999999999999998
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=36.15 E-value=72 Score=18.66 Aligned_cols=34 Identities=18% Similarity=0.137 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHH
Q 031483 16 EEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNY 50 (159)
Q Consensus 16 eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knR 50 (159)
=|-+.|.+....+|++.+..|+.+ |=+...+..+
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~k 38 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRK 38 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHH
Confidence 377889999999999999999988 4444444443
No 97
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=35.81 E-value=54 Score=24.55 Aligned_cols=34 Identities=21% Similarity=0.262 Sum_probs=24.8
Q ss_pred HHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 21 IIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 21 L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
++.+....|-.-..||..| |.+...|+.|.+..+
T Consensus 137 i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~Rar 170 (179)
T PRK12514 137 AVRRAYLEGLSYKELAERH-DVPLNTMRTWLRRSL 170 (179)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCChHHHHHHHHHHH
Confidence 3334334467789999999 899999999876443
No 98
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=35.55 E-value=57 Score=24.78 Aligned_cols=36 Identities=19% Similarity=0.067 Sum_probs=26.0
Q ss_pred HHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 19 DLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 19 ~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
..++.+....|-....||..| |-+...|++|.....
T Consensus 137 r~vl~l~~~~~~s~~eIA~~l-gis~~tV~~~l~Rar 172 (189)
T PRK12515 137 REIIDLVYYHEKSVEEVGEIV-GIPESTVKTRMFYAR 172 (189)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 334444445577899999999 779999999877543
No 99
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=34.90 E-value=62 Score=23.78 Aligned_cols=37 Identities=24% Similarity=0.252 Sum_probs=26.9
Q ss_pred HHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 19 DLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 19 ~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
..++.|..-.|-....||..+ |-+.+.|+.|....++
T Consensus 119 r~v~~L~~~~g~s~~EIA~~l-~is~~tV~~~l~ra~~ 155 (161)
T PRK12528 119 KRAFLLAQVDGLGYGEIATEL-GISLATVKRYLNKAAM 155 (161)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 334444445677899999998 8888999998775543
No 100
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=34.42 E-value=60 Score=24.43 Aligned_cols=28 Identities=18% Similarity=0.076 Sum_probs=21.6
Q ss_pred HhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 27 LLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 27 ~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
..|-+-..||..+ |-+...|+.|.+..+
T Consensus 149 ~~~~s~~eIA~~l-gis~~~V~~~l~ra~ 176 (186)
T PRK13919 149 YQGYTHREAAQLL-GLPLGTLKTRARRAL 176 (186)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 3456779999998 888899998876544
No 101
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=34.38 E-value=55 Score=24.98 Aligned_cols=36 Identities=19% Similarity=0.156 Sum_probs=26.2
Q ss_pred HHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 20 LIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 20 ~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
.++.|..-.|-....||..+ |-+...|+.|.+..++
T Consensus 137 ~v~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 172 (185)
T PRK09649 137 EALLLTQLLGLSYADAAAVC-GCPVGTIRSRVARARD 172 (185)
T ss_pred HHhhhHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 33444444567789999999 8899999999775443
No 102
>PF08109 Antimicrobial14: Lactocin 705 family; InterPro: IPR012517 This family consists of lactocin 705 which is a bacteriocin produced by Lactobacillus casei CRL 705. Lactocin 705 is a class IIb bacteriocin, whose activity depends upon the complementation of two peptides (705-alpha and 705-beta) of 33 amino acid residues each. Lactocin 705 is active against several Gram-positive bacteria, including food-borne pathogens and is a good candidate to be used for biopreservation of fermented meats [].
Probab=34.37 E-value=10 Score=21.09 Aligned_cols=10 Identities=30% Similarity=0.733 Sum_probs=7.4
Q ss_pred hhhhhhcccc
Q 031483 147 FTMKGFVDGY 156 (159)
Q Consensus 147 ~~~~~~l~~~ 156 (159)
+-|+|||-||
T Consensus 7 qgipdflkgy 16 (31)
T PF08109_consen 7 QGIPDFLKGY 16 (31)
T ss_pred cccHHHHHHH
Confidence 4577888887
No 103
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=34.16 E-value=66 Score=20.24 Aligned_cols=35 Identities=23% Similarity=0.476 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHH
Q 031483 16 EEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYW 51 (159)
Q Consensus 16 eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw 51 (159)
+.|+-.+.+..+.|-+-.+||+++ ||+-+.|++.-
T Consensus 7 ~~Eqaqid~m~qlG~s~~~isr~i-~RSr~~Ir~yl 41 (50)
T PF11427_consen 7 DAEQAQIDVMHQLGMSLREISRRI-GRSRTCIRRYL 41 (50)
T ss_dssp HHHHHHHHHHHHTT--HHHHHHHH-T--HHHHHHHH
T ss_pred HHHHHHHHHHHHhchhHHHHHHHh-CccHHHHHHHh
Confidence 345555666688999999999999 99998888753
No 104
>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=33.32 E-value=66 Score=24.08 Aligned_cols=35 Identities=20% Similarity=0.244 Sum_probs=25.5
Q ss_pred HHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 20 LIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 20 ~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
.++.|....|-....||..+ |-+...|+.|.+...
