Query 021188
Match_columns 316
No_of_seqs 288 out of 1504
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 08:17:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021188.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021188hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03212 Transcription repress 100.0 2.4E-34 5.3E-39 262.4 10.7 126 12-141 13-138 (249)
2 KOG0048 Transcription factor, 100.0 4.7E-34 1E-38 263.5 11.2 115 25-139 6-120 (238)
3 PLN03091 hypothetical protein; 100.0 4.5E-33 9.7E-38 270.7 10.5 126 14-143 4-129 (459)
4 KOG0049 Transcription factor, 99.8 4.6E-20 1E-24 185.4 8.6 146 12-157 235-438 (939)
5 KOG0049 Transcription factor, 99.8 2.3E-20 4.9E-25 187.6 6.2 123 6-129 336-461 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.7 4.1E-17 8.9E-22 119.3 4.3 60 31-92 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.6 4.3E-15 9.2E-20 149.3 6.4 108 23-131 15-122 (512)
8 KOG0050 mRNA splicing protein 99.5 6.9E-15 1.5E-19 145.4 4.2 105 26-132 5-109 (617)
9 KOG0048 Transcription factor, 99.5 7.9E-15 1.7E-19 135.6 3.3 86 77-162 5-115 (238)
10 PLN03212 Transcription repress 99.4 1.1E-13 2.3E-18 127.2 6.6 72 76-147 20-93 (249)
11 PF00249 Myb_DNA-binding: Myb- 99.4 3.6E-14 7.9E-19 99.6 1.5 48 28-75 1-48 (48)
12 KOG0051 RNA polymerase I termi 99.4 1.6E-13 3.4E-18 139.4 6.7 106 27-135 383-516 (607)
13 PF00249 Myb_DNA-binding: Myb- 99.4 6.2E-13 1.3E-17 93.3 4.5 46 81-126 1-48 (48)
14 PF13921 Myb_DNA-bind_6: Myb-l 99.3 3.4E-13 7.3E-18 98.5 2.3 58 84-141 1-58 (60)
15 PLN03091 hypothetical protein; 99.3 9.4E-13 2E-17 129.3 4.9 70 76-145 9-80 (459)
16 smart00717 SANT SANT SWI3, AD 99.1 4.8E-11 1E-15 81.7 4.7 47 81-127 1-48 (49)
17 smart00717 SANT SANT SWI3, AD 99.1 4.9E-11 1.1E-15 81.6 2.9 48 28-76 1-48 (49)
18 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 3.6E-10 7.8E-15 76.2 5.0 43 83-125 1-44 (45)
19 KOG0051 RNA polymerase I termi 99.0 2.7E-10 5.9E-15 116.1 5.5 119 25-147 305-452 (607)
20 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 3.1E-10 6.8E-15 76.5 2.6 45 30-75 1-45 (45)
21 COG5147 REB1 Myb superfamily p 98.5 7.8E-08 1.7E-12 97.3 3.2 120 3-125 45-166 (512)
22 KOG0050 mRNA splicing protein 98.1 2.6E-07 5.6E-12 92.4 -3.7 70 4-76 33-104 (617)
23 TIGR01557 myb_SHAQKYF myb-like 98.0 5.5E-06 1.2E-10 60.5 3.0 49 27-75 2-54 (57)
24 KOG0457 Histone acetyltransfer 97.9 5.3E-06 1.2E-10 81.8 1.9 50 25-75 69-118 (438)
25 TIGR01557 myb_SHAQKYF myb-like 97.7 6E-05 1.3E-09 55.1 5.1 46 81-126 3-54 (57)
26 KOG0457 Histone acetyltransfer 97.5 0.00017 3.8E-09 71.3 5.6 49 78-126 69-118 (438)
27 PF13325 MCRS_N: N-terminal re 97.3 0.00055 1.2E-08 61.9 6.9 98 30-129 1-129 (199)
28 TIGR02894 DNA_bind_RsfA transc 97.3 0.00027 5.9E-09 61.6 4.4 52 80-132 3-61 (161)
29 COG5259 RSC8 RSC chromatin rem 97.1 0.00021 4.5E-09 71.3 2.0 46 27-74 278-323 (531)
30 KOG1279 Chromatin remodeling f 97.0 0.0004 8.7E-09 70.8 2.6 47 26-74 251-297 (506)
31 PF08914 Myb_DNA-bind_2: Rap1 96.9 0.00098 2.1E-08 49.9 3.7 51 81-131 2-62 (65)
32 KOG1279 Chromatin remodeling f 96.9 0.00098 2.1E-08 68.0 4.8 46 80-125 252-297 (506)
33 COG5259 RSC8 RSC chromatin rem 96.9 0.001 2.2E-08 66.6 4.0 44 81-124 279-322 (531)
