Query 036215
Match_columns 289
No_of_seqs 201 out of 1474
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 10:33:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036215.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036215hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03212 Transcription repress 100.0 4.7E-48 1E-52 349.4 11.4 134 13-146 11-144 (249)
2 PLN03091 hypothetical protein; 100.0 4.3E-37 9.3E-42 296.2 12.1 135 15-149 2-136 (459)
3 KOG0048 Transcription factor, 100.0 1.9E-36 4.1E-41 276.0 11.2 115 24-138 6-120 (238)
4 KOG0049 Transcription factor, 99.7 9.9E-19 2.1E-23 174.6 6.2 122 23-145 301-426 (939)
5 KOG0049 Transcription factor, 99.7 2.2E-17 4.8E-22 165.0 5.2 106 20-126 353-459 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.6 1.6E-16 3.4E-21 115.0 2.9 60 30-91 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.6 7.3E-16 1.6E-20 153.2 5.7 108 22-130 15-122 (512)
8 KOG0050 mRNA splicing protein 99.5 2.3E-15 4.9E-20 147.7 1.5 106 24-131 4-109 (617)
9 PF13921 Myb_DNA-bind_6: Myb-l 99.4 4.2E-14 9E-19 102.2 2.3 58 83-140 1-58 (60)
10 PF00249 Myb_DNA-binding: Myb- 99.4 1.3E-13 2.8E-18 95.8 4.5 46 80-125 1-48 (48)
11 KOG0051 RNA polymerase I termi 99.4 1.2E-13 2.7E-18 138.9 5.1 104 26-132 383-514 (607)
12 PLN03212 Transcription repress 99.4 1E-13 2.2E-18 126.3 3.5 74 75-148 20-95 (249)
13 PF00249 Myb_DNA-binding: Myb- 99.3 1.1E-13 2.5E-18 96.1 -0.2 48 27-74 1-48 (48)
14 KOG0048 Transcription factor, 99.3 6.9E-13 1.5E-17 121.2 2.6 79 76-154 5-85 (238)
15 PLN03091 hypothetical protein; 99.3 1.3E-12 2.9E-17 127.1 2.9 73 75-147 9-83 (459)
16 smart00717 SANT SANT SWI3, AD 99.3 7.7E-12 1.7E-16 84.6 5.4 47 80-126 1-48 (49)
17 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 7.8E-11 1.7E-15 78.5 5.3 44 82-125 1-45 (45)
18 KOG0051 RNA polymerase I termi 99.0 8.2E-11 1.8E-15 118.7 2.8 122 23-146 304-451 (607)
19 smart00717 SANT SANT SWI3, AD 99.0 1.4E-10 2.9E-15 78.4 1.7 48 27-75 1-48 (49)
20 cd00167 SANT 'SWI3, ADA2, N-Co 98.8 1.1E-09 2.3E-14 73.0 1.4 45 29-74 1-45 (45)
21 COG5147 REB1 Myb superfamily p 98.4 1.5E-08 3.3E-13 101.4 -3.1 99 25-126 289-397 (512)
22 KOG0050 mRNA splicing protein 97.9 5.4E-06 1.2E-10 82.5 1.9 78 78-155 5-83 (617)
23 TIGR01557 myb_SHAQKYF myb-like 97.7 1.7E-05 3.7E-10 57.5 1.7 48 27-74 3-54 (57)
24 TIGR01557 myb_SHAQKYF myb-like 97.7 9.2E-05 2E-09 53.7 5.5 47 79-125 2-54 (57)
25 PF13325 MCRS_N: N-terminal re 97.5 0.00018 3.8E-09 64.6 5.8 100 29-130 1-131 (199)
26 KOG0457 Histone acetyltransfer 97.5 4.5E-05 9.8E-10 74.7 1.8 50 24-74 69-118 (438)
27 KOG0457 Histone acetyltransfer 97.5 0.00018 3.9E-09 70.6 5.6 49 77-125 69-118 (438)
28 TIGR02894 DNA_bind_RsfA transc 97.3 0.00024 5.2E-09 61.5 4.1 52 79-131 3-61 (161)
29 PF08914 Myb_DNA-bind_2: Rap1 97.1 0.00051 1.1E-08 51.1 3.8 50 80-129 2-61 (65)
30 PF13837 Myb_DNA-bind_4: Myb/S 97.1 0.0003 6.6E-09 53.9 2.6 49 80-128 1-67 (90)
31 KOG1279 Chromatin remodeling f 96.6 0.0028 6.1E-08 64.1 5.0 48 78-125 251-298 (506)
32 COG5259 RSC8 RSC chromatin rem 96.5 0.0009 2E-08 66.4 0.8 46 26-73 278-323 (531)
33 COG5259 RSC8 RSC chromatin rem 96.4 0.0029 6.2E-08 62.9 3.9 44 81-124 280-323 (531)
34 KOG1279 Chromatin remodeling f 96.3 0.0017 3.6E-08 65.7 1.5 47 25-73 251-297 (506)
35 PF08914 Myb_DNA-bind_2: Rap1 96.1 0.0012 2.6E-08 49.1 -0.4 52 27-78 2-61 (65)
36 PRK13923 putative spore coat p 96.0 0.006 1.3E-07 53.5 3.5 51 79-130 4-61 (170)
37 TIGR02894 DNA_bind_RsfA transc 95.8 0.0026 5.6E-08 55.2 0.3 50 25-76 2-57 (161)
38 PF13873 Myb_DNA-bind_5: Myb/S 95.8 0.015 3.2E-07 43.8 4.2 48 80-127 2-71 (78)
39 COG5114 Histone acetyltransfer 95.6 0.0084 1.8E-07 57.2 2.7 48 27-75 63-110 (432)
40 COG5114 Histone acetyltransfer 95.6 0.011 2.4E-07 56.4 3.5 48 79-126 62-110 (432)
41 PF13837 Myb_DNA-bind_4: Myb/S 95.3 0.0029 6.3E-08 48.4 -1.0 46 28-73 2-63 (90)
42 PLN03142 Probable chromatin-re 94.5 0.085 1.8E-06 57.9 7.0 98 29-127 826-986 (1033)
43 PF13873 Myb_DNA-bind_5: Myb/S 94.2 0.0089 1.9E-07 45.0 -1.0 48 27-74 2-69 (78)
44 KOG2656 DNA methyltransferase 93.9 0.075 1.6E-06 52.1 4.4 82 49-131 75-187 (445)
45 KOG4282 Transcription factor G 93.4 0.1 2.2E-06 50.0 4.5 49 80-128 54-116 (345)
46 PRK13923 putative spore coat p 93.0 0.019 4.2E-07 50.3 -0.9 49 25-75 3-57 (170)
47 PF12776 Myb_DNA-bind_3: Myb/S 92.1 0.31 6.6E-06 37.6 4.8 46 82-127 1-64 (96)
48 PF09111 SLIDE: SLIDE; InterP 91.6 0.3 6.5E-06 40.5 4.5 51 77-127 46-112 (118)
49 KOG1194 Predicted DNA-binding 89.7 0.58 1.3E-05 46.9 5.3 48 80-127 187-234 (534)
50 PF08281 Sigma70_r4_2: Sigma-7 89.4 0.75 1.6E-05 31.8 4.3 41 85-126 12-52 (54)
51 COG5118 BDP1 Transcription ini 89.0 0.58 1.3E-05 45.9 4.6 47 81-127 366-412 (507)
52 KOG4282 Transcription factor G 80.9 1.2 2.7E-05 42.6 2.7 48 27-74 54-113 (345)
53 PF09111 SLIDE: SLIDE; InterP 80.3 1.1 2.5E-05 37.0 2.0 34 24-57 46-82 (118)
54 KOG4167 Predicted DNA-binding 78.1 3.2 6.9E-05 44.0 4.8 46 80-125 619-664 (907)
55 KOG4468 Polycomb-group transcr 76.3 4.3 9.4E-05 42.2 5.0 49 80-128 88-146 (782)
56 PF04545 Sigma70_r4: Sigma-70, 74.9 5.8 0.00013 27.0 4.0 41 86-127 7-47 (50)
57 PF11626 Rap1_C: TRF2-interact 74.5 3.1 6.7E-05 32.2 2.8 23 24-46 44-74 (87)
58 smart00595 MADF subfamily of S 74.5 3.5 7.6E-05 31.2 3.1 26 101-127 29-54 (89)
59 COG5118 BDP1 Transcription ini 74.0 1.5 3.3E-05 43.1 1.1 43 28-72 366-408 (507)
60 KOG4167 Predicted DNA-binding 72.5 9 0.0002 40.8 6.3 43 28-72 620-662 (907)
61 PF11035 SnAPC_2_like: Small n 71.2 12 0.00027 36.0 6.5 45 80-124 21-69 (344)
62 TIGR02985 Sig70_bacteroi1 RNA 65.7 11 0.00023 30.7 4.4 40 87-127 117-156 (161)
63 PRK11179 DNA-binding transcrip 64.5 8.8 0.00019 32.4 3.7 46 85-131 8-54 (153)
64 PF11626 Rap1_C: TRF2-interact 63.9 6.8 0.00015 30.3 2.7 16 76-91 43-58 (87)
65 PF13404 HTH_AsnC-type: AsnC-t 60.9 14 0.0003 24.9 3.4 38 86-124 3-41 (42)
66 KOG4329 DNA-binding protein [G 60.2 15 0.00033 36.2 4.8 45 81-125 278-323 (445)
67 PF07750 GcrA: GcrA cell cycle 58.9 9.4 0.0002 33.2 3.0 41 82-123 2-42 (162)
68 KOG0384 Chromodomain-helicase 58.7 9.8 0.00021 42.7 3.6 74 26-106 1132-1206(1373)
69 PRK11169 leucine-responsive tr 56.5 12 0.00025 32.1 3.1 46 85-131 13-59 (164)
70 PF13325 MCRS_N: N-terminal re 55.9 23 0.0005 32.0 5.0 46 82-128 1-49 (199)
71 KOG2009 Transcription initiati 52.5 18 0.00039 37.6 4.2 49 78-126 407-455 (584)
72 PF04504 DUF573: Protein of un 51.8 20 0.00042 28.6 3.5 47 81-127 5-64 (98)
73 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 51.8 22 0.00048 25.1 3.4 36 85-121 6-41 (50)
74 KOG2656 DNA methyltransferase 50.7 9.5 0.00021 37.8 1.8 49 24-73 127-180 (445)
75 KOG4468 Polycomb-group transcr 50.1 20 0.00043 37.5 4.0 47 27-74 88-143 (782)
76 TIGR02937 sigma70-ECF RNA poly 49.2 27 0.00058 27.5 4.0 37 90-127 117-153 (158)
77 PRK09652 RNA polymerase sigma 46.3 31 0.00067 28.6 4.1 35 91-126 136-170 (182)
78 PF10545 MADF_DNA_bdg: Alcohol 45.2 16 0.00035 26.7 2.0 27 101-127 28-55 (85)
79 cd08319 Death_RAIDD Death doma 44.3 25 0.00054 27.2 3.0 29 88-117 2-30 (83)
80 PF01388 ARID: ARID/BRIGHT DNA 44.1 42 0.0009 25.6 4.2 38 90-127 40-90 (92)
81 PF07638 Sigma70_ECF: ECF sigm 44.1 35 0.00076 29.5 4.2 39 86-125 138-176 (185)
82 PRK11924 RNA polymerase sigma 43.5 35 0.00076 28.2 4.0 32 94-126 136-167 (179)
83 PRK09645 RNA polymerase sigma 43.2 49 0.0011 27.7 4.9 30 96-126 131-160 (173)
84 cd08803 Death_ank3 Death domai 42.9 31 0.00068 26.7 3.3 29 88-117 4-32 (84)
85 PRK12532 RNA polymerase sigma 42.8 48 0.001 28.5 4.9 38 96-134 149-189 (195)
86 PRK09643 RNA polymerase sigma 41.8 40 0.00087 29.1 4.2 35 91-126 142-176 (192)
87 cd06171 Sigma70_r4 Sigma70, re 41.7 54 0.0012 20.9 4.0 40 83-124 11-50 (55)
88 KOG3841 TEF-1 and related tran 41.5 94 0.002 30.9 7.0 53 78-130 74-147 (455)
89 smart00501 BRIGHT BRIGHT, ARID 40.8 49 0.0011 25.5 4.2 38 90-127 36-86 (93)
90 PRK09641 RNA polymerase sigma 40.5 42 0.0009 28.3 4.1 29 97-126 150-178 (187)
91 smart00344 HTH_ASNC helix_turn 40.2 46 0.001 25.8 4.0 45 86-131 3-48 (108)
92 PRK04217 hypothetical protein; 39.7 51 0.0011 27.0 4.2 45 81-127 41-85 (110)
93 PRK11179 DNA-binding transcrip 38.2 9.9 0.00021 32.1 -0.2 45 32-78 8-52 (153)
94 PRK09047 RNA polymerase factor 38.1 56 0.0012 26.8 4.4 31 96-127 119-149 (161)
95 PRK12523 RNA polymerase sigma 37.9 72 0.0016 26.8 5.1 38 90-128 126-163 (172)
96 TIGR02939 RpoE_Sigma70 RNA pol 36.6 41 0.0009 28.4 3.5 29 98-127 153-181 (190)
97 cd08317 Death_ank Death domain 36.4 31 0.00068 26.2 2.4 29 88-117 4-32 (84)
98 PRK12529 RNA polymerase sigma 34.8 64 0.0014 27.4 4.4 35 94-129 138-172 (178)
99 TIGR02954 Sig70_famx3 RNA poly 34.7 59 0.0013 27.1 4.1 30 97-127 133-162 (169)
100 PRK09637 RNA polymerase sigma 34.2 62 0.0013 27.7 4.2 30 96-126 119-148 (181)
101 COG2197 CitB Response regulato 34.2 51 0.0011 29.3 3.7 45 81-128 147-191 (211)
102 PRK11923 algU RNA polymerase s 33.9 58 0.0013 27.8 4.0 28 98-126 153-180 (193)
103 PF07308 DUF1456: Protein of u 33.8 27 0.00059 26.1 1.6 19 218-236 47-65 (68)
104 PRK09648 RNA polymerase sigma 33.8 67 0.0015 27.4 4.3 30 97-127 153-182 (189)
105 PRK11169 leucine-responsive tr 33.7 9.4 0.0002 32.7 -1.1 45 32-78 13-57 (164)
106 TIGR02943 Sig70_famx1 RNA poly 33.4 70 0.0015 27.5 4.4 36 91-127 139-174 (188)
107 PRK12512 RNA polymerase sigma 33.4 69 0.0015 27.1 4.3 31 96-127 144-174 (184)
108 cd08311 Death_p75NR Death doma 33.1 40 0.00086 25.7 2.5 33 85-119 2-34 (77)
109 TIGR02948 SigW_bacill RNA poly 33.1 59 0.0013 27.4 3.8 29 98-127 151-179 (187)
110 PRK09642 RNA polymerase sigma 33.0 73 0.0016 26.2 4.3 30 96-126 119-148 (160)
111 PRK12530 RNA polymerase sigma 32.9 69 0.0015 27.6 4.3 29 97-126 148-176 (189)
112 PRK12531 RNA polymerase sigma 32.8 71 0.0015 27.5 4.4 29 98-127 156-184 (194)
113 PF13936 HTH_38: Helix-turn-he 32.7 39 0.00084 22.6 2.1 37 81-119 3-39 (44)
114 cd08804 Death_ank2 Death domai 32.5 46 0.001 25.6 2.8 31 88-119 4-34 (84)
115 cd08318 Death_NMPP84 Death dom 32.4 48 0.001 25.5 2.9 26 91-117 10-35 (86)
116 PRK12515 RNA polymerase sigma 32.2 74 0.0016 27.2 4.3 29 97-126 145-173 (189)
117 PF09420 Nop16: Ribosome bioge 31.5 1.1E+02 0.0023 26.4 5.2 47 79-125 113-163 (164)
118 TIGR02999 Sig-70_X6 RNA polyme 29.1 91 0.002 26.2 4.4 29 97-126 148-176 (183)
119 PRK12524 RNA polymerase sigma 29.0 87 0.0019 27.0 4.3 30 96-126 149-178 (196)
120 KOG2009 Transcription initiati 28.5 39 0.00084 35.3 2.2 49 22-72 404-452 (584)
121 PF09420 Nop16: Ribosome bioge 28.5 33 0.0007 29.6 1.4 46 25-71 112-160 (164)
122 TIGR02952 Sig70_famx2 RNA poly 28.2 94 0.002 25.6 4.2 28 98-126 137-164 (170)
123 PRK09649 RNA polymerase sigma 28.2 86 0.0019 26.8 4.1 29 98-127 145-173 (185)
124 PRK12528 RNA polymerase sigma 27.5 1E+02 0.0023 25.3 4.4 34 93-127 123-156 (161)
125 PRK12527 RNA polymerase sigma 27.5 1.1E+02 0.0023 25.2 4.4 30 97-127 119-148 (159)
126 PRK09651 RNA polymerase sigma 27.3 84 0.0018 26.5 3.8 29 98-127 134-162 (172)
127 PRK06759 RNA polymerase factor 27.1 1.1E+02 0.0023 24.9 4.3 28 98-126 121-148 (154)
128 PRK12536 RNA polymerase sigma 26.9 1E+02 0.0022 26.1 4.3 32 95-127 141-172 (181)
129 PRK12516 RNA polymerase sigma 26.8 1E+02 0.0022 26.6 4.3 36 90-126 123-158 (187)
130 smart00005 DEATH DEATH domain, 26.6 66 0.0014 24.0 2.7 29 87-116 4-33 (88)
131 PRK12514 RNA polymerase sigma 26.6 1E+02 0.0022 25.9 4.2 28 98-126 144-171 (179)
132 PRK00118 putative DNA-binding 26.3 1.2E+02 0.0025 24.6 4.2 41 85-126 19-59 (104)
133 cd08805 Death_ank1 Death domai 26.3 66 0.0014 24.9 2.7 22 88-109 4-25 (84)
134 PF11035 SnAPC_2_like: Small n 26.0 4.8E+02 0.01 25.5 8.8 85 28-126 22-127 (344)
135 cd08777 Death_RIP1 Death Domai 25.7 64 0.0014 25.0 2.5 30 89-119 3-32 (86)
136 TIGR02983 SigE-fam_strep RNA p 25.5 1.1E+02 0.0023 25.2 4.1 40 87-127 114-153 (162)
137 TIGR02950 SigM_subfam RNA poly 25.4 39 0.00084 27.5 1.3 28 99-127 121-148 (154)
138 PRK12542 RNA polymerase sigma 25.3 1.1E+02 0.0025 25.9 4.3 29 97-126 136-164 (185)
139 PRK12547 RNA polymerase sigma 25.0 1.2E+02 0.0027 25.2 4.4 31 96-127 125-155 (164)
140 PRK05602 RNA polymerase sigma 24.9 1.1E+02 0.0023 26.0 4.0 30 96-126 141-170 (186)
141 TIGR02984 Sig-70_plancto1 RNA 24.2 1.2E+02 0.0026 25.4 4.2 31 96-127 153-183 (189)
142 PRK13919 putative RNA polymera 23.9 1.3E+02 0.0027 25.5 4.3 29 98-127 150-178 (186)