T Consensus 141 ~v~~l~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar 175 (183)
T TIGR02999 141 EVVELRFFAGLTVEEIAELL-GVSVRTVERDWRFAR 175 (183)
T ss_pred HHHHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHH
Confidence 33444444567889999999 889999999877543
No 105
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=32.43 E-value=71 Score=23.11 Aligned_cols=36 Identities=25% Similarity=0.187 Sum_probs=24.7
Q ss_pred HHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 20 LIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 20 ~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
.++.+.-..|-....||..+ |.+...|+.+-...++
T Consensus 113 ~ii~l~~~~~~s~~EIA~~l-~is~~tV~~~~~ra~~ 148 (154)
T PRK06759 113 YIIFERFFVGKTMGEIALET-EMTYYQVRWIYRQALE 148 (154)
T ss_pred HHHHHHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 33444444566788999988 8888888888665443
No 106
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=32.41 E-value=65 Score=24.96 Aligned_cols=27 Identities=15% Similarity=0.037 Sum_probs=21.4
Q ss_pred HhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 27 LLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 27 ~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
..|-.-..||..+ |.+...||.|....
T Consensus 153 ~eg~s~~EIA~~l-gis~~tVk~~l~RA 179 (201)
T PRK12545 153 FLDFEIDDICTEL-TLTANHCSVLLYRA 179 (201)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 3456789999999 88999999886633
No 107
>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=32.37 E-value=68 Score=23.53 Aligned_cols=32 Identities=25% Similarity=0.130 Sum_probs=22.4
Q ss_pred HHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 22 IRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 22 ~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
+.+..-.|-+...||..+ |.+...|+.|-...
T Consensus 131 l~l~~~~g~s~~eIA~~l-~is~~tv~~~l~ra 162 (170)
T TIGR02952 131 IALRFGQNLPIAEVARIL-GKTEGAVKILQFRA 162 (170)
T ss_pred HHHHHhcCCCHHHHHHHH-CCCHHHHHHHHHHH
Confidence 333334467788999988 78888888876543
No 108
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=32.11 E-value=69 Score=24.16 Aligned_cols=37 Identities=30% Similarity=0.160 Sum_probs=27.6
Q ss_pred HHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 18 DDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 18 D~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
+..++.++...|-....||..| |.+...|+++-+..+
T Consensus 134 ~r~v~~l~~~~g~s~~EIA~~l-~is~~tV~~~l~rar 170 (181)
T PRK12536 134 QRLPIVHVKLEGLSVAETAQLT-GLSESAVKVGIHRGL 170 (181)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3344555556678899999999 899999999876543
No 109
>PLN03162 golden-2 like transcription factor; Provisional
Probab=31.99 E-value=1.4e+02 Score=26.82 Aligned_cols=46 Identities=13% Similarity=0.062 Sum_probs=37.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC---CchhhhhcC--CCCCHHHHHHHHHHh
Q 031483 9 NRGNFTEEEDDLIIRLHKLLGN---RWALIAKRV--PGRTDNQVKNYWNSH 54 (159)
Q Consensus 9 kk~~WT~eED~~L~~lv~~~G~---~W~~Ia~~l--pgRT~~q~knRw~~~ 54 (159)
.|-.||+|=.++.+++|.++|. .=+.|-+.| +|=|-.+|+.|.+.|
T Consensus 236 pRLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKY 286 (526)
T PLN03162 236 AKVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKY 286 (526)
T ss_pred CcccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 3468999999999999999993 366776655 688999999986644
No 110
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=31.98 E-value=59 Score=22.30 Aligned_cols=30 Identities=13% Similarity=0.462 Sum_probs=21.0
Q ss_pred HHHHHHHHHhCCCchhhhhcCCCCCHHHHHH
Q 031483 19 DLIIRLHKLLGNRWALIAKRVPGRTDNQVKN 49 (159)
Q Consensus 19 ~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~kn 49 (159)
..+--++...|..|..+|+++ |=|+.++..
T Consensus 3 ~~f~~i~~~lG~~Wk~laR~L-Glse~~Id~ 32 (86)
T cd08306 3 AAFDVICENVGRDWRKLARKL-GLSETKIES 32 (86)
T ss_pred HHHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 344455667899999999998 556655443
No 111
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=31.57 E-value=66 Score=24.54 Aligned_cols=29 Identities=17% Similarity=0.228 Sum_probs=22.1
Q ss_pred HHHHhCCCchhhhhcCCCCCHHHHHHHHHH
Q 031483 24 LHKLLGNRWALIAKRVPGRTDNQVKNYWNS 53 (159)
Q Consensus 24 lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~ 53 (159)
++...|-.-..||..| |-+...|+.|.+.
T Consensus 147 L~~~~g~s~~EIA~~l-gis~~tVk~~l~R 175 (195)
T PRK12532 147 LKEILGFSSDEIQQMC-GISTSNYHTIMHR 175 (195)
T ss_pred hHHHhCCCHHHHHHHH-CCCHHHHHHHHHH
Confidence 3334567789999988 8888899888764
No 112
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=31.46 E-value=70 Score=24.56 Aligned_cols=38 Identities=18% Similarity=0.085 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 17 EDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 17 ED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
++..++.|....|-...+||..| |-+...|+.|-...+
T Consensus 120 ~~r~i~~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar 157 (187)
T PRK12516 120 DQREAIILVGASGFAYEEAAEIC-GCAVGTIKSRVNRAR 157 (187)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 34455555555678899999999 888999998866433
No 113
>PRK01905 DNA-binding protein Fis; Provisional
Probab=30.84 E-value=1.1e+02 Score=20.39 Aligned_cols=37 Identities=19% Similarity=0.220 Sum_probs=27.2
Q ss_pred CHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHH
Q 031483 14 TEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYW 51 (159)
Q Consensus 14 T~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw 51 (159)
..-|...+.++...+|+++++.|+.+ |=+...++.+.
T Consensus 35 ~~~E~~~i~~aL~~~~gn~s~aAr~L-GIsrstL~rkl 71 (77)
T PRK01905 35 SCVEKPLLEVVMEQAGGNQSLAAEYL-GINRNTLRKKL 71 (77)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHH
Confidence 34577788999999999999999888 44444454443
No 114
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=30.57 E-value=76 Score=24.11 Aligned_cols=28 Identities=11% Similarity=-0.105 Sum_probs=21.8
Q ss_pred HhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 27 LLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 27 ~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
-.|-.-..||..| |-+.+.|+.|....+
T Consensus 145 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar 172 (191)
T PRK12520 145 WLELETEEICQEL-QITATNAWVLLYRAR 172 (191)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3466779999998 889999999876443
No 115
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=30.02 E-value=75 Score=24.00 Aligned_cols=34 Identities=29% Similarity=0.278 Sum_probs=24.5
Q ss_pred HHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 22 IRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 22 ~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
+.+....|-.-..||..+ |-+.+.|++|.+..++
T Consensus 142 ~~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~ 175 (182)
T PRK12537 142 ILHAYVDGCSHAEIAQRL-GAPLGTVKAWIKRSLK 175 (182)
T ss_pred HHHHHHcCCCHHHHHHHH-CCChhhHHHHHHHHHH
Confidence 444444566788999988 8888899988775543
No 116
>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=29.94 E-value=75 Score=23.23 Aligned_cols=40 Identities=18% Similarity=0.154 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 16 EEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 16 eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
+++..++.+....|-+-..||..| |-+...|+.|....++
T Consensus 113 ~~~r~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~ 152 (162)
T TIGR02983 113 ARQRAVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALA 152 (162)
T ss_pred HHHHHHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 345555656556677889999988 8888999988775443
No 117
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=29.83 E-value=71 Score=24.11 Aligned_cols=37 Identities=11% Similarity=-0.020 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 17 EDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 17 ED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
++..++.+..-.|-....||..+ |-+.+.|+.|.+..
T Consensus 132 ~~r~i~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra 168 (186)
T PRK05602 132 RQREAIVLQYYQGLSNIEAAAVM-DISVDALESLLARG 168 (186)
T ss_pred HHHHHhhHHHhcCCCHHHHHHHh-CcCHHHHHHHHHHH
Confidence 33444445445577788999888 77888888876543
No 118
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=29.68 E-value=78 Score=24.25 Aligned_cols=34 Identities=15% Similarity=0.022 Sum_probs=24.0
Q ss_pred HHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 20 LIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 20 ~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
.++.++...|-.+..||..+ |=+...|++|-...
T Consensus 143 ~i~~L~~~~g~s~~eIA~~l-gis~~tV~~~l~Ra 176 (196)
T PRK12524 143 QAVVLRHIEGLSNPEIAEVM-EIGVEAVESLTARG 176 (196)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 34445445677899999988 77777887776543
No 119
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=29.36 E-value=81 Score=23.83 Aligned_cols=34 Identities=12% Similarity=0.267 Sum_probs=24.8
Q ss_pred HHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 21 IIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 21 L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
++.+....|-....||..| |-+...|+.|.....
T Consensus 130 i~~l~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar 163 (185)
T PRK12542 130 VFKYKVFYNLTYQEISSVM-GITEANVRKQFERAR 163 (185)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3344444567889999999 889999999866433
No 120
>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=28.85 E-value=73 Score=26.39 Aligned_cols=29 Identities=24% Similarity=0.233 Sum_probs=22.5
Q ss_pred HHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 26 KLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 26 ~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
...|-.-..||..| |.+.+.|+.|.+..+
T Consensus 155 ~~~g~s~~EIA~~l-gis~~tV~~~l~Rar 183 (324)
T TIGR02960 155 DVLGWRAAETAELL-GTSTASVNSALQRAR 183 (324)
T ss_pred HHhCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 34567789999999 889999999866433
No 121
>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=28.65 E-value=26 Score=25.47 Aligned_cols=26 Identities=15% Similarity=0.003 Sum_probs=20.4
Q ss_pred CCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 29 GNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 29 G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
|-.+..||..| |-+...|+++.+...
T Consensus 121 g~s~~eIA~~l-gis~~tv~~~l~Ra~ 146 (154)
T TIGR02950 121 EFSYKEIAELL-NLSLAKVKSNLFRAR 146 (154)
T ss_pred cCcHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 45689999988 778889998877543
No 122
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=28.58 E-value=1.1e+02 Score=22.34 Aligned_cols=43 Identities=23% Similarity=0.186 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHhCC-CchhhhhcCCCCCHHHHHHHHHHhhcccc
Q 031483 16 EEDDLIIRLHKLLGN-RWALIAKRVPGRTDNQVKNYWNSHLSKKL 59 (159)
Q Consensus 16 eED~~L~~lv~~~G~-~W~~Ia~~lpgRT~~q~knRw~~~l~~~~ 59 (159)
+-|..|+.+.+.-|. .+..||+.+ |-+...|++|-..+.+..+
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~Gi 51 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGV 51 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCc
Confidence 457777777777775 599999999 8999999999998888775
No 123
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=28.40 E-value=87 Score=31.35 Aligned_cols=45 Identities=20% Similarity=0.355 Sum_probs=36.8
Q ss_pred CCCCHHHHHHHHHHHHHhCC-CchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 11 GNFTEEEDDLIIRLHKLLGN-RWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 11 ~~WT~eED~~L~~lv~~~G~-~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
..||.-+=...+.++.+||. .-..||..|.|+|..+|+.+.....