143 COG2963 Transposase and inacti 23.8 1.6E+02 0.0035 23.3 4.6 46 80-127 5-51 (116)
144 PRK12545 RNA polymerase sigma 23.8 1.2E+02 0.0026 26.3 4.3 27 98-125 154-180 (201)
145 PRK12520 RNA polymerase sigma 23.4 1.3E+02 0.0028 25.6 4.3 28 98-126 146-173 (191)
146 cd08779 Death_PIDD Death Domai 23.3 69 0.0015 24.7 2.3 21 89-109 3-23 (86)
147 PRK10100 DNA-binding transcrip 22.9 1.4E+02 0.003 26.7 4.5 44 82-128 155-198 (216)
148 TIGR02960 SigX5 RNA polymerase 22.7 1.1E+02 0.0024 28.4 4.0 29 98-127 157-185 (324)
149 PRK15201 fimbriae regulatory p 22.7 1.7E+02 0.0036 26.5 4.8 44 82-128 133-176 (198)
150 PF07750 GcrA: GcrA cell cycle 22.2 45 0.00098 28.9 1.2 29 29-59 2-30 (162)
151 PF10440 WIYLD: Ubiquitin-bind 22.0 62 0.0013 24.1 1.7 18 90-107 31-48 (65)
152 COG1522 Lrp Transcriptional re 22.0 1.3E+02 0.0028 24.6 3.9 45 86-131 8-53 (154)
153 PRK12537 RNA polymerase sigma 21.9 1.4E+02 0.003 25.3 4.2 29 98-127 148-176 (182)
154 KOG3554 Histone deacetylase co 21.5 91 0.002 31.9 3.2 42 81-122 286-328 (693)
155 PRK11922 RNA polymerase sigma 21.3 77 0.0017 28.3 2.5 27 99-126 165-191 (231)
156 PF00196 GerE: Bacterial regul 20.9 86 0.0019 21.7 2.2 44 82-128 3-46 (58)
157 PRK12546 RNA polymerase sigma 20.9 1.4E+02 0.003 25.9 4.0 36 91-127 121-156 (188)
158 PRK06986 fliA flagellar biosyn 20.4 1.4E+02 0.0031 26.6 4.1 38 89-127 190-227 (236)
159 PRK09646 RNA polymerase sigma 20.2 1.6E+02 0.0035 25.2 4.3 29 98-127 157-185 (194)
No 1
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=4.7e-48 Score=349.43 Aligned_cols=134 Identities=81% Similarity=1.450 Sum_probs=126.2
Q ss_pred CCCCCCccCCCCCccCCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCccccccccccccCCCCCCCCCCHHHHHHHH
Q 036215 13 TKKITPCCSKVGIKKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPSIKRGHIAPDEEDLIL 92 (289)
Q Consensus 13 ~~~~~~c~~k~~lkkg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p~lkrg~WT~EED~~Ll 92 (289)
+..++|||.|++++|++||+|||++|+++|++||..+|..||+.++.+|+++|||+||.+||+|.+++++||+|||++|+
T Consensus 11 ~~~~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLl 90 (249)
T PLN03212 11 SKKTTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLIL 90 (249)
T ss_pred CCCCCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHH
Confidence 44577999999999999999999999999999999899999999975699999999999999999999999999999999
Q ss_pred HHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhhhhhhCCCCCCCCccccccc
Q 036215 93 RLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKKLISQGINPTTHKPLIFNQ 146 (289)
Q Consensus 93 ~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk~~~~~~~~~~~~k~l~~~~ 146 (289)
+++.+||++|+.||+.|||||+++|||||+.++++++.+.++.+.+++++....
T Consensus 91 el~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~~~kp~~~~~ 144 (249)
T PLN03212 91 RLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTHKPLDANN 144 (249)
T ss_pred HHHHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCCCCCCCCccc
Confidence 999999999999999999999999999999999999999999999888765443
No 2
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=4.3e-37 Score=296.16 Aligned_cols=135 Identities=57% Similarity=1.061 Sum_probs=128.0
Q ss_pred CCCCccCCCCCccCCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCccccccccccccCCCCCCCCCCHHHHHHHHHH
Q 036215 15 KITPCCSKVGIKKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPSIKRGHIAPDEEDLILRL 94 (289)
Q Consensus 15 ~~~~c~~k~~lkkg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p~lkrg~WT~EED~~Ll~l 94 (289)
+|.+||.|.+++||+||+|||++|+++|.+||..+|..||+.++.+|+++|||+||.+||+|.+++++||+|||++|+++
T Consensus 2 gr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL 81 (459)
T PLN03091 2 GRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIEL 81 (459)
T ss_pred CCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHH
Confidence 47899999999999999999999999999999999999999997669999999999999999999999999999999999
Q ss_pred HHhhCCchhhhhccCCCCCHHHHHHHHHHHhhhhhhhCCCCCCCCcccccccccc
Q 036215 95 HRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKKLISQGINPTTHKPLIFNQVVH 149 (289)
Q Consensus 95 v~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk~~~~~~~~~~~~k~l~~~~~~~ 149 (289)
+++||++|.+||+.|||||+++|||||+.++++++...++.+.+++++.......
T Consensus 82 ~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~kpl~e~E~~~ 136 (459)
T PLN03091 82 HAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPLSEVENGE 136 (459)
T ss_pred HHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCCCCcccccccc
Confidence 9999999999999999999999999999999999999999999999887765443
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=1.9e-36 Score=276.00 Aligned_cols=115 Identities=64% Similarity=1.129 Sum_probs=108.6
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCccccccccccccCCCCCCCCCCHHHHHHHHHHHHhhCCchh
Q 036215 24 GIKKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPSIKRGHIAPDEEDLILRLHRLLGNRWS 103 (289)
Q Consensus 24 ~lkkg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p~lkrg~WT~EED~~Ll~lv~~~G~kWs 103 (289)
.+.||+||+|||++|+++|.+||.++|..||+.+|.+|++|+||+||.|||+|+++||.||+|||++|+++|.+||++|+
T Consensus 6 ~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrWs 85 (238)
T KOG0048|consen 6 ELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRWS 85 (238)
T ss_pred cccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHHH
Confidence 35589999999999999999999999999999999669999999999999999999999999999999999999999999
Q ss_pred hhhccCCCCCHHHHHHHHHHHhhhhhhhCCCCCCC
Q 036215 104 LIAGRIPGRTDNEIKNYWNTRLRKKLISQGINPTT 138 (289)
Q Consensus 104 ~IA~~lpgRT~~q~knRW~~~lrk~~~~~~~~~~~ 138 (289)
.||++|||||+++|||+|+..++|++...+..+.+
T Consensus 86 ~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~~~~~~ 120 (238)
T KOG0048|consen 86 LIAGRLPGRTDNEVKNHWNTHLKKKLLKMGIDPST 120 (238)
T ss_pred HHHhhCCCcCHHHHHHHHHHHHHHHHHHcCCCCCc
Confidence 99999999999999999999999999887754444
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.75 E-value=9.9e-19 Score=174.57 Aligned_cols=122 Identities=20% Similarity=0.375 Sum_probs=112.6
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCC---CcceeccccCcccCccccccccccccCCCCCCCCCCHHHHHHHHHHHHhhC
Q 036215 23 VGIKKGPWTPEEDEILSNYIKREGEG---QWRTLPKRAGLLRCGKSCRLRWMNYLRPSIKRGHIAPDEEDLILRLHRLLG 99 (289)
Q Consensus 23 ~~lkkg~WT~EEDe~L~~~V~~~g~~---~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p~lkrg~WT~EED~~Ll~lv~~~G 99 (289)
..++...||.|||.+|+.+|.....+ +|++|-..|++ |+..|...||...|+|.+++|+||++||.+|+.+|.+||
T Consensus 301 ~~L~ekeWsEEed~kL~alV~~~~~nShI~w~kVV~Ympg-r~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg 379 (939)
T KOG0049|consen 301 SQLSEKEWSEEEDTKLIALVKITSINSHIQWDKVVQYMPG-RTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYG 379 (939)
T ss_pred HHHHhhhcchhhhHHHHHHHHHhhccCccchHHHHHhcCC-cchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhC
Confidence 34667899999999999999998543 79999999998 999999999999999999999999999999999999999
Q ss_pred C-chhhhhccCCCCCHHHHHHHHHHHhhhhhhhCCCCCCCCcccccc
Q 036215 100 N-RWSLIAGRIPGRTDNEIKNYWNTRLRKKLISQGINPTTHKPLIFN 145 (289)
Q Consensus 100 ~-kWs~IA~~lpgRT~~q~knRW~~~lrk~~~~~~~~~~~~k~l~~~ 145 (289)
. .|.+|-..+|||++.|||.||.+.|....+...|+..++..|+..
T Consensus 380 ~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~ 426 (939)
T KOG0049|consen 380 AKDWAKVRQAVPNRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYA 426 (939)
T ss_pred ccchhhHHHhcCCccHHHHHHHHHHHHHHhhccCceeecchHHHHHH
Confidence 5 599999999999999999999999999999999998888766543
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.68 E-value=2.2e-17 Score=165.01 Aligned_cols=106 Identities=24% Similarity=0.418 Sum_probs=96.9
Q ss_pred cCCCCCccCCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCccccccccccccCCCCCCCCCCHHHHHHHHHHHHhhC
Q 036215 20 CSKVGIKKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPSIKRGHIAPDEEDLILRLHRLLG 99 (289)
Q Consensus 20 ~~k~~lkkg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p~lkrg~WT~EED~~Ll~lv~~~G 99 (289)
..-|++++|+||.+||.+|+.+|.+||..+|.+|-..+++ |+..|||+||.|.|....+.+.||-.||+.|+.+|.+||
T Consensus 353 ~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPn-RSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~YG 431 (939)
T KOG0049|consen 353 TLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPN-RSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKVYG 431 (939)
T ss_pred ccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCC-ccHHHHHHHHHHHHHHhhccCceeecchHHHHHHHHHHc
Confidence 3478999999999999999999999999999999999987 999999999999999999999999999999999999999
Q ss_pred -CchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 100 -NRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 100 -~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
.+|.+||..||.||..|...|-...++
T Consensus 432 ~g~WakcA~~Lp~~t~~q~~rrR~R~~~ 459 (939)
T KOG0049|consen 432 KGNWAKCAMLLPKKTSRQLRRRRLRLIA 459 (939)
T ss_pred cchHHHHHHHccccchhHHHHHHHHHHH
Confidence 689999999999999766555444443
No 6
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.62 E-value=1.6e-16 Score=114.99 Aligned_cols=60 Identities=42% Similarity=0.853 Sum_probs=54.7
Q ss_pred CCHHHHHHHHHHHHHhCCCCcceeccccCcccCccccccccccccCCCCCCCCCCHHHHHHH
Q 036215 30 WTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPSIKRGHIAPDEEDLI 91 (289)
Q Consensus 30 WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p~lkrg~WT~EED~~L 91 (289)
||+|||++|+.+|.+||. +|..||+.||. |++.+|+.||.++|.|.+++++||++||++|
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~~l~~-Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAEHLGN-RTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHHHSTT-S-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHHHHCc-CCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999995 89999999975 9999999999999999999999999999987
No 7
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.60 E-value=7.3e-16 Score=153.23 Aligned_cols=108 Identities=27% Similarity=0.468 Sum_probs=102.5
Q ss_pred CCCCccCCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCccccccccccccCCCCCCCCCCHHHHHHHHHHHHhhCCc
Q 036215 22 KVGIKKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPSIKRGHIAPDEEDLILRLHRLLGNR 101 (289)
Q Consensus 22 k~~lkkg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p~lkrg~WT~EED~~Ll~lv~~~G~k 101 (289)
...++.|.|+..||+.|..+|.++|+.+|..||..+.. |++++|+.||.++++|.+++..|+.|||..|+.+..++|..
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~-~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ 93 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLIS-STGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcc-cccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch
Confidence 45788899999999999999999999999999999987 99999999999999999999999999999999999999999
Q ss_pred hhhhhccCCCCCHHHHHHHHHHHhhhhhh
Q 036215 102 WSLIAGRIPGRTDNEIKNYWNTRLRKKLI 130 (289)
Q Consensus 102 Ws~IA~~lpgRT~~q~knRW~~~lrk~~~ 130 (289)
|+.||..+++|+..+|.+||...+.....
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 99999999999999999999988876543
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.52 E-value=2.3e-15 Score=147.72 Aligned_cols=106 Identities=28% Similarity=0.583 Sum_probs=99.9
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCccccccccccccCCCCCCCCCCHHHHHHHHHHHHhhCCchh
Q 036215 24 GIKKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPSIKRGHIAPDEEDLILRLHRLLGNRWS 103 (289)
Q Consensus 24 ~lkkg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p~lkrg~WT~EED~~Ll~lv~~~G~kWs 103 (289)
-++.|-|+.-||+.|+.+|.+||.+.|..|+..+.- .+++||+.||..+|+|.|++..|+.|||+.||.+++.+...|.
T Consensus 4 ~~kggvwrntEdeilkaav~kyg~nqws~i~sll~~-kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwr 82 (617)
T KOG0050|consen 4 EIKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNR-KTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWR 82 (617)
T ss_pred EEecceecccHHHHHHHHHHHcchHHHHHHHHHHhh-cchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccc
Confidence 467889999999999999999999999999999986 9999999999999999999999999999999999999999999
Q ss_pred hhhccCCCCCHHHHHHHHHHHhhhhhhh
Q 036215 104 LIAGRIPGRTDNEIKNYWNTRLRKKLIS 131 (289)
Q Consensus 104 ~IA~~lpgRT~~q~knRW~~~lrk~~~~ 131 (289)
.|+..| ||++++|-.||+.++-.....