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~~f~ 870 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAKVFW 870 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence 36888888888888999994 5899999999999999987644333
No 124
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=28.34 E-value=92 Score=23.06 Aligned_cols=36 Identities=17% Similarity=0.005 Sum_probs=25.1
Q ss_pred HHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 19 DLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 19 ~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
..++.++...|-....||..+ |-+...|++|-+...
T Consensus 118 r~v~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~Rar 153 (164)
T PRK12547 118 REAIILIGASGFSYEDAAAIC-GCAVGTIKSRVSRAR 153 (164)
T ss_pred HHHHHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHH
Confidence 334444445567789999998 788888888766443
No 125
>TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are apparently found only in the Planctomycetaceae family including the genuses Gemmata and Pirellula (in which seven sequences are found).
Probab=28.19 E-value=87 Score=23.38 Aligned_cols=33 Identities=33% Similarity=0.533 Sum_probs=23.1
Q ss_pred HHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 22 IRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 22 ~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
+.++...|-....||..+ |-|...|+.+.+..+
T Consensus 149 i~l~~~~g~s~~eIA~~l-gis~~~v~~~l~Ra~ 181 (189)
T TIGR02984 149 ILLRHLEGLSFAEVAERM-DRSEGAVSMLWVRGL 181 (189)
T ss_pred HHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 333334567788888888 888888888876544
No 126
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=27.40 E-value=60 Score=21.60 Aligned_cols=23 Identities=17% Similarity=0.502 Sum_probs=18.0
Q ss_pred HHHHHHHHHHhCCCchhhhhcCCCC
Q 031483 18 DDLIIRLHKLLGNRWALIAKRVPGR 42 (159)
Q Consensus 18 D~~L~~lv~~~G~~W~~Ia~~lpgR 42 (159)
+.+|-+||..|| |...+.+++-|
T Consensus 12 e~il~~Lv~~yG--W~~L~~~i~i~ 34 (64)
T PF09905_consen 12 ETILTELVEHYG--WEELGERININ 34 (64)
T ss_dssp HHHHHHHHHHT---HHHHHHHTTSS
T ss_pred HHHHHHHHHHhC--HHHHHhhcccc
Confidence 578889999997 99999887643
No 127
>PRK00118 putative DNA-binding protein; Validated
Probab=26.82 E-value=1e+02 Score=22.18 Aligned_cols=39 Identities=15% Similarity=0.075 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 15 EEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 15 ~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
++.+..++.++...|-....||..+ |-|.+.|+.+-...
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RA 57 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRT 57 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 4556677777777889999999999 88888888876543
No 128
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=26.64 E-value=96 Score=23.71 Aligned_cols=36 Identities=19% Similarity=0.138 Sum_probs=24.9
Q ss_pred HHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 19 DLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 19 ~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
..++.+....|-....||..+ |-+...|+.|-+..+
T Consensus 148 r~vl~l~~~~~~s~~EIA~~L-gis~~tVk~~l~ra~ 183 (194)
T PRK09646 148 RESVTLAYYGGLTYREVAERL-AVPLGTVKTRMRDGL 183 (194)
T ss_pred HHHHHHHHHcCCCHHHHHHHh-CCChHhHHHHHHHHH
Confidence 334444445567789999999 678888888765433
No 129
>PF12091 DUF3567: Protein of unknown function (DUF3567); InterPro: IPR021951 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 90 amino acids in length. This protein has a conserved EIVDK sequence motif.
Probab=25.99 E-value=21 Score=25.07 Aligned_cols=15 Identities=27% Similarity=0.426 Sum_probs=11.6
Q ss_pred CchhhhhhhcccccC
Q 031483 144 GTFFTMKGFVDGYSL 158 (159)
Q Consensus 144 ~~~~~~~~~l~~~~~ 158 (159)
.+...+.+||+||+.
T Consensus 62 Pt~EevDdfL~~y~~ 76 (85)
T PF12091_consen 62 PTQEEVDDFLGGYDA 76 (85)
T ss_pred CCHHHHHHHHHHHHH
Confidence 455568999999974
No 130
>cd01670 Death Death Domain: a protein-protein interaction domain. Death Domains (DDs) are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. Structural analysis of DD-DD complexes show that the domains interact with each other in many different ways. DD-containing proteins serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes. In mammals, they are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways. In invertebrates, they are involved in transcriptional regulation of zygotic patterning genes in insect embryogenesis, and are components of the ToII/NF-kappaB pathway, a conserved innate immune pathway in a
Probab=25.98 E-value=64 Score=20.86 Aligned_cols=20 Identities=30% Similarity=0.660 Sum_probs=16.2
Q ss_pred HHHHHHHhCCCchhhhhcCC
Q 031483 21 IIRLHKLLGNRWALIAKRVP 40 (159)
Q Consensus 21 L~~lv~~~G~~W~~Ia~~lp 40 (159)
+..++...|..|..+|..++
T Consensus 2 ~~~ia~~lg~~W~~la~~Lg 21 (79)
T cd01670 2 LDKLAKKLGKDWKKLARKLG 21 (79)
T ss_pred HHHHHHHHhhHHHHHHHHhC
Confidence 44567788999999999984
No 131
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=25.96 E-value=1e+02 Score=23.44 Aligned_cols=39 Identities=28% Similarity=0.308 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 16 EEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 16 eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
+++..++.+....|-.-..||..+ |.|...|++|-+...
T Consensus 134 ~~~r~i~~l~~~~g~s~~EIAe~l-gis~~~V~~~l~Ra~ 172 (189)
T PRK06811 134 KLDREIFIRRYLLGEKIEEIAKKL-GLTRSAIDNRLSRGR 172 (189)
T ss_pred HHHHHHHHHHHHccCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 344455555445577789999998 888899998866443
No 132
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=25.62 E-value=48 Score=26.35 Aligned_cols=27 Identities=15% Similarity=0.039 Sum_probs=20.8
Q ss_pred hCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 28 LGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 28 ~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
.|-....||..| |.+...|++|.+..+
T Consensus 164 ~g~s~~EIAe~l-gis~~tVk~~l~Rar 190 (231)
T PRK11922 164 EELSVEETAQAL-GLPEETVKTRLHRAR 190 (231)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 356688999988 888999998876443
No 133
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=25.57 E-value=1.7e+02 Score=22.97 Aligned_cols=43 Identities=12% Similarity=0.111 Sum_probs=32.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhcc
Q 031483 12 NFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLSK 57 (159)
Q Consensus 12 ~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~~ 57 (159)
..|+-|-+.|.-++ -|...++||..+ |-+...|++|-.+.+++
T Consensus 137 ~LT~RE~eVL~lla--~G~snkeIA~~L-~iS~~TVk~h~~~I~~K 179 (207)
T PRK15411 137 SLSRTESSMLRMWM--AGQGTIQISDQM-NIKAKTVSSHKGNIKRK 179 (207)
T ss_pred cCCHHHHHHHHHHH--cCCCHHHHHHHc-CCCHHHHHHHHHHHHHH
Confidence 48888888776553 367789999999 78999999876655544
No 134
>PRK09415 RNA polymerase factor sigma C; Reviewed
Probab=25.44 E-value=90 Score=23.52 Aligned_cols=34 Identities=24% Similarity=0.150 Sum_probs=22.8
Q ss_pred HHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 21 IIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 21 L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
++.++.-.|-.-..||..| |-+...|+.|....+
T Consensus 135 v~~l~~~~g~s~~EIA~~l-~is~~tv~~~l~Ra~ 168 (179)
T PRK09415 135 VIYLFYYEELSIKEIAEVT-GVNENTVKTRLKKAK 168 (179)
T ss_pred HhHhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3334334456778888888 668888888876544
No 135
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=25.27 E-value=1.6e+02 Score=20.72 Aligned_cols=34 Identities=12% Similarity=0.058 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHH
Q 031483 16 EEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNY 50 (159)
Q Consensus 16 eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knR 50 (159)
-|...|..+...+|+++++.|+.+ |=+...++.+
T Consensus 55 ~Er~~i~~aL~~~~gn~s~AAr~L-GIsRsTL~rK 88 (95)
T PRK00430 55 VEAPLLDMVMQYTRGNQTRAALML-GINRGTLRKK 88 (95)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHh-CCCHHHHHHH
Confidence 477788889999999999999988 4455455444
No 136
>COG5352 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.69 E-value=66 Score=24.95 Aligned_cols=38 Identities=26% Similarity=0.309 Sum_probs=28.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHH
Q 031483 12 NFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNY 50 (159)
Q Consensus 12 ~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knR 50 (159)
.||.|.-++|.+|.. -|=.=++||+.+.|=+.|.|--.
T Consensus 2 nWtdERve~LkKLWs-eGLSASQIAaQLGGVsRnAVIGK 39 (169)
T COG5352 2 NWTDERVETLKKLWS-EGLSASQIAAQLGGVSRNAVIGK 39 (169)
T ss_pred CchHHHHHHHHHHHH-cccCHHHHHHHhcCcchhhhhee
Confidence 599999999987733 24445889999998887776543
No 137
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=24.45 E-value=1.1e+02 Score=22.36 Aligned_cols=36 Identities=19% Similarity=0.239 Sum_probs=25.3
Q ss_pred HHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 18 DDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 18 D~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
...++.+.. .|-.-..||..| |-+...|+++....+
T Consensus 117 ~r~il~l~~-~g~s~~eIA~~l-gis~~tV~~~i~ra~ 152 (166)
T PRK09639 117 DRTVLLLRF-SGYSYKEIAEAL-GIKESSVGTTLARAK 152 (166)
T ss_pred HHHHHHHHH-cCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 344445555 677788999988 888888888876433
No 138
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=24.36 E-value=1.1e+02 Score=23.70 Aligned_cols=29 Identities=14% Similarity=0.054 Sum_probs=22.0
Q ss_pred HhCCCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 27 LLGNRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 27 ~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
..|-.-..||..+ |.+.+.|+.|.+..++
T Consensus 167 ~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~ 195 (206)
T PRK12526 167 FQELSQEQLAQQL-NVPLGTVKSRLRLALA 195 (206)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3456778999988 8889999988764443
No 139
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=24.21 E-value=98 Score=24.60 Aligned_cols=37 Identities=14% Similarity=0.178 Sum_probs=25.4
Q ss_pred HHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 19 DLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 19 ~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
..++.++...|-....||..+ |-+...|+.+.+..++
T Consensus 190 r~vl~l~~~~g~s~~EIA~~l-gis~~tV~~~~~ra~~ 226 (236)
T PRK06986 190 QLVLSLYYQEELNLKEIGAVL-GVSESRVSQIHSQAIK 226 (236)
T ss_pred HHHHHhHhccCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 333444444566789999998 8888888888665443
No 140
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=24.16 E-value=99 Score=23.81 Aligned_cols=37 Identities=22% Similarity=0.109 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 17 EDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 17 ED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
+...++.|+...|-....||..+ |-+...|+.|-+..