T Consensus 83 tIa~i~-gr~~~qc~eRy~~ll~~~~s~ 109 (617)
T KOG0050|consen 83 TIADIM-GRTSQQCLERYNNLLDVYVSY 109 (617)
T ss_pred hHHHHh-hhhHHHHHHHHHHHHHHHHhh
Confidence 999998 999999999999998765543
No 9
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.43 E-value=4.2e-14 Score=102.24 Aligned_cols=58 Identities=28% Similarity=0.526 Sum_probs=50.0
Q ss_pred CCHHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhhhhhhCCCCCCCCc
Q 036215 83 IAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKKLISQGINPTTHK 140 (289)
Q Consensus 83 WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk~~~~~~~~~~~~k 140 (289)
||+|||++|+++|.+||++|..||+.|+.||..+|++||+..|++.+...+|+.+++.
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~ 58 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQ 58 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHh
Confidence 9999999999999999999999999996699999999999988888888888766543
No 10
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.43 E-value=1.3e-13 Score=95.84 Aligned_cols=46 Identities=30% Similarity=0.623 Sum_probs=42.0
Q ss_pred CCCCCHHHHHHHHHHHHhhCCc-hhhhhccCC-CCCHHHHHHHHHHHh
Q 036215 80 RGHIAPDEEDLILRLHRLLGNR-WSLIAGRIP-GRTDNEIKNYWNTRL 125 (289)
Q Consensus 80 rg~WT~EED~~Ll~lv~~~G~k-Ws~IA~~lp-gRT~~q~knRW~~~l 125 (289)
|++||+|||++|++++.+||.. |..||..|| +||..||++||+.++
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 5799999999999999999988 999999999 999999999998875
No 11
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.42 E-value=1.2e-13 Score=138.87 Aligned_cols=104 Identities=28% Similarity=0.611 Sum_probs=93.5
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCccccccccccccCCC--CCCCCCCHHHHHHHHHHHH-------
Q 036215 26 KKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPS--IKRGHIAPDEEDLILRLHR------- 96 (289)
Q Consensus 26 kkg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p~--lkrg~WT~EED~~Ll~lv~------- 96 (289)
++|.||+||++.|..+|.++|. .|..|+..|+ |.+..|+.||++|..+. .+++.||.||+++|+++|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~-~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~ 459 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN-DWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREAL 459 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc-cHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhh
Confidence 8999999999999999999995 9999999997 99999999999999887 5999999999999999995
Q ss_pred hh-------C-----C-------chhhhhccCCCCCHHHHHHHHHHHhhhhhhhC
Q 036215 97 LL-------G-----N-------RWSLIAGRIPGRTDNEIKNYWNTRLRKKLISQ 132 (289)
Q Consensus 97 ~~-------G-----~-------kWs~IA~~lpgRT~~q~knRW~~~lrk~~~~~ 132 (289)
++ | . .|+.|++.+..|+..+||.+|+.++......+
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~ 514 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNK 514 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhc
Confidence 33 1 1 59999998899999999999999998765443
No 12
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.41 E-value=1e-13 Score=126.27 Aligned_cols=74 Identities=19% Similarity=0.374 Sum_probs=67.5
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHhhC-CchhhhhccC-CCCCHHHHHHHHHHHhhhhhhhCCCCCCCCccccccccc
Q 036215 75 RPSIKRGHIAPDEEDLILRLHRLLG-NRWSLIAGRI-PGRTDNEIKNYWNTRLRKKLISQGINPTTHKPLIFNQVV 148 (289)
Q Consensus 75 ~p~lkrg~WT~EED~~Ll~lv~~~G-~kWs~IA~~l-pgRT~~q~knRW~~~lrk~~~~~~~~~~~~k~l~~~~~~ 148 (289)
++.+++++||+|||++|+++|++|| .+|..||+.+ ++|++.|||.||.++|++.+.+++|+.+++..|...+..
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~ 95 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRL 95 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHh
Confidence 3578999999999999999999999 5899999998 699999999999999999999999999998887665544
No 13
>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=99.35 E-value=1.1e-13 Score=96.13 Aligned_cols=48 Identities=44% Similarity=0.810 Sum_probs=42.7
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCcccccccccccc
Q 036215 27 KGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYL 74 (289)
Q Consensus 27 kg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L 74 (289)
|++||+|||++|+++|.+||.++|..||..|+++|++.||+.||.++|
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 689999999999999999998779999999994499999999999875
No 14
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.31 E-value=6.9e-13 Score=121.19 Aligned_cols=79 Identities=15% Similarity=0.202 Sum_probs=71.0
Q ss_pred CCCCCCCCCHHHHHHHHHHHHhhCC-chhhhhccCC-CCCHHHHHHHHHHHhhhhhhhCCCCCCCCcccccccccccccC
Q 036215 76 PSIKRGHIAPDEEDLILRLHRLLGN-RWSLIAGRIP-GRTDNEIKNYWNTRLRKKLISQGINPTTHKPLIFNQVVHDQLA 153 (289)
Q Consensus 76 p~lkrg~WT~EED~~Ll~lv~~~G~-kWs~IA~~lp-gRT~~q~knRW~~~lrk~~~~~~~~~~~~k~l~~~~~~~~~~~ 153 (289)
+.+.+||||+|||++|+++|++||. +|..|++.++ +|++++||-||.++|++.++++.|+++++..+...+.....-+
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrW 84 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRW 84 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHH
Confidence 3455799999999999999999995 6999999998 9999999999999999999999999999999988887765544
Q ss_pred C
Q 036215 154 S 154 (289)
Q Consensus 154 s 154 (289)
+
T Consensus 85 s 85 (238)
T KOG0048|consen 85 S 85 (238)
T ss_pred H
Confidence 3
No 15
>PLN03091 hypothetical protein; Provisional
Probab=99.28 E-value=1.3e-12 Score=127.08 Aligned_cols=73 Identities=19% Similarity=0.358 Sum_probs=66.1
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHhhC-CchhhhhccC-CCCCHHHHHHHHHHHhhhhhhhCCCCCCCCcccccccc
Q 036215 75 RPSIKRGHIAPDEEDLILRLHRLLG-NRWSLIAGRI-PGRTDNEIKNYWNTRLRKKLISQGINPTTHKPLIFNQV 147 (289)
Q Consensus 75 ~p~lkrg~WT~EED~~Ll~lv~~~G-~kWs~IA~~l-pgRT~~q~knRW~~~lrk~~~~~~~~~~~~k~l~~~~~ 147 (289)
+..+++++||+|||++|+++|.+|| .+|..||+.+ +||++.|||.||.++|++.+.+++|+++++..|.....
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k 83 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHA 83 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHH
Confidence 3578999999999999999999999 4799999988 59999999999999999999999999999987765443
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.27 E-value=7.7e-12 Score=84.60 Aligned_cols=47 Identities=34% Similarity=0.789 Sum_probs=44.5
Q ss_pred CCCCCHHHHHHHHHHHHhhC-CchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 80 RGHIAPDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 80 rg~WT~EED~~Ll~lv~~~G-~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
+++||+|||.+|+.++.+|| .+|..||..|++||+.+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998765
No 17
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.14 E-value=7.8e-11 Score=78.51 Aligned_cols=44 Identities=32% Similarity=0.680 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHhhC-CchhhhhccCCCCCHHHHHHHHHHHh
Q 036215 82 HIAPDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTRL 125 (289)
Q Consensus 82 ~WT~EED~~Ll~lv~~~G-~kWs~IA~~lpgRT~~q~knRW~~~l 125 (289)
+||+||+.+|+.++.+|| .+|..||..|++||..+|++||+.++
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 18
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.04 E-value=8.2e-11 Score=118.72 Aligned_cols=122 Identities=22% Similarity=0.281 Sum_probs=98.5
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCC-----------------------CCcceeccccCcccCccccccccccccCCCC-
Q 036215 23 VGIKKGPWTPEEDEILSNYIKREGE-----------------------GQWRTLPKRAGLLRCGKSCRLRWMNYLRPSI- 78 (289)
Q Consensus 23 ~~lkkg~WT~EEDe~L~~~V~~~g~-----------------------~~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p~l- 78 (289)
.-++-+.|++|||+.|.+.|..|-. +-|..|...++. |+.+.+..+-++...|--
T Consensus 304 ~e~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp~-R~~~siy~~~rR~y~~FE~ 382 (607)
T KOG0051|consen 304 DEINLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLPY-RDRKSIYHHLRRAYTPFEN 382 (607)
T ss_pred hhhhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcCc-ccchhHHHHHHhcCCcccc
Confidence 3455688999999999999988711 125677888887 999988773333333322
Q ss_pred CCCCCCHHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhhh--hhhCCCCCCCCccccccc
Q 036215 79 KRGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKK--LISQGINPTTHKPLIFNQ 146 (289)
Q Consensus 79 krg~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk~--~~~~~~~~~~~k~l~~~~ 146 (289)
++|.||+||++.|..+|.++|+.|..|++.| ||.+.+|++||+.+++.. ..++.|+.++...|....
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V 451 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTV 451 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHH
Confidence 9999999999999999999999999999999 999999999999998875 477889887776665443
No 19
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.00 E-value=1.4e-10 Score=78.42 Aligned_cols=48 Identities=42% Similarity=0.854 Sum_probs=44.2
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCccccccccccccC
Q 036215 27 KGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLR 75 (289)
Q Consensus 27 kg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L~ 75 (289)
+++||++||++|+.++..||..+|..||..+++ |++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~-rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPG-RTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCC-CCHHHHHHHHHHHcC
Confidence 468999999999999999996699999999996 999999999998764
No 20
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.84 E-value=1.1e-09 Score=72.97 Aligned_cols=45 Identities=44% Similarity=0.863 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcceeccccCcccCcccccccccccc
Q 036215 29 PWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYL 74 (289)
Q Consensus 29 ~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L 74 (289)
+||+|||+.|+.++.++|..+|..||..+++ |++.+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~-rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPG-RTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCC-CCHHHHHHHHHHhC
Confidence 5999999999999999997799999999987 99999999998753
No 21
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.43 E-value=1.5e-08 Score=101.38 Aligned_cols=99 Identities=27% Similarity=0.581 Sum_probs=86.9
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCccccccccccccCC--CCCCCCCCHHHHHHHHHHHHhhC---
Q 036215 25 IKKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRP--SIKRGHIAPDEEDLILRLHRLLG--- 99 (289)
Q Consensus 25 lkkg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p--~lkrg~WT~EED~~Ll~lv~~~G--- 99 (289)
-.+|.||+||++.|...+.++|. .|..|...++ |-+..||+||++|..+ .+++++|+.||+.+|...+...-
T Consensus 289 ~~~~~wt~e~~~eL~~~~~~~~~-~w~~ig~~~~--rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e~~~~~ 365 (512)
T COG5147 289 EQRGKWTKEEEQELAKLVVEHGG-SWTEIGKLLG--RMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNEMRLEA 365 (512)
T ss_pred hhhccCccccccccccccccccc-hhhHhhhhhc--cCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHHHHHHH
Confidence 34679999999999999999995 9999998776 8999999999999988 78999999999999999987432
Q ss_pred -----CchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 100 -----NRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 100 -----~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
-.|..|+..+++|....|+.++..+..
T Consensus 366 ~~~~~~~~~li~~~~~~~~~~~~~~~~~~~~~ 397 (512)
T COG5147 366 QQSSRILWLLIAQNIRNRLQHHCRDKYGVLIS 397 (512)
T ss_pred hhhhhhhHHHHHHhhhccccCCCCCccccccc
Confidence 259999999999999999888876655
No 22
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.87 E-value=5.4e-06 Score=82.54 Aligned_cols=78 Identities=19% Similarity=0.276 Sum_probs=68.4
Q ss_pred CCCCCCCHHHHHHHHHHHHhhC-CchhhhhccCCCCCHHHHHHHHHHHhhhhhhhCCCCCCCCcccccccccccccCCC
Q 036215 78 IKRGHIAPDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTRLRKKLISQGINPTTHKPLIFNQVVHDQLASS 155 (289)
Q Consensus 78 lkrg~WT~EED~~Ll~lv~~~G-~kWs~IA~~lpgRT~~q~knRW~~~lrk~~~~~~~~~~~~k~l~~~~~~~~~~~s~ 155 (289)
++.|-|+.-||+.|-.++.+|| +.|++|+..++-.+..||++||..++.+.+.+..|+.+++..+...-....+.+.+
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrt 83 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRT 83 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccch
Confidence 5678999999999999999999 67999999999999999999999999999999999999888777665555444443
No 23
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.70 E-value=1.7e-05 Score=57.49 Aligned_cols=48 Identities=10% Similarity=0.232 Sum_probs=42.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCc---ceeccccCccc-Ccccccccccccc
Q 036215 27 KGPWTPEEDEILSNYIKREGEGQW---RTLPKRAGLLR-CGKSCRLRWMNYL 74 (289)
Q Consensus 27 kg~WT~EEDe~L~~~V~~~g~~~W---~~IA~~~~~~R-t~kqCr~Rw~n~L 74 (289)
+-.||+||.++++++|..+|.++| ..|++.|+..| +..||+.++..|.
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 447999999999999999998899 99999987556 9999999887764
No 24
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.69 E-value=9.2e-05 Score=53.68 Aligned_cols=47 Identities=19% Similarity=0.219 Sum_probs=40.8
Q ss_pred CCCCCCHHHHHHHHHHHHhhCC-ch---hhhhccCC-CC-CHHHHHHHHHHHh
Q 036215 79 KRGHIAPDEEDLILRLHRLLGN-RW---SLIAGRIP-GR-TDNEIKNYWNTRL 125 (289)
Q Consensus 79 krg~WT~EED~~Ll~lv~~~G~-kW---s~IA~~lp-gR-T~~q~knRW~~~l 125 (289)
.|-.||+||..++++++..||. .| ..|++.|. .| |..+|+.|...+.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 3568999999999999999996 99 99999873 45 9999999987654
No 25
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.51 E-value=0.00018 Score=64.56 Aligned_cols=100 Identities=19% Similarity=0.374 Sum_probs=71.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcceeccccCcc--cCcccccccccccc-CCCC--------------------CCCCCCH
Q 036215 29 PWTPEEDEILSNYIKREGEGQWRTLPKRAGLL--RCGKSCRLRWMNYL-RPSI--------------------KRGHIAP 85 (289)
Q Consensus 29 ~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~--Rt~kqCr~Rw~n~L-~p~l--------------------krg~WT~ 85 (289)
+|++++|-.|+.+|..-. +-+.|+.-+... -|-..+.+||+..| +|.+ .+.+||.
T Consensus 1 rW~~~DDl~Li~av~~~~--~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~ 78 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN--DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSK 78 (199)
T ss_pred CCCchhhHHHHHHHHHhc--CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCH
Confidence 599999999999998765 456665544331 35566778999865 4433 3578999
Q ss_pred HHHHHHHHHHHhhCC---chhhhhc----cC-CCCCHHHHHHHHHHHhhhhhh
Q 036215 86 DEEDLILRLHRLLGN---RWSLIAG----RI-PGRTDNEIKNYWNTRLRKKLI 130 (289)
Q Consensus 86 EED~~Ll~lv~~~G~---kWs~IA~----~l-pgRT~~q~knRW~~~lrk~~~ 130 (289)
+|+++|......... .+.+|=. .| ++||+.++.++|..+.+-.+.
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~LL 131 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHLL 131 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhchh
Confidence 999999998766543 4666532 24 789999999999865555443
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.48 E-value=4.5e-05 Score=74.74 Aligned_cols=50 Identities=20% Similarity=0.535 Sum_probs=45.6
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCcccccccccccc
Q 036215 24 GIKKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYL 74 (289)
Q Consensus 24 ~lkkg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L 74 (289)
.+-...||.+|+-+|++++..||-|||..||.++|. |+..+|+++|.+++
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGt-Ktkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGT-KTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcc-cchHHHHHHHHHHH
Confidence 445568999999999999999999999999999997 99999999999854
No 27
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.46 E-value=0.00018 Score=70.64 Aligned_cols=49 Identities=29% Similarity=0.386 Sum_probs=44.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHhhC-CchhhhhccCCCCCHHHHHHHHHHHh
Q 036215 77 SIKRGHIAPDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTRL 125 (289)
Q Consensus 77 ~lkrg~WT~EED~~Ll~lv~~~G-~kWs~IA~~lpgRT~~q~knRW~~~l 125 (289)
.+-...||.+||.+||+++..|| ++|..||.++..|+..+||.+|.++.