T Consensus 117 ~~r~v~~L~~~~g~s~~EIA~~L-giS~~tVk~~l~Ra 153 (188)
T PRK12546 117 EQREALILVGASGFSYEEAAEMC-GVAVGTVKSRANRA 153 (188)
T ss_pred HHhHHhhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHH
Confidence 33445555556678899999999 78888888876643
No 141
>PRK12544 RNA polymerase sigma factor; Provisional
Probab=24.11 E-value=1.2e+02 Score=23.81 Aligned_cols=27 Identities=7% Similarity=-0.072 Sum_probs=21.3
Q ss_pred hCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 28 LGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 28 ~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
.|-.-..||..| |-|.+.|+.|.+..+
T Consensus 163 ~g~s~~EIAe~l-gis~~tV~~~l~RAr 189 (206)
T PRK12544 163 IELETNEICHAV-DLSVSNLNVLLYRAR 189 (206)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 456779999999 888999999876443
No 142
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=23.99 E-value=1.1e+02 Score=25.21 Aligned_cols=28 Identities=18% Similarity=0.299 Sum_probs=22.5
Q ss_pred HhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 27 LLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 27 ~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
.+|-.-.+||..+ |.+...||.|.+...
T Consensus 129 ~~g~s~~EIA~~l-g~s~~tVk~~l~RAr 156 (293)
T PRK09636 129 VFGVPFDEIASTL-GRSPAACRQLASRAR 156 (293)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3567789999999 999999999877443
No 143
>PF00531 Death: Death domain; InterPro: IPR000488 The death domain (DD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. DD is related in sequence and structure to the death effector domain (DED, see IPR001875 from INTERPRO) and the caspase recruitment domain (CARD, see IPR001315 from INTERPRO), which work in similar pathways and show similar interaction properties []. DD bind each other forming oligomers. Mammals have numerous and diverse DD-containing proteins []. Within these proteins, the DD domains can be found in combination with other domains, including: CARDs, DEDs, ankyrin repeats (IPR002110 from INTERPRO), caspase-like folds, kinase domains, leucine zippers (IPR002158 from INTERPRO), leucine-rich repeats (LRR) (IPR001611 from INTERPRO), TIR domains (IPR000157 from INTERPRO), and ZU5 domains (IPR000906 from INTERPRO) []. Some DD-containing proteins are involved in the regulation of apoptosis and inflammation through their activation of caspases and NF-kappaB, which typically involves interactions with TNF (tumour necrosis factor) cytokine receptors [, ]. In humans, eight of the over 30 known TNF receptors contain DD in their cytoplasmic tails; several of these TNF receptors use caspase activation as a signalling mechanism. The DD mediates self-association of these receptors, thus giving the signal to downstream events that lead to apoptosis. Other DD-containing proteins, such as ankyrin, MyD88 and pelle, are probably not directly involved in cell death signalling. DD-containing proteins also have links to innate immunity, communicating with Toll family receptors through bipartite adapter proteins such as MyD88 [].; GO: 0005515 protein binding, 0007165 signal transduction; PDB: 3OQ9_L 3EZQ_F 1E41_A 1E3Y_A 2GF5_A 2OF5_L 3EWV_E 3G5B_A 3MOP_L 2A9I_A ....
Probab=23.60 E-value=1.1e+02 Score=19.71 Aligned_cols=23 Identities=22% Similarity=0.683 Sum_probs=16.1
Q ss_pred HHHhCCCchhhhhcCCCCCHHHHH
Q 031483 25 HKLLGNRWALIAKRVPGRTDNQVK 48 (159)
Q Consensus 25 v~~~G~~W~~Ia~~lpgRT~~q~k 48 (159)
....|..|..+|..+ |=+..++.
T Consensus 8 ~~~~~~~Wk~La~~L-g~~~~~i~ 30 (83)
T PF00531_consen 8 AEDLGSDWKRLARKL-GLSESEIE 30 (83)
T ss_dssp HHSHSTCHHHHHHHT-TS-HHHHH
T ss_pred hhcchhhHHHHHHHh-CcCHHHHH
Confidence 455789999999998 55554443
No 144
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=23.33 E-value=1.2e+02 Score=24.06 Aligned_cols=43 Identities=23% Similarity=0.271 Sum_probs=32.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhcc
Q 031483 12 NFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLSK 57 (159)
Q Consensus 12 ~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~~ 57 (159)
..|+.|-+.|.-++. |.....||..+ +-+...||++....+++
T Consensus 155 ~Lt~rE~~Vl~l~~~--G~s~~eIA~~L-~iS~~TVk~~~~~i~~K 197 (216)
T PRK10100 155 LLTHREKEILNKLRI--GASNNEIARSL-FISENTVKTHLYNLFKK 197 (216)
T ss_pred CCCHHHHHHHHHHHc--CCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 478766666555544 98999999998 78999999987766544
No 145
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=23.29 E-value=92 Score=23.61 Aligned_cols=30 Identities=30% Similarity=0.159 Sum_probs=20.6
Q ss_pred HHHHhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 24 LHKLLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 24 lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
+....|-.-..||..| |-+...|+.|-+..