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 45567899999999999999999 89999999999999999999998655
No 28
>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=97.32 E-value=0.00024 Score=61.52 Aligned_cols=52 Identities=17% Similarity=0.263 Sum_probs=45.2
Q ss_pred CCCCCCHHHHHHHHHHHHhh---CC----chhhhhccCCCCCHHHHHHHHHHHhhhhhhh
Q 036215 79 KRGHIAPDEEDLILRLHRLL---GN----RWSLIAGRIPGRTDNEIKNYWNTRLRKKLIS 131 (289)
Q Consensus 79 krg~WT~EED~~Ll~lv~~~---G~----kWs~IA~~lpgRT~~q~knRW~~~lrk~~~~ 131 (289)
...-||.|||.+|.+.|..| |. -+..+++.| +||+.+|.-|||..+|+.+..
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~ 61 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEE 61 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHH
Confidence 34679999999999999887 53 388999999 999999999999999987644
No 29
>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=97.15 E-value=0.00051 Score=51.10 Aligned_cols=50 Identities=18% Similarity=0.369 Sum_probs=33.1
Q ss_pred CCCCCHHHHHHHHHHHHhh--------CCc-hhhhhccCC-CCCHHHHHHHHHHHhhhhh
Q 036215 80 RGHIAPDEEDLILRLHRLL--------GNR-WSLIAGRIP-GRTDNEIKNYWNTRLRKKL 129 (289)
Q Consensus 80 rg~WT~EED~~Ll~lv~~~--------G~k-Ws~IA~~lp-gRT~~q~knRW~~~lrk~~ 129 (289)
|.+||.|||.+|++.|.++ |++ |..+++.-| .+|-...|+||...|+.+.
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 5689999999999999765 222 999999987 8999999999998887653
No 30
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.14 E-value=0.0003 Score=53.94 Aligned_cols=49 Identities=24% Similarity=0.466 Sum_probs=35.1
Q ss_pred CCCCCHHHHHHHHHHHHh------hC--C------chhhhhccC----CCCCHHHHHHHHHHHhhhh
Q 036215 80 RGHIAPDEEDLILRLHRL------LG--N------RWSLIAGRI----PGRTDNEIKNYWNTRLRKK 128 (289)
Q Consensus 80 rg~WT~EED~~Ll~lv~~------~G--~------kWs~IA~~l----pgRT~~q~knRW~~~lrk~ 128 (289)
|..||.+|...||+++.. ++ . .|..||..| ..||+.||+++|+++.+.-
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Y 67 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKY 67 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Confidence 458999999999999977 21 1 399999887 3699999999998877653
No 31
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.58 E-value=0.0028 Score=64.08 Aligned_cols=48 Identities=15% Similarity=0.246 Sum_probs=43.7
Q ss_pred CCCCCCCHHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHh
Q 036215 78 IKRGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRL 125 (289)
Q Consensus 78 lkrg~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~l 125 (289)
..+..||.+|..+|++++..||-.|.+||.++.+||..+|--|+..+=
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 456789999999999999999999999999999999999999886543
No 32
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.48 E-value=0.0009 Score=66.36 Aligned_cols=46 Identities=20% Similarity=0.546 Sum_probs=42.4
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCccccccccccc
Q 036215 26 KKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNY 73 (289)
Q Consensus 26 kkg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~ 73 (289)
....||.+|..+|++.|+.||. +|..||.++|. |+..||..|+.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVgt-Kt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVGT-KTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhCC-CCHHHHHHHHHcC
Confidence 5669999999999999999996 99999999997 9999999998763
No 33
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.43 E-value=0.0029 Score=62.90 Aligned_cols=44 Identities=16% Similarity=0.221 Sum_probs=41.3
Q ss_pred CCCCHHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHH
Q 036215 81 GHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTR 124 (289)
Q Consensus 81 g~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~ 124 (289)
.+||.+|..+|++.+..||..|.+||+++..||..||--|+-++
T Consensus 280 k~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 280 KNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 48999999999999999999999999999999999999998654
No 34
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.30 E-value=0.0017 Score=65.67 Aligned_cols=47 Identities=21% Similarity=0.568 Sum_probs=42.6
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCccccccccccc
Q 036215 25 IKKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNY 73 (289)
Q Consensus 25 lkkg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~ 73 (289)
--++.||.+|+.+|+++|+.||. +|..||.+++. |+..||..++.+.
T Consensus 251 ~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg~-ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 251 SARPNWTEQETLLLLEAIEMYGD-DWNKVADHVGT-KSQEQCILKFLRL 297 (506)
T ss_pred cCCCCccHHHHHHHHHHHHHhcc-cHHHHHhccCC-CCHHHHHHHHHhc
Confidence 34568999999999999999996 99999999997 9999999998763
No 35
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.11 E-value=0.0012 Score=49.09 Aligned_cols=52 Identities=29% Similarity=0.521 Sum_probs=32.9
Q ss_pred cCCCCHHHHHHHHHHHHHhCC------C--CcceeccccCcccCccccccccccccCCCC
Q 036215 27 KGPWTPEEDEILSNYIKREGE------G--QWRTLPKRAGLLRCGKSCRLRWMNYLRPSI 78 (289)
Q Consensus 27 kg~WT~EEDe~L~~~V~~~g~------~--~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p~l 78 (289)
+-+||.|||+.|+.+|.++.. | =|..+++.-++.++..+-|+||...|.+..
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 458999999999999976521 2 299998888756899999999999887643
No 36
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.04 E-value=0.006 Score=53.50 Aligned_cols=51 Identities=14% Similarity=0.236 Sum_probs=42.5
Q ss_pred CCCCCCHHHHHHHHHHHHhhCCc-------hhhhhccCCCCCHHHHHHHHHHHhhhhhh
Q 036215 79 KRGHIAPDEEDLILRLHRLLGNR-------WSLIAGRIPGRTDNEIKNYWNTRLRKKLI 130 (289)
Q Consensus 79 krg~WT~EED~~Ll~lv~~~G~k-------Ws~IA~~lpgRT~~q~knRW~~~lrk~~~ 130 (289)
+...||.|||.+|.+.|..|+.. ...++..| +||..+|..||+..+|+++.
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Ye 61 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQ 61 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHH
Confidence 45689999999999999888642 56666777 99999999999999997653
No 37
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=95.82 E-value=0.0026 Score=55.18 Aligned_cols=50 Identities=28% Similarity=0.650 Sum_probs=41.5
Q ss_pred CccCCCCHHHHHHHHHHHHHhCC-C-----CcceeccccCcccCccccccccccccCC
Q 036215 25 IKKGPWTPEEDEILSNYIKREGE-G-----QWRTLPKRAGLLRCGKSCRLRWMNYLRP 76 (289)
Q Consensus 25 lkkg~WT~EEDe~L~~~V~~~g~-~-----~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p 76 (289)
.+.-.||.|||.+|.+.|.+|-. | ....++..++ ||+--|..||..++..
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VRk 57 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVRK 57 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHHH
Confidence 34567999999999999999832 1 4788888886 9999999999988864
No 38
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.77 E-value=0.015 Score=43.75 Aligned_cols=48 Identities=19% Similarity=0.425 Sum_probs=39.8
Q ss_pred CCCCCHHHHHHHHHHHHhh-----CC------------chhhhhccC-----CCCCHHHHHHHHHHHhhh
Q 036215 80 RGHIAPDEEDLILRLHRLL-----GN------------RWSLIAGRI-----PGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 80 rg~WT~EED~~Ll~lv~~~-----G~------------kWs~IA~~l-----pgRT~~q~knRW~~~lrk 127 (289)
...||++|..+|++++.+| |. -|..|+..| +.||..+|+.+|..+...
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~ 71 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSK 71 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHH
Confidence 3579999999999999887 31 399999876 259999999999887754
No 39
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.59 E-value=0.0084 Score=57.25 Aligned_cols=48 Identities=17% Similarity=0.474 Sum_probs=44.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCccccccccccccC
Q 036215 27 KGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLR 75 (289)
Q Consensus 27 kg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L~ 75 (289)
---|+..|+-+|+++....|-|+|.-||..+|. |+...|+.+|..++.
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGs-r~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGS-RAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhh-hhhHHHHHHHHHHHh
Confidence 346999999999999999999999999999996 999999999998765
No 40
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.57 E-value=0.011 Score=56.41 Aligned_cols=48 Identities=29% Similarity=0.374 Sum_probs=43.4
Q ss_pred CCCCCCHHHHHHHHHHHHhhC-CchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 79 KRGHIAPDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 79 krg~WT~EED~~Ll~lv~~~G-~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
--..|+.+|+.+|++....+| ++|..||.++..|+...||.+|..+.-
T Consensus 62 ~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 62 GEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred cCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 345799999999999999999 799999999989999999999976654
No 41
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.34 E-value=0.0029 Score=48.42 Aligned_cols=46 Identities=28% Similarity=0.644 Sum_probs=32.2
Q ss_pred CCCCHHHHHHHHHHHHH--h----C---C--C--Ccceecccc---CcccCccccccccccc
Q 036215 28 GPWTPEEDEILSNYIKR--E----G---E--G--QWRTLPKRA---GLLRCGKSCRLRWMNY 73 (289)
Q Consensus 28 g~WT~EEDe~L~~~V~~--~----g---~--~--~W~~IA~~~---~~~Rt~kqCr~Rw~n~ 73 (289)
-.||.+|...|+.++.. + + . . -|..||..| |..|++.||+.+|.+.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 47999999999998877 1 1 1 1 399999887 4559999999999874
No 42
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.52 E-value=0.085 Score=57.87 Aligned_cols=98 Identities=13% Similarity=0.270 Sum_probs=73.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcceeccccCcccCcccccc-------ccccc----------------------------
Q 036215 29 PWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRL-------RWMNY---------------------------- 73 (289)
Q Consensus 29 ~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~-------Rw~n~---------------------------- 73 (289)
.|+.-|=..++.+..+||..+...||..|.+ ++...++. ||...
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~-k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~ 904 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEMEG-KTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG 904 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhcC-CCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4777777778888899998888999998875 66655442 21110
Q ss_pred --------------c-CCCCCCCCCCHHHHHHHHHHHHhhC-Cchhhhhcc------------CCCCCHHHHHHHHHHHh
Q 036215 74 --------------L-RPSIKRGHIAPDEEDLILRLHRLLG-NRWSLIAGR------------IPGRTDNEIKNYWNTRL 125 (289)
Q Consensus 74 --------------L-~p~lkrg~WT~EED~~Ll~lv~~~G-~kWs~IA~~------------lpgRT~~q~knRW~~~l 125 (289)
+ .+..++..||+|||.-|+-.+.+|| .+|..|-.. |..||+..|..|...++
T Consensus 905 ~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~ 984 (1033)
T PLN03142 905 KKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI 984 (1033)
T ss_pred HHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence 0 1233445699999999999999999 679998422 24799999999999888
Q ss_pred hh
Q 036215 126 RK 127 (289)
Q Consensus 126 rk 127 (289)
+-
T Consensus 985 ~~ 986 (1033)
T PLN03142 985 RL 986 (1033)
T ss_pred HH
Confidence 64
No 43
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.18 E-value=0.0089 Score=44.95 Aligned_cols=48 Identities=23% Similarity=0.436 Sum_probs=38.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCC----------------CCcceecccc----CcccCcccccccccccc
Q 036215 27 KGPWTPEEDEILSNYIKREGE----------------GQWRTLPKRA----GLLRCGKSCRLRWMNYL 74 (289)
Q Consensus 27 kg~WT~EEDe~L~~~V~~~g~----------------~~W~~IA~~~----~~~Rt~kqCr~Rw~n~L 74 (289)
+..||.+|.+.|+++|.+|.. .-|..|+..+ ++.|+..+|+.+|.+..
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 568999999999999999821 1399998876 32599999999998753
No 44
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=93.87 E-value=0.075 Score=52.05 Aligned_cols=82 Identities=21% Similarity=0.355 Sum_probs=62.2
Q ss_pred CcceeccccCcccCccccccccccccCCC-------------------------CCCCCCCHHHHHHHHHHHHhhCCchh
Q 036215 49 QWRTLPKRAGLLRCGKSCRLRWMNYLRPS-------------------------IKRGHIAPDEEDLILRLHRLLGNRWS 103 (289)
Q Consensus 49 ~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p~-------------------------lkrg~WT~EED~~Ll~lv~~~G~kWs 103 (289)
.|.-++=..+- |...--..+|....++. ++-..||.||-+-|.++++.|.-+|-
T Consensus 75 ~W~w~pFtn~a-RkD~~~l~HWvr~~d~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf~ 153 (445)
T KOG2656|consen 75 PWKWVPFTNSA-RKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRFF 153 (445)
T ss_pred CceeeccCCcc-ccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeEE
Confidence 56666543433 66666677787764332 12245999999999999999999999
Q ss_pred hhhcc-----CCC-CCHHHHHHHHHHHhhhhhhh
Q 036215 104 LIAGR-----IPG-RTDNEIKNYWNTRLRKKLIS 131 (289)
Q Consensus 104 ~IA~~-----lpg-RT~~q~knRW~~~lrk~~~~ 131 (289)
.|+.. ++. ||-.++|.||+...++-+..
T Consensus 154 VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kA 187 (445)
T KOG2656|consen 154 VIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKA 187 (445)
T ss_pred EEeeccchhhccccccHHHHHHHHHHHHHHHHHc
Confidence 99987 555 99999999999888775544
No 45
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=93.38 E-value=0.1 Score=50.02 Aligned_cols=49 Identities=14% Similarity=0.236 Sum_probs=40.4
Q ss_pred CCCCCHHHHHHHHHHHHhh----------CCchhhhhccC----CCCCHHHHHHHHHHHhhhh
Q 036215 80 RGHIAPDEEDLILRLHRLL----------GNRWSLIAGRI----PGRTDNEIKNYWNTRLRKK 128 (289)
Q Consensus 80 rg~WT~EED~~Ll~lv~~~----------G~kWs~IA~~l----pgRT~~q~knRW~~~lrk~ 128 (289)
...|+.+|-..||++..+. +..|..||+.+ .-||+.+||++|.++.++-
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Y 116 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKY 116 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence 4689999999999999653 34599999965 3499999999999888763
No 46
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=93.04 E-value=0.019 Score=50.33 Aligned_cols=49 Identities=22% Similarity=0.538 Sum_probs=37.7
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCC------cceeccccCcccCccccccccccccC
Q 036215 25 IKKGPWTPEEDEILSNYIKREGEGQ------WRTLPKRAGLLRCGKSCRLRWMNYLR 75 (289)
Q Consensus 25 lkkg~WT~EEDe~L~~~V~~~g~~~------W~~IA~~~~~~Rt~kqCr~Rw~n~L~ 75 (289)
.+...||.|||.+|.+.|.+|+... ...++..+. |+...|..||.-++.
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 4667899999999999999986422 444555564 999999999966654
No 47
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=92.09 E-value=0.31 Score=37.60 Aligned_cols=46 Identities=30% Similarity=0.532 Sum_probs=36.0
Q ss_pred CCCHHHHHHHHHHHHhh---CC----------chhhhhccC---CC--CCHHHHHHHHHHHhhh
Q 036215 82 HIAPDEEDLILRLHRLL---GN----------RWSLIAGRI---PG--RTDNEIKNYWNTRLRK 127 (289)
Q Consensus 82 ~WT~EED~~Ll~lv~~~---G~----------kWs~IA~~l---pg--RT~~q~knRW~~~lrk 127 (289)
.||+++++.|++++.+. |+ .|..|+..| +| .+..+|++||..+.+.
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 49999999999999653 22 399999887 33 4789999999776664
No 48
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=91.60 E-value=0.3 Score=40.46 Aligned_cols=51 Identities=24% Similarity=0.379 Sum_probs=40.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHhhCC----chhhhhccC------------CCCCHHHHHHHHHHHhhh
Q 036215 77 SIKRGHIAPDEEDLILRLHRLLGN----RWSLIAGRI------------PGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 77 ~lkrg~WT~EED~~Ll~lv~~~G~----kWs~IA~~l------------pgRT~~q~knRW~~~lrk 127 (289)
..++..||+|||.-|+-++.+||- .|..|-..+ ..||+..|..|-..+++-
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 556779999999999999999997 798886542 369999999999988864
No 49
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=89.73 E-value=0.58 Score=46.86 Aligned_cols=48 Identities=13% Similarity=0.284 Sum_probs=43.8
Q ss_pred CCCCCHHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 80 RGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 80 rg~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
...||.||-.++-+++..||.++.+|-..||.|+-..+..+|+...+.