T Consensus 152 l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra 181 (194)
T PRK12519 152 LAYYEGLSQSEIAKRL-GIPLGTVKARARQG 181 (194)
T ss_pred hhhhcCCCHHHHHHHh-CCCHHHHHHHHHHH
Confidence 3333456678888888 77888888776543
No 146
>PRK15201 fimbriae regulatory protein FimW; Provisional
Probab=23.25 E-value=1.5e+02 Score=23.98 Aligned_cols=43 Identities=21% Similarity=0.273 Sum_probs=33.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhcc
Q 031483 12 NFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLSK 57 (159)
Q Consensus 12 ~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~~ 57 (159)
..|+.|-+.|.-+++ |.....||..| |-+...|+++-...+++
T Consensus 133 ~LSpRErEVLrLLAq--GkTnKEIAe~L-~IS~rTVkth~srImkK 175 (198)
T PRK15201 133 HFSVTERHLLKLIAS--GYHLSETAALL-SLSEEQTKSLRRSIMRK 175 (198)
T ss_pred CCCHHHHHHHHHHHC--CCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 478888877765544 88899999999 88888898877665544
No 147
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=23.16 E-value=1.2e+02 Score=23.62 Aligned_cols=28 Identities=18% Similarity=0.171 Sum_probs=21.2
Q ss_pred HhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 27 LLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 27 ~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
..|-+-..||..| |-+...|+++.....
T Consensus 152 ~~g~s~~EIA~~L-gis~~tV~~~l~RAr 179 (203)
T PRK09647 152 IEGLSYEEIAATL-GVKLGTVRSRIHRGR 179 (203)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 4466778999988 888888888876443
No 148
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=23.02 E-value=46 Score=24.75 Aligned_cols=30 Identities=23% Similarity=0.280 Sum_probs=21.4
Q ss_pred HHHHhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 24 LHKLLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 24 lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
++..+|-....||..| |-+...|+.+....
T Consensus 137 l~~~~g~s~~eIA~~l-~is~~~V~~~l~ra 166 (176)
T PRK09638 137 LKHYYGYTYEEIAKML-NIPEGTVKSRVHHG 166 (176)
T ss_pred ehhhcCCCHHHHHHHH-CCChhHHHHHHHHH
Confidence 3334567789999988 66888888776543
No 149
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=22.90 E-value=1.1e+02 Score=21.56 Aligned_cols=19 Identities=16% Similarity=0.197 Sum_probs=16.5
Q ss_pred CCCCCHHHHHHHHHHHHHh
Q 031483 10 RGNFTEEEDDLIIRLHKLL 28 (159)
Q Consensus 10 k~~WT~eED~~L~~lv~~~ 28 (159)
...||++++-.|++.+..|
T Consensus 4 qR~WS~eDEi~iL~gl~~~ 22 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDF 22 (98)
T ss_pred cCCCCchHHHHHHHHHHHH
Confidence 3469999999999998887
No 150
>PRK10360 DNA-binding transcriptional activator UhpA; Provisional
Probab=22.61 E-value=1.5e+02 Score=21.56 Aligned_cols=44 Identities=20% Similarity=0.231 Sum_probs=32.7
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhcc
Q 031483 11 GNFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLSK 57 (159)
Q Consensus 11 ~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~~ 57 (159)
...|+.|-++|.-+.. |-....||..+ +-+.+.++.|.++..++
T Consensus 136 ~~Lt~~E~~il~~l~~--g~~~~~Ia~~l-~~s~~tv~~~~~~l~~K 179 (196)
T PRK10360 136 DPLTKRERQVAEKLAQ--GMAVKEIAAEL-GLSPKTVHVHRANLMEK 179 (196)
T ss_pred cCCCHHHHHHHHHHHC--CCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3588888877766554 56789999999 67888998877655443
No 151
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=22.52 E-value=1.4e+02 Score=23.58 Aligned_cols=44 Identities=23% Similarity=0.157 Sum_probs=35.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhhccc
Q 031483 12 NFTEEEDDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHLSKK 58 (159)
Q Consensus 12 ~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l~~~ 58 (159)
..|+.|-+.|.-++ -|-.=+.||..+ +.+.+-||+|..+.+++-
T Consensus 148 ~LT~RE~eVL~lla--~G~snkeIA~~L-~iS~~TVk~h~~~i~~KL 191 (211)
T COG2197 148 LLTPRELEVLRLLA--EGLSNKEIAEEL-NLSEKTVKTHVSNILRKL 191 (211)
T ss_pred CCCHHHHHHHHHHH--CCCCHHHHHHHH-CCCHhHHHHHHHHHHHHc
Confidence 68888888776553 466778999999 999999999999887763
No 152
>PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=22.32 E-value=93 Score=23.41 Aligned_cols=32 Identities=22% Similarity=0.390 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHh--CCCchhhhhcCCCCCHHHHHH
Q 031483 17 EDDLIIRLHKLL--GNRWALIAKRVPGRTDNQVKN 49 (159)
Q Consensus 17 ED~~L~~lv~~~--G~~W~~Ia~~lpgRT~~q~kn 49 (159)
|+..++.|.-.- |..|-.||..+ +-+..+|+.
T Consensus 85 e~k~Ii~lry~~r~~~TW~~IA~~l-~i~erta~r 118 (130)
T PF05263_consen 85 EEKRIIKLRYDRRSRRTWYQIAQKL-HISERTARR 118 (130)
T ss_pred HHHHHHHHHHcccccchHHHHHHHh-CccHHHHHH
Confidence 344444443332 36799999977 344444543
No 153
>TIGR02989 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are abundantly found in the species Rhodopirellula baltica (11), and Verrucomicrobium spinosum (16) and to a lesser extent in Gemmata obscuriglobus (2).