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~ 234 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKT 234 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHH
Confidence 467999999999999999999999999999999999999998866553
No 50
>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=89.40 E-value=0.75 Score=31.77 Aligned_cols=41 Identities=20% Similarity=0.344 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 85 PDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 85 ~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
++++..++.++...|-.|.+||..+ |.+...|+.+....++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARK 52 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHh
Confidence 5778889999999999999999999 9999999998876654
No 51
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=88.96 E-value=0.58 Score=45.94 Aligned_cols=47 Identities=19% Similarity=0.281 Sum_probs=43.2
Q ss_pred CCCCHHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 81 GHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 81 g~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
.+||.+|-++...+..++|..++.|+..||.|...|||-+|.+--|+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~ 412 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKV 412 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhh
Confidence 47999999999999999999999999999999999999999765443
No 52
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=80.94 E-value=1.2 Score=42.63 Aligned_cols=48 Identities=21% Similarity=0.397 Sum_probs=37.1
Q ss_pred cCCCCHHHHHHHHHHHHHh----CC-----CCcceecccc---CcccCcccccccccccc
Q 036215 27 KGPWTPEEDEILSNYIKRE----GE-----GQWRTLPKRA---GLLRCGKSCRLRWMNYL 74 (289)
Q Consensus 27 kg~WT~EEDe~L~~~V~~~----g~-----~~W~~IA~~~---~~~Rt~kqCr~Rw~n~L 74 (289)
-..|+.+|-..|+++..+. .. ..|..||+.+ |..|++.||+.+|.+..
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 3679999999999887653 11 2599999854 44599999999998743
No 53
>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=80.34 E-value=1.1 Score=36.99 Aligned_cols=34 Identities=26% Similarity=0.484 Sum_probs=27.8
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCC---CCcceecccc
Q 036215 24 GIKKGPWTPEEDEILSNYIKREGE---GQWRTLPKRA 57 (289)
Q Consensus 24 ~lkkg~WT~EEDe~L~~~V~~~g~---~~W~~IA~~~ 57 (289)
.-++..||.|||..|+-++.+||. +.|..|-..+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 556678999999999999999998 8899986654
No 54
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=78.13 E-value=3.2 Score=44.02 Aligned_cols=46 Identities=13% Similarity=0.181 Sum_probs=42.1
Q ss_pred CCCCCHHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHh
Q 036215 80 RGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRL 125 (289)
Q Consensus 80 rg~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~l 125 (289)
...||+.|-.++-+++..|-..+..|++.++++|-.+|-.+|+...
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtWK 664 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTWK 664 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHHH
Confidence 3579999999999999999999999999999999999999887544
No 55
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=76.32 E-value=4.3 Score=42.18 Aligned_cols=49 Identities=16% Similarity=0.444 Sum_probs=40.8
Q ss_pred CCCCCHHHHHHHHHHHHhhCCchhhh----------hccCCCCCHHHHHHHHHHHhhhh
Q 036215 80 RGHIAPDEEDLILRLHRLLGNRWSLI----------AGRIPGRTDNEIKNYWNTRLRKK 128 (289)
Q Consensus 80 rg~WT~EED~~Ll~lv~~~G~kWs~I----------A~~lpgRT~~q~knRW~~~lrk~ 128 (289)
+.-||-+|+.....+.+++|..+.+| -....-+|..+++.+|+.++++.
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 66899999999999999999999888 22233468889999999888764
No 56
>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=74.92 E-value=5.8 Score=26.95 Aligned_cols=41 Identities=24% Similarity=0.382 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 86 DEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 86 EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
+++..++.++-..|..+..||..| |-+...|+.+.+..+++
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~k 47 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKK 47 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHH
Confidence 566677777777778999999999 88999999988877654
No 57
>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=74.50 E-value=3.1 Score=32.25 Aligned_cols=23 Identities=48% Similarity=0.900 Sum_probs=13.7
Q ss_pred CCccCCCCHHHHHHH--------HHHHHHhC
Q 036215 24 GIKKGPWTPEEDEIL--------SNYIKREG 46 (289)
Q Consensus 24 ~lkkg~WT~EEDe~L--------~~~V~~~g 46 (289)
.-..|-||+|+|+.| ..++++||
T Consensus 44 ~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG 74 (87)
T PF11626_consen 44 DNMPGIWTPEDDEMLRSGDKDDIERLIKKHG 74 (87)
T ss_dssp TT-TT---HHHHHHHTS--HHHHHHHHHHH-
T ss_pred CCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC
Confidence 345788999999999 45667777
No 58
>smart00595 MADF subfamily of SANT domain.
Probab=74.48 E-value=3.5 Score=31.22 Aligned_cols=26 Identities=27% Similarity=0.538 Sum_probs=21.7
Q ss_pred chhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 101 RWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 101 kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
-|..||..| |-+..+|+.+|+++...
T Consensus 29 aW~~Ia~~l-~~~~~~~~~kw~~LR~~ 54 (89)
T smart00595 29 AWEEIAEEL-GLSVEECKKRWKNLRDR 54 (89)
T ss_pred HHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 399999999 45999999999877543
No 59
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=73.98 E-value=1.5 Score=43.12 Aligned_cols=43 Identities=14% Similarity=0.196 Sum_probs=40.0
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCcccccccccc
Q 036215 28 GPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMN 72 (289)
Q Consensus 28 g~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n 72 (289)
-+||.+|-+++.+++...|. ++..|+..+|. |..+|+..+|.+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP~-R~RkqIKaKfi~ 408 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGT-DFSLISSLFPN-RERKQIKAKFIK 408 (507)
T ss_pred CcccHHHHHHHHHHHHHhcc-hHHHHHHhcCc-hhHHHHHHHHHH
Confidence 37999999999999999998 89999999998 999999998876
No 60
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=72.48 E-value=9 Score=40.80 Aligned_cols=43 Identities=14% Similarity=0.289 Sum_probs=38.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCcccccccccc
Q 036215 28 GPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMN 72 (289)
Q Consensus 28 g~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n 72 (289)
-.||+.|-.++.+++..|.. ++..|++.+.+ ++.+||-+-|+.
T Consensus 620 d~WTp~E~~lF~kA~y~~~K-DF~~v~km~~~-KtVaqCVeyYYt 662 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSK-DFIFVQKMVKS-KTVAQCVEYYYT 662 (907)
T ss_pred ccccHHHHHHHHHHHHHhcc-cHHHHHHHhcc-ccHHHHHHHHHH
Confidence 37999999999999999986 89999999987 999999887644
No 61
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=71.18 E-value=12 Score=36.04 Aligned_cols=45 Identities=24% Similarity=0.440 Sum_probs=36.2
Q ss_pred CCCCCHHHHHHHHHHHHhh-CCc---hhhhhccCCCCCHHHHHHHHHHH
Q 036215 80 RGHIAPDEEDLILRLHRLL-GNR---WSLIAGRIPGRTDNEIKNYWNTR 124 (289)
Q Consensus 80 rg~WT~EED~~Ll~lv~~~-G~k---Ws~IA~~lpgRT~~q~knRW~~~ 124 (289)
-..||.-|...|+.+.+.. |.. -..|++.++||+..+|++.-..+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~L 69 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQL 69 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHH
Confidence 4579999999999988765 544 57889999999999999865433
No 62
>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=65.71 E-value=11 Score=30.71 Aligned_cols=40 Identities=20% Similarity=0.299 Sum_probs=29.9
Q ss_pred HHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 87 EEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 87 ED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
++..++.+.-..|..+..||..+ |.+...|+.++...+++
T Consensus 117 ~~r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 117 QCRKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34444455445588999999998 99999999999775543
No 63
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=64.51 E-value=8.8 Score=32.44 Aligned_cols=46 Identities=13% Similarity=0.095 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHhhC-CchhhhhccCCCCCHHHHHHHHHHHhhhhhhh
Q 036215 85 PDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTRLRKKLIS 131 (289)
Q Consensus 85 ~EED~~Ll~lv~~~G-~kWs~IA~~lpgRT~~q~knRW~~~lrk~~~~ 131 (289)
.+-|..|+.+..+-| -.|+.||+.+ |-+...|+.|++.+....+.+
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 357888999988888 5799999999 999999999998887766554
No 64
>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=63.86 E-value=6.8 Score=30.31 Aligned_cols=16 Identities=19% Similarity=0.630 Sum_probs=9.8
Q ss_pred CCCCCCCCCHHHHHHH
Q 036215 76 PSIKRGHIAPDEEDLI 91 (289)
Q Consensus 76 p~lkrg~WT~EED~~L 91 (289)
|....|-||+|+|+.|
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 5667889999999998
No 65
>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=60.89 E-value=14 Score=24.85 Aligned_cols=38 Identities=18% Similarity=0.319 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHhhCC-chhhhhccCCCCCHHHHHHHHHHH
Q 036215 86 DEEDLILRLHRLLGN-RWSLIAGRIPGRTDNEIKNYWNTR 124 (289)
Q Consensus 86 EED~~Ll~lv~~~G~-kWs~IA~~lpgRT~~q~knRW~~~ 124 (289)
+=|..|+.+...-|. .|..||+.+ |=|...|..|+..+
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 457888998888884 699999999 99999999998654
No 66
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=60.22 E-value=15 Score=36.24 Aligned_cols=45 Identities=18% Similarity=0.217 Sum_probs=39.5
Q ss_pred CCCCHHHHHHHHHHHHhhCCchhhhhcc-CCCCCHHHHHHHHHHHh
Q 036215 81 GHIAPDEEDLILRLHRLLGNRWSLIAGR-IPGRTDNEIKNYWNTRL 125 (289)
Q Consensus 81 g~WT~EED~~Ll~lv~~~G~kWs~IA~~-lpgRT~~q~knRW~~~l 125 (289)
..|+++|...+-+..+.||..+..|... ++.|+--.|-.+|+...
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWK 323 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWK 323 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhh
Confidence 4799999999999999999999999655 89999999988876544
No 67
>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=58.92 E-value=9.4 Score=33.19 Aligned_cols=41 Identities=17% Similarity=0.140 Sum_probs=34.9
Q ss_pred CCCHHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHH
Q 036215 82 HIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNT 123 (289)
Q Consensus 82 ~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~ 123 (289)
.||+|+.+.|.+|. .-|..=++||+.|.|.|.|+|--+-+.
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 59999999988888 568888999999977999999776653
No 68
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=58.67 E-value=9.8 Score=42.72 Aligned_cols=74 Identities=18% Similarity=0.197 Sum_probs=47.6
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCccccccccccccCCCCCCCCCCHHHHHHHHHHHHhh-CCchhh
Q 036215 26 KKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPSIKRGHIAPDEEDLILRLHRLL-GNRWSL 104 (289)
Q Consensus 26 kkg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p~lkrg~WT~EED~~Ll~lv~~~-G~kWs~ 104 (289)
.-.-|..+||..|+-.|-+||.++|..|- +.. .-|.. =...+...+-.+.|=..+-..|+.+...+ +.+|..
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir--~Dp----~L~l~-dKi~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~ 1204 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIR--LDP----DLGLT-DKIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPK 1204 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhc--cCc----cccch-hhhcccccCCchHHHHHHHHHHHHHHhhcccCCCch
Confidence 44579999999999999999999999982 211 11111 11222222455666677777777777766 455555
Q ss_pred hh
Q 036215 105 IA 106 (289)
Q Consensus 105 IA 106 (289)
..
T Consensus 1205 ~~ 1206 (1373)
T KOG0384|consen 1205 KL 1206 (1373)
T ss_pred hh
Confidence 44
No 69
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=56.53 E-value=12 Score=32.12 Aligned_cols=46 Identities=15% Similarity=0.049 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHhhC-CchhhhhccCCCCCHHHHHHHHHHHhhhhhhh
Q 036215 85 PDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTRLRKKLIS 131 (289)
Q Consensus 85 ~EED~~Ll~lv~~~G-~kWs~IA~~lpgRT~~q~knRW~~~lrk~~~~ 131 (289)
.+-|.+|+.+..+-| -.|+.||+.+ |=+...|+.|++.+.+..+++
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCeE
Confidence 467888998888887 4799999999 999999999998888776544
No 70
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=55.89 E-value=23 Score=32.01 Aligned_cols=46 Identities=17% Similarity=0.192 Sum_probs=33.7
Q ss_pred CCCHHHHHHHHHHHHhhCCchhhhhcc--C-CCCCHHHHHHHHHHHhhhh
Q 036215 82 HIAPDEEDLILRLHRLLGNRWSLIAGR--I-PGRTDNEIKNYWNTRLRKK 128 (289)
Q Consensus 82 ~WT~EED~~Ll~lv~~~G~kWs~IA~~--l-pgRT~~q~knRW~~~lrk~ 128 (289)
.|++++|-+|+.+|.. |+.-..|++- | -.-|-..|..||+.+|.-.
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~ 49 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLYDP 49 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHcCh
Confidence 4999999999999864 4444445443 3 2358899999999998643
No 71
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=52.48 E-value=18 Score=37.64 Aligned_cols=49 Identities=20% Similarity=0.340 Sum_probs=43.7
Q ss_pred CCCCCCCHHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 78 IKRGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 78 lkrg~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
...++|+.+|-++.-....+.|.+.+.|+..+|+|...+||.++..--+
T Consensus 407 ~~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE~ 455 (584)
T KOG2009|consen 407 LETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEEK 455 (584)
T ss_pred cccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhhh
Confidence 3457899999999999999999999999999999999999999975433
No 72
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=51.83 E-value=20 Score=28.56 Aligned_cols=47 Identities=15% Similarity=0.160 Sum_probs=32.6
Q ss_pred CCCCHHHHHHHHHHHHhh----CC----chhhhh----ccCC-CCCHHHHHHHHHHHhhh
Q 036215 81 GHIAPDEEDLILRLHRLL----GN----RWSLIA----GRIP-GRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 81 g~WT~EED~~Ll~lv~~~----G~----kWs~IA----~~lp-gRT~~q~knRW~~~lrk 127 (289)
.-||+|+|..||+.+..| |. .|..+- ..|. .=+..|+.++-+.+.++
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~K 64 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKK 64 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHH
Confidence 359999999999999777 62 454433 3332 23778888888766665
No 73
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=51.78 E-value=22 Score=25.07 Aligned_cols=36 Identities=31% Similarity=0.460 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHH
Q 036215 85 PDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYW 121 (289)
Q Consensus 85 ~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW 121 (289)
.++|+..+.++.+.|-+=.+||+.+ ||+.+.|+++-
T Consensus 6 t~~Eqaqid~m~qlG~s~~~isr~i-~RSr~~Ir~yl 41 (50)
T PF11427_consen 6 TDAEQAQIDVMHQLGMSLREISRRI-GRSRTCIRRYL 41 (50)
T ss_dssp -HHHHHHHHHHHHTT--HHHHHHHH-T--HHHHHHHH
T ss_pred CHHHHHHHHHHHHhchhHHHHHHHh-CccHHHHHHHh
Confidence 3567788899999999999999999 99999988754
No 74
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=50.67 E-value=9.5 Score=37.80 Aligned_cols=49 Identities=18% Similarity=0.297 Sum_probs=41.4
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCcceeccc-----cCcccCccccccccccc
Q 036215 24 GIKKGPWTPEEDEILSNYIKREGEGQWRTLPKR-----AGLLRCGKSCRLRWMNY 73 (289)
Q Consensus 24 ~lkkg~WT~EEDe~L~~~V~~~g~~~W~~IA~~-----~~~~Rt~kqCr~Rw~n~ 73 (289)
.+.-..||+||-+-|.+++.+|.- .|-.|+.+ .+..||.....+||+..
T Consensus 127 ~l~dn~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 127 HLNDNSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred hhccccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHH
Confidence 445567999999999999999985 89999988 55569999999999754
No 75
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=50.13 E-value=20 Score=37.54 Aligned_cols=47 Identities=15% Similarity=0.314 Sum_probs=34.5
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcceeccccCc---------ccCcccccccccccc
Q 036215 27 KGPWTPEEDEILSNYIKREGEGQWRTLPKRAGL---------LRCGKSCRLRWMNYL 74 (289)
Q Consensus 27 kg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~---------~Rt~kqCr~Rw~n~L 74 (289)
|..||..|.+-+..+++.+|. ++..|-..+.. .++-.|.|.+|++.+
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV 143 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence 557999999999999999996 78887222211 156677787777644
No 76
>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=49.15 E-value=27 Score=27.50 Aligned_cols=37 Identities=24% Similarity=0.254 Sum_probs=27.6
Q ss_pred HHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 90 LILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 90 ~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
.++.++...|..+..||+.+ |=+...|+++.+..+++
T Consensus 117 ~ii~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 117 EVLVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred HHHhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33444445688999999999 77999999988776544
No 77
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=46.29 E-value=31 Score=28.63 Aligned_cols=35 Identities=14% Similarity=0.153 Sum_probs=26.2
Q ss_pred HHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 91 ILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 91 Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
++.+....|-.+..||..| |.+...|+.+....++
T Consensus 136 vl~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~ 170 (182)
T PRK09652 136 AITLREIEGLSYEEIAEIM-GCPIGTVRSRIFRARE 170 (182)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3334444578999999999 8999999988765443
No 78
>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=45.24 E-value=16 Score=26.69 Aligned_cols=27 Identities=19% Similarity=0.394 Sum_probs=21.3
Q ss_pred chhhhhccCCC-CCHHHHHHHHHHHhhh
Q 036215 101 RWSLIAGRIPG-RTDNEIKNYWNTRLRK 127 (289)
Q Consensus 101 kWs~IA~~lpg-RT~~q~knRW~~~lrk 127 (289)
-|..|+..|.. -+..+|+.+|+.+...
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~ 55 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDR 55 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHH
Confidence 49999999943 5788999999876653
No 79
>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=44.35 E-value=25 Score=27.22 Aligned_cols=29 Identities=21% Similarity=0.464 Sum_probs=23.1
Q ss_pred HHHHHHHHHhhCCchhhhhccCCCCCHHHH
Q 036215 88 EDLILRLHRLLGNRWSLIAGRIPGRTDNEI 117 (289)
Q Consensus 88 D~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~ 117 (289)
|+.|..+...+|..|..+|+.| |=|..+|
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 4668899999999999999998 5444443
No 80
>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=44.15 E-value=42 Score=25.58 Aligned_cols=38 Identities=13% Similarity=0.275 Sum_probs=27.6
Q ss_pred HHHHHHHhhCC--------chhhhhccCCC---CC--HHHHHHHHHHHhhh
Q 036215 90 LILRLHRLLGN--------RWSLIAGRIPG---RT--DNEIKNYWNTRLRK 127 (289)
Q Consensus 90 ~Ll~lv~~~G~--------kWs~IA~~lpg---RT--~~q~knRW~~~lrk 127 (289)
.|-.+|...|+ .|..|++.|.- -+ ..++|..|..+|.+
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 57777788774 59999999822 12 36799999887753
No 81
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=44.13 E-value=35 Score=29.55 Aligned_cols=39 Identities=15% Similarity=0.221 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHh
Q 036215 86 DEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRL 125 (289)
Q Consensus 86 EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~l 125 (289)
++...++.+....|-.+.+||..| |-+...|+.+|....
T Consensus 138 ~~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR 176 (185)
T PF07638_consen 138 PRQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR 176 (185)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 334445555555688999999999 999999999997654
No 82
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=43.47 E-value=35 Score=28.22 Aligned_cols=32 Identities=19% Similarity=0.188 Sum_probs=24.8
Q ss_pred HHHhhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 94 LHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 94 lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
++...|-.+..||..| |-+...|++++...++
T Consensus 136 l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~ 167 (179)
T PRK11924 136 LRYVEGLSYREIAEIL-GVPVGTVKSRLRRARQ 167 (179)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3334577899999999 8999999998875444
No 83
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=43.25 E-value=49 Score=27.67 Aligned_cols=30 Identities=23% Similarity=0.264 Sum_probs=23.9
Q ss_pred HhhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 96 RLLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 96 ~~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
...|-.-..||..| |.+...|+.+.+..++
T Consensus 131 ~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~ 160 (173)
T PRK09645 131 YYRGWSTAQIAADL-GIPEGTVKSRLHYALR 160 (173)
T ss_pred HHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 33467789999999 9999999999875543
No 84
>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=42.92 E-value=31 Score=26.68 Aligned_cols=29 Identities=21% Similarity=0.320 Sum_probs=23.8
Q ss_pred HHHHHHHHHhhCCchhhhhccCCCCCHHHH
Q 036215 88 EDLILRLHRLLGNRWSLIAGRIPGRTDNEI 117 (289)
Q Consensus 88 D~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~ 117 (289)
|..|..+...+|..|..+|+.| |=+..+|
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 6678889999999999999998 6555544
No 85
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=42.81 E-value=48 Score=28.46 Aligned_cols=38 Identities=18% Similarity=0.161 Sum_probs=27.2
Q ss_pred HhhCCchhhhhccCCCCCHHHHHHHHHH---HhhhhhhhCCC
Q 036215 96 RLLGNRWSLIAGRIPGRTDNEIKNYWNT---RLRKKLISQGI 134 (289)
Q Consensus 96 ~~~G~kWs~IA~~lpgRT~~q~knRW~~---~lrk~~~~~~~ 134 (289)
...|-.-..||..| |-+...|+.+... .|++.+.....
T Consensus 149 ~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~~l~~~~~ 189 (195)
T PRK12532 149 EILGFSSDEIQQMC-GISTSNYHTIMHRARESLRQCLQIKWF 189 (195)
T ss_pred HHhCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 33477889999999 9999999998875 44444544433
No 86
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=41.78 E-value=40 Score=29.10 Aligned_cols=35 Identities=14% Similarity=0.082 Sum_probs=26.3
Q ss_pred HHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 91 ILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 91 Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
++.+....|....+||..| |-+...|++|+...++
T Consensus 142 i~~l~~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~ 176 (192)
T PRK09643 142 ALVAVDMQGYSVADAARML-GVAEGTVKSRCARGRA 176 (192)
T ss_pred HHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 3333344577899999999 9999999999954443
No 87
>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=41.66 E-value=54 Score=20.93 Aligned_cols=40 Identities=15% Similarity=0.187 Sum_probs=28.0
Q ss_pred CCHHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHH
Q 036215 83 IAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTR 124 (289)
Q Consensus 83 WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~ 124 (289)
++++ +..++.++-..|-.+..||+.+ |=+...|+.+....
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 3444 4555666656788999999998 77777887665543
No 88
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=41.55 E-value=94 Score=30.95 Aligned_cols=53 Identities=26% Similarity=0.245 Sum_probs=40.1
Q ss_pred CCCCCCCHHHHHHHHHHHHhhCC----------------chhhhhccC-----CCCCHHHHHHHHHHHhhhhhh
Q 036215 78 IKRGHIAPDEEDLILRLHRLLGN----------------RWSLIAGRI-----PGRTDNEIKNYWNTRLRKKLI 130 (289)
Q Consensus 78 lkrg~WT~EED~~Ll~lv~~~G~----------------kWs~IA~~l-----pgRT~~q~knRW~~~lrk~~~ 130 (289)
.--|.|+++=|+...++...|.. +=..||+++ ..||.+||..|-.-+-|++..
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~r 147 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLR 147 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHH
Confidence 45688999999999999998843 346788775 348899999887666665543
No 89
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=40.76 E-value=49 Score=25.47 Aligned_cols=38 Identities=18% Similarity=0.326 Sum_probs=28.1
Q ss_pred HHHHHHHhhCC--------chhhhhccCCC-----CCHHHHHHHHHHHhhh
Q 036215 90 LILRLHRLLGN--------RWSLIAGRIPG-----RTDNEIKNYWNTRLRK 127 (289)
Q Consensus 90 ~Ll~lv~~~G~--------kWs~IA~~lpg-----RT~~q~knRW~~~lrk 127 (289)
.|-.+|.+.|+ .|..|++.|.- .....+|..|..+|.+
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 46677777764 69999999822 2467889999888765
No 90
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=40.54 E-value=42 Score=28.31 Aligned_cols=29 Identities=7% Similarity=-0.055 Sum_probs=23.6
Q ss_pred hhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 97 LLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 97 ~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
..|..+..||..| |-+...|+++....++
T Consensus 150 ~~~~s~~eIA~~l-gis~~~v~~~l~Rar~ 178 (187)
T PRK09641 150 IEDLSLKEISEIL-DLPVGTVKTRIHRGRE 178 (187)
T ss_pred hhCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3467899999999 9999999998865554
No 91
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=40.25 E-value=46 Score=25.82 Aligned_cols=45 Identities=13% Similarity=0.117 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHhhC-CchhhhhccCCCCCHHHHHHHHHHHhhhhhhh
Q 036215 86 DEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTRLRKKLIS 131 (289)
Q Consensus 86 EED~~Ll~lv~~~G-~kWs~IA~~lpgRT~~q~knRW~~~lrk~~~~ 131 (289)
+.|..|+.+....| -.+..||+.+ |-+...|+.+.+.+....+..
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 56888888888877 4799999999 999999999998888776554
No 92
>PRK04217 hypothetical protein; Provisional
Probab=39.71 E-value=51 Score=26.95 Aligned_cols=45 Identities=18% Similarity=0.101 Sum_probs=36.1
Q ss_pred CCCCHHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 81 GHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 81 g~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
..-|++| ..++.+....|-....||+.+ |-+...|+.+++...++
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkk 85 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKK 85 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3466666 577788888889999999999 99999999999765443
No 93
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=38.20 E-value=9.9 Score=32.12 Aligned_cols=45 Identities=13% Similarity=0.146 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHhCCCCcceeccccCcccCccccccccccccCCCC
Q 036215 32 PEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPSI 78 (289)
Q Consensus 32 ~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p~l 78 (289)
.+-|.+|+.+..+.|.-.|..||+.++ -+...|+.|+.+..+..+
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 357899999999999889999999997 688999999887665543
No 94
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=38.11 E-value=56 Score=26.79 Aligned_cols=31 Identities=10% Similarity=0.045 Sum_probs=24.6
Q ss_pred HhhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 96 RLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 96 ~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
...|-.-..||..| |-+...|+++....+++
T Consensus 119 ~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 119 YWEDMDVAETAAAM-GCSEGSVKTHCSRATHA 149 (161)
T ss_pred HHhcCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34577889999999 89999999998755543
No 95
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=37.93 E-value=72 Score=26.76 Aligned_cols=38 Identities=26% Similarity=0.369 Sum_probs=29.1
Q ss_pred HHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhhh
Q 036215 90 LILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKK 128 (289)
Q Consensus 90 ~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk~ 128 (289)
.++.+....|-...+||..| |-+...|+.+-..-+++-
T Consensus 126 ~v~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~ 163 (172)
T PRK12523 126 AAFLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQC 163 (172)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 33444444577899999999 999999999988766654
No 96
>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=36.59 E-value=41 Score=28.41 Aligned_cols=29 Identities=10% Similarity=-0.011 Sum_probs=23.2
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 98 LGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
.|.....||..| |=+...|+++.+..+++
T Consensus 153 ~~~s~~EIA~~l-gis~~tv~~~l~rar~~ 181 (190)
T TIGR02939 153 EGLSYEDIARIM-DCPVGTVRSRIFRAREA 181 (190)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 466789999999 88899999988655543
No 97
>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=36.39 E-value=31 Score=26.21 Aligned_cols=29 Identities=24% Similarity=0.604 Sum_probs=22.7
Q ss_pred HHHHHHHHHhhCCchhhhhccCCCCCHHHH
Q 036215 88 EDLILRLHRLLGNRWSLIAGRIPGRTDNEI 117 (289)
Q Consensus 88 D~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~ 117 (289)
|..|..+...+|..|.++|+.| |=+..+|
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 4567888899999999999998 5554443
No 98
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=34.83 E-value=64 Score=27.40 Aligned_cols=35 Identities=20% Similarity=0.156 Sum_probs=28.0
Q ss_pred HHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhhhh
Q 036215 94 LHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKKL 129 (289)
Q Consensus 94 lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk~~ 129 (289)
++...|-...+||..| |-+...|+.|...-+++-+
T Consensus 138 L~~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~ 172 (178)
T PRK12529 138 MATLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCL 172 (178)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 3334577899999999 9999999999987776643
No 99
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=34.69 E-value=59 Score=27.09 Aligned_cols=30 Identities=20% Similarity=0.302 Sum_probs=23.7
Q ss_pred hhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 97 LLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 97 ~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
..|.+...||..| |-+...|++++...+++
T Consensus 133 ~~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~ 162 (169)
T TIGR02954 133 YHDLTIKEIAEVM-NKPEGTVKTYLHRALKK 162 (169)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3467889999998 88999999988765543
No 100
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=34.23 E-value=62 Score=27.75 Aligned_cols=30 Identities=20% Similarity=0.079 Sum_probs=24.3
Q ss_pred HhhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 96 RLLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 96 ~~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
...|-....||..| |-+...|+++....++
T Consensus 119 ~~~g~~~~EIA~~l-gis~~tV~~~l~Rar~ 148 (181)
T PRK09637 119 ELEGLSQKEIAEKL-GLSLSGAKSRVQRGRV 148 (181)
T ss_pred HhcCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 34577899999999 8999999999875544
No 101
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=34.17 E-value=51 Score=29.35 Aligned_cols=45 Identities=22% Similarity=0.262 Sum_probs=37.6
Q ss_pred CCCCHHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhhh
Q 036215 81 GHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKK 128 (289)
Q Consensus 81 g~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk~ 128 (289)
...|+.|-+.|.-+.+ |-.=+.||..| +.+...||+|..++++|-
T Consensus 147 ~~LT~RE~eVL~lla~--G~snkeIA~~L-~iS~~TVk~h~~~i~~KL 191 (211)
T COG2197 147 ELLTPRELEVLRLLAE--GLSNKEIAEEL-NLSEKTVKTHVSNILRKL 191 (211)
T ss_pred CCCCHHHHHHHHHHHC--CCCHHHHHHHH-CCCHhHHHHHHHHHHHHc
Confidence 4789999887766654 55668999999 999999999999999874
No 102
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=33.86 E-value=58 Score=27.79 Aligned_cols=28 Identities=11% Similarity=-0.013 Sum_probs=22.6
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 98 LGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
.|-....||..| |-+...|++++...++
T Consensus 153 ~g~s~~eIA~~l-gis~~tv~~~l~Rar~ 180 (193)
T PRK11923 153 DGLSYEDIASVM-QCPVGTVRSRIFRARE 180 (193)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 466789999999 8899999999875544
No 103
>PF07308 DUF1456: Protein of unknown function (DUF1456); InterPro: IPR009921 This domain occurs in several hypothetical bacterial proteins of around 150 residues in length. The function of this domain is unknown.
Probab=33.77 E-value=27 Score=26.08 Aligned_cols=19 Identities=21% Similarity=0.632 Sum_probs=16.2
Q ss_pred ccCCCCcchhHHHHhhhCc
Q 036215 218 IDNCDEDTFSSFLDSLVND 236 (289)
Q Consensus 218 ~~~~~dd~f~sfl~~~~~~ 236 (289)
.-.|+|..+..|||-||..