Probab=22.10 E-value=1.4e+02 Score=21.57 Aligned_cols=31 Identities=26% Similarity=0.324 Sum_probs=20.2
Q ss_pred HHHHHHhCCCchhhhhcCCCCCHHHHHHHHHH
Q 031483 22 IRLHKLLGNRWALIAKRVPGRTDNQVKNYWNS 53 (159)
Q Consensus 22 ~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~ 53 (159)
+.+....|-+-..||..+ |=+.+.|+.|.+.
T Consensus 120 ~~l~~~~g~~~~eIA~~l-~is~~tv~~~l~R 150 (159)
T TIGR02989 120 LQLRYQRGVSLTALAEQL-GRTVNAVYKALSR 150 (159)
T ss_pred HHHHHhcCCCHHHHHHHh-CCCHHHHHHHHHH
Confidence 333334456678888877 6777778777654
No 154
>PRK12538 RNA polymerase sigma factor; Provisional
Probab=21.68 E-value=1e+02 Score=24.72 Aligned_cols=33 Identities=15% Similarity=-0.020 Sum_probs=23.6
Q ss_pred HHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 22 IRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 22 ~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
+.|....|-.-..||..| |-+...|+.|.+..+
T Consensus 180 ~~L~~~eg~s~~EIA~~L-gis~~tVk~~l~RAr 212 (233)
T PRK12538 180 VILSYHENMSNGEIAEVM-DTTVAAVESLLKRGR 212 (233)
T ss_pred hhhHHhcCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 333334566789999998 888899988866443
No 155
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=20.89 E-value=83 Score=32.25 Aligned_cols=27 Identities=19% Similarity=0.364 Sum_probs=23.9
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CCchhhh
Q 031483 10 RGNFTEEEDDLIIRLHKLLG-NRWALIA 36 (159)
Q Consensus 10 k~~WT~eED~~L~~lv~~~G-~~W~~Ia 36 (159)
...|..++|..|+-.|-+|| ++|..|-
T Consensus 1133 ~~~W~~e~Ds~LLiGI~khGygswe~Ir 1160 (1373)
T KOG0384|consen 1133 DCDWGSEDDSMLLIGIFKHGYGSWEAIR 1160 (1373)
T ss_pred ccCCCchhhhhHhhhhhhcccccHHHhc
Confidence 45799999999999999999 7898774
No 156
>TIGR02957 SigX4 RNA polymerase sigma-70 factor, TIGR02957 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building and bidirectional best hits, to represent a conserved family. This family is found in a limited number of bacterial lineages. This family includes apparent paralogous expansion in Streptomyces coelicolor A3(2), and multiple copies in Mycobacterium smegmatis MC2, Streptomyces avermitilis MA-4680 and Nocardia farcinica IFM10152.
Probab=20.87 E-value=1.4e+02 Score=24.63 Aligned_cols=29 Identities=14% Similarity=0.277 Sum_probs=22.8
Q ss_pred HHhCCCchhhhhcCCCCCHHHHHHHHHHhh
Q 031483 26 KLLGNRWALIAKRVPGRTDNQVKNYWNSHL 55 (159)
Q Consensus 26 ~~~G~~W~~Ia~~lpgRT~~q~knRw~~~l 55 (159)
..+|-.-.+||..| |.|...||.+.+...
T Consensus 121 ~~~g~s~~EIA~~l-g~s~~tVr~~l~RAr 149 (281)
T TIGR02957 121 EVFDYPYEEIASIV-GKSEANCRQLVSRAR 149 (281)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 34567789999999 799999999876443
No 157
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=20.79 E-value=1.1e+02 Score=25.51 Aligned_cols=28 Identities=18% Similarity=0.096 Sum_probs=22.0
Q ss_pred hCCCchhhhhcCCCCCHHHHHHHHHHhhc
Q 031483 28 LGNRWALIAKRVPGRTDNQVKNYWNSHLS 56 (159)
Q Consensus 28 ~G~~W~~Ia~~lpgRT~~q~knRw~~~l~ 56 (159)
.|-.-.+||..| |.+...||.|.+...+
T Consensus 168 ~g~s~~EIA~~l-gis~~tVk~~l~RAr~ 195 (339)
T PRK08241 168 LGWSAAEVAELL-DTSVAAVNSALQRARA 195 (339)
T ss_pred hCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 456779999988 8899999998765443
No 158
>TIGR02959 SigZ RNA polymerase sigma factor, SigZ family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937). One of these is designated as SigZ in B. subtilis (Swiss_Prot: SIGZ_BACSU). Interestingly, this group has a very sporatic distribution, B. subtilis, for instance, being the only sequenced strain of Bacilli with a member. Dechloromonas aromatica RCB appears to have two of these sigma factors. A member appears on a plasmid found in Photobacterium profundum SS9 and Vibrio fischeri ES114 (where a second one is chromosomally encoded).
Probab=20.23 E-value=1.6e+02 Score=21.94 Aligned_cols=36 Identities=25% Similarity=0.174 Sum_probs=25.0
Q ss_pred HHHHHHHHHHhCCCchhhhhcCCCCCHHHHHHHHHHh
Q 031483 18 DDLIIRLHKLLGNRWALIAKRVPGRTDNQVKNYWNSH 54 (159)
Q Consensus 18 D~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~knRw~~~ 54 (159)
...++.+....|-.-.+||..| |-+...|+++....
T Consensus 105 ~r~v~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~Ra 140 (170)
T TIGR02959 105 YREAIRLTELEGLSQQEIAEKL-GLSLSGAKSRVQRG 140 (170)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHH
Confidence 3444445555667789999988 78888888876543
Done!