T Consensus 47 y~~c~D~~L~~FL~GLi~~ 65 (68)
T PF07308_consen 47 YKECSDQLLRNFLNGLIIH 65 (68)
T ss_pred ccccChHHHHHHHHHHHHH
Confidence 3379999999999999863
No 104
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=33.77 E-value=67 Score=27.36 Aligned_cols=30 Identities=17% Similarity=0.203 Sum_probs=24.0
Q ss_pred hhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 97 LLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 97 ~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
..|.....||..| |-+...|+.+.+..+++
T Consensus 153 ~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 153 VVGLSAEETAEAV-GSTPGAVRVAQHRALAR 182 (189)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3477899999999 88999999988755543
No 105
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=33.65 E-value=9.4 Score=32.70 Aligned_cols=45 Identities=22% Similarity=0.253 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHhCCCCcceeccccCcccCccccccccccccCCCC
Q 036215 32 PEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMNYLRPSI 78 (289)
Q Consensus 32 ~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n~L~p~l 78 (289)
.+-|.+|+.+..+.+.-.|..||+.++ -+...|+.|+.+..+..+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 567899999999999889999999998 588889999887765554
No 106
>TIGR02943 Sig70_famx1 RNA polymerase sigma-70 factor, TIGR02943 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=33.41 E-value=70 Score=27.55 Aligned_cols=36 Identities=8% Similarity=0.078 Sum_probs=26.8
Q ss_pred HHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 91 ILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 91 Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
++.++...|.....||..| |-+...|+.|....+++
T Consensus 139 v~~l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~ 174 (188)
T TIGR02943 139 VFMMREVLGFESDEICQEL-EISTSNCHVLLYRARLS 174 (188)
T ss_pred HHHHHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3333344577899999999 99999999998765543
No 107
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=33.35 E-value=69 Score=27.11 Aligned_cols=31 Identities=10% Similarity=0.166 Sum_probs=24.7
Q ss_pred HhhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 96 RLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 96 ~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
...|....+||..| |-+...|+.+....+++
T Consensus 144 ~~~g~s~~eIA~~l-~is~~tV~~~l~ra~~~ 174 (184)
T PRK12512 144 SVEGASIKETAAKL-SMSEGAVRVALHRGLAA 174 (184)
T ss_pred HHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 33477889999999 99999999998765544
No 108
>cd08311 Death_p75NR Death domain of p75 Neurotophin Receptor. Death Domain (DD) found in p75 neurotrophin receptor (p75NTR, NGFR, TNFRSF16). p75NTR binds members of the neurotrophin (NT) family including nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT3, among others. It contains an NT-binding extracellular region that bears four cysteine-rich repeats, a transmembrane domain, and an intracellular DD. p75NTR plays roles in the immune, vascular, and nervous systems, and has been shown to promote cell death or survival, and to induce neurite outgrowth or collapse depending on its ligands and co-receptors. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptor
Probab=33.13 E-value=40 Score=25.70 Aligned_cols=33 Identities=27% Similarity=0.534 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHH
Q 036215 85 PDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKN 119 (289)
Q Consensus 85 ~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~kn 119 (289)
.||.++|+..- -.|.+|..+|+.| |=+...|++
T Consensus 2 ~~~v~~ll~~~-nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLESG-RPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhCC-CCccCHHHHHHHc-CCCHHHHHH
Confidence 57888887322 5788999999999 777777755
No 109
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=33.12 E-value=59 Score=27.37 Aligned_cols=29 Identities=7% Similarity=-0.091 Sum_probs=23.0
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 98 LGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
.|..-..||..| |-+...|+++....+++
T Consensus 151 ~g~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T TIGR02948 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 366789999998 88999999988655543
No 110
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=32.99 E-value=73 Score=26.22 Aligned_cols=30 Identities=10% Similarity=-0.072 Sum_probs=23.8
Q ss_pred HhhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 96 RLLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 96 ~~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
...|-.-..||..| |-+...|+++....++
T Consensus 119 ~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 148 (160)
T PRK09642 119 YLEEKSYQEIALQE-KIEVKTVEMKLYRARK 148 (160)
T ss_pred HHhCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 33467789999999 9999999998865444
No 111
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=32.88 E-value=69 Score=27.56 Aligned_cols=29 Identities=7% Similarity=-0.078 Sum_probs=23.7
Q ss_pred hhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 97 LLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 97 ~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
..|-....||..| |-+...||.|....++
T Consensus 148 ~~g~s~~EIA~~l-gis~~tVk~~l~RAr~ 176 (189)
T PRK12530 148 YLELSSEQICQEC-DISTSNLHVLLYRARL 176 (189)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3477899999999 9999999998865443
No 112
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=32.84 E-value=71 Score=27.50 Aligned_cols=29 Identities=10% Similarity=-0.033 Sum_probs=23.5
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 98 LGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
.|-...+||..| |-+...|+.|.+..+++
T Consensus 156 eg~s~~EIA~~l-gis~~tVk~rl~ra~~~ 184 (194)
T PRK12531 156 EELPHQQVAEMF-DIPLGTVKSRLRLAVEK 184 (194)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 467789999999 99999999988655543
No 113
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=32.65 E-value=39 Score=22.64 Aligned_cols=37 Identities=30% Similarity=0.453 Sum_probs=18.2
Q ss_pred CCCCHHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHH
Q 036215 81 GHIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKN 119 (289)
Q Consensus 81 g~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~kn 119 (289)
..+|.+|-..|..+ ..-|..=..||+.| ||+...|.+
T Consensus 3 ~~Lt~~eR~~I~~l-~~~G~s~~~IA~~l-g~s~sTV~r 39 (44)
T PF13936_consen 3 KHLTPEERNQIEAL-LEQGMSIREIAKRL-GRSRSTVSR 39 (44)
T ss_dssp ---------HHHHH-HCS---HHHHHHHT-T--HHHHHH
T ss_pred cchhhhHHHHHHHH-HHcCCCHHHHHHHH-CcCcHHHHH
Confidence 35677777666655 46788889999999 999988855
No 114
>cd08804 Death_ank2 Death domain of Ankyrin-2. Death Domain (DD) of Ankyrin-2 (ANK-2) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-2, also called ankyrin-B (for broadly expressed), is required for proper function of the Na/Ca ion exchanger-1 in cardiomyocytes, and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. Human ANK-2 is associated with "Ankyrin-B syndrome", an atypical arrythmia disorder with risk of sudden cardiac death. It also plays key roles in the brain and striated muscle. Loss of ANK-2 is associated with significant nervous system defects and sarcomere disorganization. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other
Probab=32.47 E-value=46 Score=25.57 Aligned_cols=31 Identities=23% Similarity=0.443 Sum_probs=24.5
Q ss_pred HHHHHHHHHhhCCchhhhhccCCCCCHHHHHH
Q 036215 88 EDLILRLHRLLGNRWSLIAGRIPGRTDNEIKN 119 (289)
Q Consensus 88 D~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~kn 119 (289)
|..|..+...+|.+|..+|+.| |=+..+|.+
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 4567788899999999999998 666665543
No 115
>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=32.43 E-value=48 Score=25.50 Aligned_cols=26 Identities=31% Similarity=0.539 Sum_probs=19.9
Q ss_pred HHHHHHhhCCchhhhhccCCCCCHHHH
Q 036215 91 ILRLHRLLGNRWSLIAGRIPGRTDNEI 117 (289)
Q Consensus 91 Ll~lv~~~G~kWs~IA~~lpgRT~~q~ 117 (289)
|..+....|..|.++|+.| |=+..+|
T Consensus 10 l~~ia~~iG~~Wk~Lar~L-Gls~~dI 35 (86)
T cd08318 10 ITVFANKLGEDWKTLAPHL-EMKDKEI 35 (86)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 4446688899999999998 6666555
No 116
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=32.21 E-value=74 Score=27.15 Aligned_cols=29 Identities=7% Similarity=0.036 Sum_probs=23.6
Q ss_pred hhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 97 LLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 97 ~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
..|-....||..| |-+...|++++...++
T Consensus 145 ~~~~s~~eIA~~l-gis~~tV~~~l~Rar~ 173 (189)
T PRK12515 145 YHEKSVEEVGEIV-GIPESTVKTRMFYARK 173 (189)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 3567899999999 8899999999875544
No 117
>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=31.47 E-value=1.1e+02 Score=26.39 Aligned_cols=47 Identities=15% Similarity=0.145 Sum_probs=38.3
Q ss_pred CCCCCCHHHHHHHHHHHHhhCCchhhhhccCC----CCCHHHHHHHHHHHh
Q 036215 79 KRGHIAPDEEDLILRLHRLLGNRWSLIAGRIP----GRTDNEIKNYWNTRL 125 (289)
Q Consensus 79 krg~WT~EED~~Ll~lv~~~G~kWs~IA~~lp----gRT~~q~knRW~~~l 125 (289)
..-.-|+.|..-|..|+.+||..+...+.... -.|..+|+.+...+.
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~k 163 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKYK 163 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHhc
Confidence 34568899999999999999999999987753 379999988876543
No 118
>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=29.12 E-value=91 Score=26.19 Aligned_cols=29 Identities=17% Similarity=0.224 Sum_probs=23.6
Q ss_pred hhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 97 LLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 97 ~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
..|-....||..| |-+...|+.|....++
T Consensus 148 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 176 (183)
T TIGR02999 148 FAGLTVEEIAELL-GVSVRTVERDWRFARA 176 (183)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 3467889999999 9999999999875544
No 119
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=29.01 E-value=87 Score=26.98 Aligned_cols=30 Identities=13% Similarity=0.009 Sum_probs=23.3
Q ss_pred HhhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 96 RLLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 96 ~~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
...|-.+..||+.| |=+...|+++....++
T Consensus 149 ~~~g~s~~eIA~~l-gis~~tV~~~l~Ra~~ 178 (196)
T PRK12524 149 HIEGLSNPEIAEVM-EIGVEAVESLTARGKR 178 (196)
T ss_pred HHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 34577899999999 8888888888765443
No 120
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=28.49 E-value=39 Score=35.26 Aligned_cols=49 Identities=14% Similarity=0.340 Sum_probs=43.0
Q ss_pred CCCCccCCCCHHHHHHHHHHHHHhCCCCcceeccccCcccCcccccccccc
Q 036215 22 KVGIKKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLLRCGKSCRLRWMN 72 (289)
Q Consensus 22 k~~lkkg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~Rt~kqCr~Rw~n 72 (289)
......++||.+|-++...+....|. +...|+...++ |..+|++..+..
T Consensus 404 sk~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p~-R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 404 SKKLETDKWDASETELFYKALSERGS-DFSLISNLFPL-RDRKQIKAKFKK 452 (584)
T ss_pred cCccccCcccchhhHHhhhHHhhhcc-ccccccccccc-ccHHHHHHHHhh
Confidence 45667789999999999999999997 89999999987 999999887654
No 121
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=28.47 E-value=33 Score=29.61 Aligned_cols=46 Identities=15% Similarity=0.234 Sum_probs=31.6
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCcceeccccCcc---cCccccccccc
Q 036215 25 IKKGPWTPEEDEILSNYIKREGEGQWRTLPKRAGLL---RCGKSCRLRWM 71 (289)
Q Consensus 25 lkkg~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~~---Rt~kqCr~Rw~ 71 (289)
.+...-+..|.+-|..+|.+||. ++..++.-...+ .|+.||+.+..
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGd-Dy~aMarD~KLN~~Q~T~~qlrrki~ 160 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGD-DYKAMARDRKLNYMQHTPGQLRRKIR 160 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCc-cHHHHhccCCCCcccCCHHHHHHHHH
Confidence 44557899999999999999995 788776544311 45555554433
No 122
>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=28.22 E-value=94 Score=25.59 Aligned_cols=28 Identities=14% Similarity=0.164 Sum_probs=22.3
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 98 LGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
.|-+-..||+.| |-+...|+.+-...++
T Consensus 137 ~g~s~~eIA~~l-~is~~tv~~~l~ra~~ 164 (170)
T TIGR02952 137 QNLPIAEVARIL-GKTEGAVKILQFRAIK 164 (170)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 366789999999 8899999988765544
No 123
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=28.20 E-value=86 Score=26.84 Aligned_cols=29 Identities=17% Similarity=0.102 Sum_probs=23.7
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 98 LGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
.|-.-.+||..| |-+...|+.+....+++
T Consensus 145 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 173 (185)
T PRK09649 145 LGLSYADAAAVC-GCPVGTIRSRVARARDA 173 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466789999999 99999999998755543
No 124
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=27.52 E-value=1e+02 Score=25.35 Aligned_cols=34 Identities=24% Similarity=0.307 Sum_probs=25.8
Q ss_pred HHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 93 RLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 93 ~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
.+....|-...+||..+ |-+...|+.|....+++
T Consensus 123 ~L~~~~g~s~~EIA~~l-~is~~tV~~~l~ra~~~ 156 (161)
T PRK12528 123 LLAQVDGLGYGEIATEL-GISLATVKRYLNKAAMR 156 (161)
T ss_pred HHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33334577899999999 99999999988766543
No 125
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=27.49 E-value=1.1e+02 Score=25.23 Aligned_cols=30 Identities=17% Similarity=0.222 Sum_probs=23.5
Q ss_pred hhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 97 LLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 97 ~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
..|-.-..||..| |-+...|+.|....+++
T Consensus 119 ~~~~s~~eIA~~l-gis~~tv~~~l~ra~~~ 148 (159)
T PRK12527 119 LEGLSHQQIAEHL-GISRSLVEKHIVNAMKH 148 (159)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3466779999999 99999999998755543
No 126
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=27.30 E-value=84 Score=26.47 Aligned_cols=29 Identities=24% Similarity=0.334 Sum_probs=24.2
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 98 LGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
.|-...+||+.| |-+...|+++....++.
T Consensus 134 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 162 (172)
T PRK09651 134 DGLTYSEIAHKL-GVSVSSVKKYVAKATEH 162 (172)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 466789999999 99999999998766654
No 127
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=27.10 E-value=1.1e+02 Score=24.91 Aligned_cols=28 Identities=18% Similarity=0.176 Sum_probs=21.9
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 98 LGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
.|.....||..+ |-+...|+++-...++
T Consensus 121 ~~~s~~EIA~~l-~is~~tV~~~~~ra~~ 148 (154)
T PRK06759 121 VGKTMGEIALET-EMTYYQVRWIYRQALE 148 (154)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 456789999988 8999999888765544
No 128
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=26.94 E-value=1e+02 Score=26.12 Aligned_cols=32 Identities=19% Similarity=0.139 Sum_probs=25.3
Q ss_pred HHhhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 95 HRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 95 v~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
+...|-+...||+.| |.+...|+++-...+++
T Consensus 141 ~~~~g~s~~EIA~~l-~is~~tV~~~l~rar~~ 172 (181)
T PRK12536 141 VKLEGLSVAETAQLT-GLSESAVKVGIHRGLKA 172 (181)
T ss_pred HHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334577899999999 99999999988765543
No 129
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=26.78 E-value=1e+02 Score=26.61 Aligned_cols=36 Identities=19% Similarity=0.045 Sum_probs=26.6
Q ss_pred HHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 90 LILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 90 ~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
.++.|....|-...+||+.| |-+...|+.|-...++
T Consensus 123 ~i~~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~ 158 (187)
T PRK12516 123 EAIILVGASGFAYEEAAEIC-GCAVGTIKSRVNRARQ 158 (187)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 33444444577899999999 8999999998765443
No 130
>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=26.64 E-value=66 Score=23.97 Aligned_cols=29 Identities=21% Similarity=0.510 Sum_probs=20.9
Q ss_pred HHHHHHHHHHh-hCCchhhhhccCCCCCHHH
Q 036215 87 EEDLILRLHRL-LGNRWSLIAGRIPGRTDNE 116 (289)
Q Consensus 87 ED~~Ll~lv~~-~G~kWs~IA~~lpgRT~~q 116 (289)
-.+.|..++.. .|..|..+|+.| |=+..+
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~L-g~~~~~ 33 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKL-GLSEAD 33 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHc-CCCHHH
Confidence 34566777777 899999999998 434443
No 131
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=26.56 E-value=1e+02 Score=25.91 Aligned_cols=28 Identities=18% Similarity=0.211 Sum_probs=22.8
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 98 LGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
.|..-..||..| |.+...|+++....++
T Consensus 144 ~g~s~~eIA~~l-gis~~tV~~~l~Rar~ 171 (179)
T PRK12514 144 EGLSYKELAERH-DVPLNTMRTWLRRSLL 171 (179)
T ss_pred cCCCHHHHHHHH-CCChHHHHHHHHHHHH
Confidence 366789999999 9999999998865544
No 132
>PRK00118 putative DNA-binding protein; Validated
Probab=26.32 E-value=1.2e+02 Score=24.58 Aligned_cols=41 Identities=10% Similarity=0.067 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 85 PDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 85 ~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
++.+..++.++...|-....||+.+ |-+...|+.+-...++
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RArk 59 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRTEK 59 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 4566777788888899999999999 9999999887764443
No 133
>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=26.26 E-value=66 Score=24.93 Aligned_cols=22 Identities=23% Similarity=0.410 Sum_probs=19.4
Q ss_pred HHHHHHHHHhhCCchhhhhccC
Q 036215 88 EDLILRLHRLLGNRWSLIAGRI 109 (289)
Q Consensus 88 D~~Ll~lv~~~G~kWs~IA~~l 109 (289)
|..|..+...+|..|.++|+.|
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L 25 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL 25 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc
Confidence 5677888899999999999998
No 134
>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=26.04 E-value=4.8e+02 Score=25.52 Aligned_cols=85 Identities=15% Similarity=0.255 Sum_probs=58.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCC---cceeccccCcccCccccccccccccCCCCCCCCCCHHHHHHHHHHHHh-h-----
Q 036215 28 GPWTPEEDEILSNYIKREGEGQ---WRTLPKRAGLLRCGKSCRLRWMNYLRPSIKRGHIAPDEEDLILRLHRL-L----- 98 (289)
Q Consensus 28 g~WT~EEDe~L~~~V~~~g~~~---W~~IA~~~~~~Rt~kqCr~Rw~n~L~p~lkrg~WT~EED~~Ll~lv~~-~----- 98 (289)
..||.-|...|+++........ -.+|++.+.+ |...+++. |.+.|+ +..+.+++++ |
T Consensus 22 ~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~-Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g~~ 87 (344)
T PF11035_consen 22 AAWSAREKRQLLRLLQARRGQPEPDAAELAKELPG-RSEAEIRD-FLQQLK------------GRVAREAIQKVHPGGLK 87 (344)
T ss_pred ccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccC-cCHHHHHH-HHHHHH------------HHHHHHHHHHhcccccc
Confidence 3799999999999887763233 3467777876 88877765 344443 2334444444 2
Q ss_pred CC------------chhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 99 GN------------RWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 99 G~------------kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
|. -|..+|+.+.|.-...+---|-.+|-
T Consensus 88 ~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 88 GPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred cccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 21 29999999999999999888876664
No 135
>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=25.69 E-value=64 Score=24.96 Aligned_cols=30 Identities=30% Similarity=0.539 Sum_probs=22.9
Q ss_pred HHHHHHHHhhCCchhhhhccCCCCCHHHHHH
Q 036215 89 DLILRLHRLLGNRWSLIAGRIPGRTDNEIKN 119 (289)
Q Consensus 89 ~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~kn 119 (289)
+.|-.+....|..|..+|+.| |=++.+|..
T Consensus 3 ~~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 3 KHLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 345566678899999999999 777766644
No 136
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=25.52 E-value=1.1e+02 Score=25.20 Aligned_cols=40 Identities=13% Similarity=0.140 Sum_probs=29.1
Q ss_pred HHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 87 EEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 87 ED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
++..++.+....|-+=..||..| |-+...|+.+....+++
T Consensus 114 ~~r~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~ 153 (162)
T TIGR02983 114 RQRAVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALAR 153 (162)
T ss_pred HHHHHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 34444444455577789999998 89999999988766554
No 137
>TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot: SIGM_BACSU) and is activated by various stressors.
Probab=25.41 E-value=39 Score=27.51 Aligned_cols=28 Identities=11% Similarity=0.038 Sum_probs=22.9
Q ss_pred CCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 99 GNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 99 G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
|-.+..||..| |=+...|++++...+++
T Consensus 121 g~s~~eIA~~l-gis~~tv~~~l~Ra~~~ 148 (154)
T TIGR02950 121 EFSYKEIAELL-NLSLAKVKSNLFRARKE 148 (154)
T ss_pred cCcHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 55799999998 88999999998765543
No 138
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=25.33 E-value=1.1e+02 Score=25.86 Aligned_cols=29 Identities=10% Similarity=0.298 Sum_probs=23.6
Q ss_pred hhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 97 LLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 97 ~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
..|-.-..||..| |-+...|+++....++
T Consensus 136 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 164 (185)
T PRK12542 136 FYNLTYQEISSVM-GITEANVRKQFERARK 164 (185)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3567889999999 9999999998865544
No 139
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=25.01 E-value=1.2e+02 Score=25.17 Aligned_cols=31 Identities=16% Similarity=0.055 Sum_probs=24.3
Q ss_pred HhhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 96 RLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 96 ~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
...|-....||..| |-+...|+++-...+++
T Consensus 125 ~~~g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 155 (164)
T PRK12547 125 GASGFSYEDAAAIC-GCAVGTIKSRVSRARNR 155 (164)
T ss_pred HHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 34567889999999 88999999988765543
No 140
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=24.89 E-value=1.1e+02 Score=26.02 Aligned_cols=30 Identities=10% Similarity=-0.018 Sum_probs=22.8
Q ss_pred HhhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 96 RLLGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 96 ~~~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
...|.....||+.| |-+...|+.+.+..++
T Consensus 141 ~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 170 (186)
T PRK05602 141 YYQGLSNIEAAAVM-DISVDALESLLARGRR 170 (186)
T ss_pred HhcCCCHHHHHHHh-CcCHHHHHHHHHHHHH
Confidence 33467789999998 8899999888765443
No 141
>TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are apparently found only in the Planctomycetaceae family including the genuses Gemmata and Pirellula (in which seven sequences are found).
Probab=24.22 E-value=1.2e+02 Score=25.40 Aligned_cols=31 Identities=23% Similarity=0.499 Sum_probs=23.9
Q ss_pred HhhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 96 RLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 96 ~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
...|-....||..| |-+...|+.+....+++
T Consensus 153 ~~~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~ 183 (189)
T TIGR02984 153 HLEGLSFAEVAERM-DRSEGAVSMLWVRGLAR 183 (189)
T ss_pred HhcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 33567789999998 89999999888655543
No 142
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=23.90 E-value=1.3e+02 Score=25.47 Aligned_cols=29 Identities=17% Similarity=0.102 Sum_probs=22.9
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 98 LGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
.|-+-..||..| |-+...|+.+.+..+++
T Consensus 150 ~~~s~~eIA~~l-gis~~~V~~~l~ra~~~ 178 (186)
T PRK13919 150 QGYTHREAAQLL-GLPLGTLKTRARRALSR 178 (186)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 356779999999 89999999988765543
No 143
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=23.84 E-value=1.6e+02 Score=23.25 Aligned_cols=46 Identities=22% Similarity=0.315 Sum_probs=36.4
Q ss_pred CCCCCHHHHHHHHHHHHhhCCchhhhhccCCCC-CHHHHHHHHHHHhhh
Q 036215 80 RGHIAPDEEDLILRLHRLLGNRWSLIAGRIPGR-TDNEIKNYWNTRLRK 127 (289)
Q Consensus 80 rg~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgR-T~~q~knRW~~~lrk 127 (289)
+..||+|.-..+++++..-|..=+.||+.+ |- ..++++. |...+..
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l~~-W~~~~~~ 51 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQLYK-WRIQLQK 51 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHHHH-HHHHHHH
Confidence 568999999999999999999889999999 75 6655544 5544443
No 144
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=23.76 E-value=1.2e+02 Score=26.31 Aligned_cols=27 Identities=15% Similarity=-0.028 Sum_probs=22.0
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHh
Q 036215 98 LGNRWSLIAGRIPGRTDNEIKNYWNTRL 125 (289)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~knRW~~~l 125 (289)
.|..-..||..| |.+...||.|....+
T Consensus 154 eg~s~~EIA~~l-gis~~tVk~~l~RAr 180 (201)
T PRK12545 154 LDFEIDDICTEL-TLTANHCSVLLYRAR 180 (201)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 466789999999 999999998876443
No 145
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=23.37 E-value=1.3e+02 Score=25.65 Aligned_cols=28 Identities=11% Similarity=-0.138 Sum_probs=22.9
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 98 LGNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
.|..-..||..| |-+...|++|....++
T Consensus 146 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 173 (191)
T PRK12520 146 LELETEEICQEL-QITATNAWVLLYRARM 173 (191)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 466789999999 9999999999875544
No 146
>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=23.33 E-value=69 Score=24.68 Aligned_cols=21 Identities=24% Similarity=0.428 Sum_probs=19.0
Q ss_pred HHHHHHHHhhCCchhhhhccC
Q 036215 89 DLILRLHRLLGNRWSLIAGRI 109 (289)
Q Consensus 89 ~~Ll~lv~~~G~kWs~IA~~l 109 (289)
..|..+...+|..|..+++.|
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L 23 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL 23 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc
Confidence 458889999999999999998
No 147
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=22.86 E-value=1.4e+02 Score=26.74 Aligned_cols=44 Identities=18% Similarity=0.234 Sum_probs=35.2
Q ss_pred CCCHHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhhh
Q 036215 82 HIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKK 128 (289)
Q Consensus 82 ~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk~ 128 (289)
..|+.|-+.|.-++. |.....||+.| +-+...||++...+++|-
T Consensus 155 ~Lt~rE~~Vl~l~~~--G~s~~eIA~~L-~iS~~TVk~~~~~i~~Kl 198 (216)
T PRK10100 155 LLTHREKEILNKLRI--GASNNEIARSL-FISENTVKTHLYNLFKKI 198 (216)
T ss_pred CCCHHHHHHHHHHHc--CCCHHHHHHHh-CCCHHHHHHHHHHHHHHh
Confidence 478766665555544 98999999999 899999999998887764
No 148
>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=22.74 E-value=1.1e+02 Score=28.40 Aligned_cols=29 Identities=17% Similarity=0.173 Sum_probs=23.5
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 98 LGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
.|..-.+||..| |.+...|++|....+++
T Consensus 157 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 185 (324)
T TIGR02960 157 LGWRAAETAELL-GTSTASVNSALQRARAT 185 (324)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466789999999 99999999988655443
No 149
>PRK15201 fimbriae regulatory protein FimW; Provisional
Probab=22.71 E-value=1.7e+02 Score=26.46 Aligned_cols=44 Identities=20% Similarity=0.284 Sum_probs=36.2
Q ss_pred CCCHHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhhh
Q 036215 82 HIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKK 128 (289)
Q Consensus 82 ~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk~ 128 (289)
..|+.|-+.|.-+.+ |.....||..| +-+...|+++...+++|-
T Consensus 133 ~LSpRErEVLrLLAq--GkTnKEIAe~L-~IS~rTVkth~srImkKL 176 (198)
T PRK15201 133 HFSVTERHLLKLIAS--GYHLSETAALL-SLSEEQTKSLRRSIMRKL 176 (198)
T ss_pred CCCHHHHHHHHHHHC--CCCHHHHHHHh-CCCHHHHHHHHHHHHHHh
Confidence 478888777666554 88899999999 999999999888877763
No 150
>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=22.15 E-value=45 Score=28.94 Aligned_cols=29 Identities=21% Similarity=0.243 Sum_probs=24.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcceeccccCc
Q 036215 29 PWTPEEDEILSNYIKREGEGQWRTLPKRAGL 59 (289)
Q Consensus 29 ~WT~EEDe~L~~~V~~~g~~~W~~IA~~~~~ 59 (289)
.||.|+.++|+++..+-- .=..||..||+
T Consensus 2 ~Wtde~~~~L~~lw~~G~--SasqIA~~lg~ 30 (162)
T PF07750_consen 2 SWTDERVERLRKLWAEGL--SASQIARQLGG 30 (162)
T ss_pred CCCHHHHHHHHHHHHcCC--CHHHHHHHhCC
Confidence 499999999999986543 56899999983
No 151
>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=22.02 E-value=62 Score=24.14 Aligned_cols=18 Identities=28% Similarity=0.630 Sum_probs=15.0
Q ss_pred HHHHHHHhhCCchhhhhc
Q 036215 90 LILRLHRLLGNRWSLIAG 107 (289)
Q Consensus 90 ~Ll~lv~~~G~kWs~IA~ 107 (289)
.|.+|.+.||++|.-|-.
T Consensus 31 vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 31 VLKNLLKLYDGNWELIEE 48 (65)
T ss_pred HHHHHHHHHcCCchhhhc
Confidence 577888999999999864
No 152
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=21.98 E-value=1.3e+02 Score=24.65 Aligned_cols=45 Identities=20% Similarity=0.186 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHhhCC-chhhhhccCCCCCHHHHHHHHHHHhhhhhhh
Q 036215 86 DEEDLILRLHRLLGN-RWSLIAGRIPGRTDNEIKNYWNTRLRKKLIS 131 (289)
Q Consensus 86 EED~~Ll~lv~~~G~-kWs~IA~~lpgRT~~q~knRW~~~lrk~~~~ 131 (289)
+-|..|+++.+.-|. .+..||+.+ |-+...|++|-+.+.+..+.+
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI~ 53 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVIK 53 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCcee
Confidence 567888888888774 699999999 899999999998877765443
No 153
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=21.86 E-value=1.4e+02 Score=25.29 Aligned_cols=29 Identities=24% Similarity=0.328 Sum_probs=23.2
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 98 LGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
.|-.-..||..| |-+...|+.+....+++
T Consensus 148 ~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 176 (182)
T PRK12537 148 DGCSHAEIAQRL-GAPLGTVKAWIKRSLKA 176 (182)
T ss_pred cCCCHHHHHHHH-CCChhhHHHHHHHHHHH
Confidence 466788999998 88999999988766644
No 154
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=21.51 E-value=91 Score=31.94 Aligned_cols=42 Identities=17% Similarity=0.271 Sum_probs=37.3
Q ss_pred CCCCHHHHHHHHHHHHhhCCchhhhhcc-CCCCCHHHHHHHHH
Q 036215 81 GHIAPDEEDLILRLHRLLGNRWSLIAGR-IPGRTDNEIKNYWN 122 (289)
Q Consensus 81 g~WT~EED~~Ll~lv~~~G~kWs~IA~~-lpgRT~~q~knRW~ 122 (289)
..|+.-|-.++.++..+||..+..|-.. ||-++-..|-.+|+
T Consensus 286 EEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 286 EEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred hhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 4799999999999999999999999655 69999999988775
No 155
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=21.25 E-value=77 Score=28.29 Aligned_cols=27 Identities=15% Similarity=0.113 Sum_probs=22.1
Q ss_pred CCchhhhhccCCCCCHHHHHHHHHHHhh
Q 036215 99 GNRWSLIAGRIPGRTDNEIKNYWNTRLR 126 (289)
Q Consensus 99 G~kWs~IA~~lpgRT~~q~knRW~~~lr 126 (289)
|-....||..| |-+...|+++++..++
T Consensus 165 g~s~~EIAe~l-gis~~tVk~~l~Rar~ 191 (231)
T PRK11922 165 ELSVEETAQAL-GLPEETVKTRLHRARR 191 (231)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 56789999999 8999999999875443
No 156
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=20.88 E-value=86 Score=21.72 Aligned_cols=44 Identities=18% Similarity=0.238 Sum_probs=31.6
Q ss_pred CCCHHHHHHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhhh
Q 036215 82 HIAPDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRKK 128 (289)
Q Consensus 82 ~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk~ 128 (289)
..|+.|-+.|.-+. -|..=..||..+ |.+...|+.+...+++|-
T Consensus 3 ~LT~~E~~vl~~l~--~G~~~~eIA~~l-~is~~tV~~~~~~i~~Kl 46 (58)
T PF00196_consen 3 SLTERELEVLRLLA--QGMSNKEIAEEL-GISEKTVKSHRRRIMKKL 46 (58)
T ss_dssp SS-HHHHHHHHHHH--TTS-HHHHHHHH-TSHHHHHHHHHHHHHHHH
T ss_pred ccCHHHHHHHHHHH--hcCCcchhHHhc-CcchhhHHHHHHHHHHHh
Confidence 45677766555544 366668999999 999999999988777763
No 157
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=20.87 E-value=1.4e+02 Score=25.88 Aligned_cols=36 Identities=19% Similarity=0.082 Sum_probs=26.5
Q ss_pred HHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 91 ILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 91 Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
++.+....|-....||..| |-+...|+++-...+++
T Consensus 121 v~~L~~~~g~s~~EIA~~L-giS~~tVk~~l~Rar~~ 156 (188)
T PRK12546 121 ALILVGASGFSYEEAAEMC-GVAVGTVKSRANRARAR 156 (188)
T ss_pred HhhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334444577899999999 88999999988755543
No 158
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=20.36 E-value=1.4e+02 Score=26.59 Aligned_cols=38 Identities=13% Similarity=0.241 Sum_probs=27.6
Q ss_pred HHHHHHHHhhCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 89 DLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 89 ~~Ll~lv~~~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
..++.++...|-...+||+.| |-+...|+.+.+..+++
T Consensus 190 r~vl~l~~~~g~s~~EIA~~l-gis~~tV~~~~~ra~~~ 227 (236)
T PRK06986 190 QLVLSLYYQEELNLKEIGAVL-GVSESRVSQIHSQAIKR 227 (236)
T ss_pred HHHHHhHhccCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334444444567899999999 99999999888765544
No 159
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=20.23 E-value=1.6e+02 Score=25.22 Aligned_cols=29 Identities=17% Similarity=0.172 Sum_probs=22.3
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhh
Q 036215 98 LGNRWSLIAGRIPGRTDNEIKNYWNTRLRK 127 (289)
Q Consensus 98 ~G~kWs~IA~~lpgRT~~q~knRW~~~lrk 127 (289)
.|-...+||+.| |-+...|+++-...+++
T Consensus 157 ~~~s~~EIA~~L-gis~~tVk~~l~ra~~~ 185 (194)
T PRK09646 157 GGLTYREVAERL-AVPLGTVKTRMRDGLIR 185 (194)
T ss_pred cCCCHHHHHHHh-CCChHhHHHHHHHHHHH
Confidence 456789999999 77999998887655443
Done!