34 PF13837 Myb_DNA-bind_4: Myb/S 96.7 0.0012 2.6E-08 51.3 2.6 51 81-131 1-69 (90)
35 PF08914 Myb_DNA-bind_2: Rap1 96.6 0.0013 2.8E-08 49.3 1.9 52 28-79 2-61 (65)
36 PF13837 Myb_DNA-bind_4: Myb/S 96.5 0.00079 1.7E-08 52.2 0.6 48 28-75 1-64 (90)
37 TIGR02894 DNA_bind_RsfA transc 96.5 0.001 2.2E-08 58.1 0.9 50 26-77 2-57 (161)
38 PRK13923 putative spore coat p 96.3 0.0045 9.7E-08 54.7 4.1 52 79-131 3-61 (170)
39 COG5114 Histone acetyltransfer 96.1 0.0019 4.2E-08 61.9 0.8 50 26-76 61-110 (432)
40 PF13873 Myb_DNA-bind_5: Myb/S 95.7 0.03 6.6E-07 42.5 5.9 52 81-132 2-75 (78)
41 PLN03142 Probable chromatin-re 95.7 0.037 8E-07 61.3 8.5 102 30-132 826-990 (1033)
42 COG5114 Histone acetyltransfer 95.4 0.015 3.3E-07 55.9 3.9 47 81-127 63-110 (432)
43 PF13873 Myb_DNA-bind_5: Myb/S 95.3 0.0061 1.3E-07 46.4 0.6 49 27-75 1-69 (78)
44 PRK13923 putative spore coat p 95.2 0.006 1.3E-07 53.9 0.4 51 25-77 2-58 (170)
45 KOG4282 Transcription factor G 93.1 0.17 3.6E-06 49.3 5.5 52 81-132 54-119 (345)
46 KOG2656 DNA methyltransferase 92.9 0.15 3.3E-06 50.3 4.9 86 50-136 75-191 (445)
47 PF09111 SLIDE: SLIDE; InterP 92.8 0.16 3.4E-06 42.5 4.3 54 78-131 46-115 (118)
48 KOG1194 Predicted DNA-binding 90.6 0.91 2E-05 45.8 7.4 48 80-127 186-233 (534)
49 PF12776 Myb_DNA-bind_3: Myb/S 89.7 0.78 1.7E-05 35.7 5.2 46 83-128 1-64 (96)
50 COG5118 BDP1 Transcription ini 88.8 0.62 1.4E-05 46.0 4.7 45 82-126 366-410 (507)
51 PF09111 SLIDE: SLIDE; InterP 85.5 0.67 1.4E-05 38.7 2.5 34 25-58 46-82 (118)
52 COG5118 BDP1 Transcription ini 85.2 0.56 1.2E-05 46.4 2.2 45 27-73 364-408 (507)
53 PF08281 Sigma70_r4_2: Sigma-7 85.1 2.5 5.3E-05 29.4 5.0 42 86-128 12-53 (54)
54 KOG4282 Transcription factor G 84.1 0.46 9.9E-06 46.2 1.1 48 28-75 54-113 (345)
55 PF12776 Myb_DNA-bind_3: Myb/S 77.9 1.4 3E-05 34.3 1.7 44 30-73 1-60 (96)
56 KOG4167 Predicted DNA-binding 76.6 5.9 0.00013 42.4 6.2 45 81-125 619-663 (907)
57 KOG4468 Polycomb-group transcr 72.6 6.8 0.00015 41.1 5.4 53 81-133 88-150 (782)
58 PF11035 SnAPC_2_like: Small n 71.5 15 0.00032 35.8 7.1 101 12-127 6-127 (344)
59 PF04545 Sigma70_r4: Sigma-70, 70.7 14 0.0003 25.3 5.2 42 87-129 7-48 (50)
60 PF11626 Rap1_C: TRF2-interact 70.3 4.4 9.5E-05 31.7 2.8 30 24-56 43-80 (87)
61 KOG4329 DNA-binding protein [G 69.4 17 0.00037 36.1 7.1 45 82-126 278-323 (445)
62 PF11035 SnAPC_2_like: Small n 67.5 20 0.00043 35.0 7.0 51 81-131 21-75 (344)
63 cd08317 Death_ank Death domain 66.9 23 0.0005 27.2 6.2 69 89-158 4-83 (84)
64 PF13404 HTH_AsnC-type: AsnC-t 66.6 3 6.5E-05 28.3 1.0 38 34-73 3-40 (42)
65 smart00595 MADF subfamily of S 66.1 7.8 0.00017 29.6 3.4 26 103-129 30-55 (89)
66 PF13404 HTH_AsnC-type: AsnC-t 64.8 12 0.00026 25.3 3.7 38 87-125 3-41 (42)
67 PRK11179 DNA-binding transcrip 61.5 4.3 9.3E-05 34.8 1.3 46 33-80 8-53 (153)
68 KOG2656 DNA methyltransferase 60.4 4.9 0.00011 40.1 1.6 50 24-74 126-180 (445)
69 KOG4167 Predicted DNA-binding 59.8 5.5 0.00012 42.7 1.9 44 27-72 618-661 (907)
70 PRK11179 DNA-binding transcrip 59.7 18 0.00039 30.9 4.9 44 87-131 9-53 (153)
71 cd08803 Death_ank3 Death domai 59.4 55 0.0012 25.6 7.1 61 89-150 4-75 (84)
72 cd08318 Death_NMPP84 Death dom 59.2 49 0.0011 25.7 6.8 58 94-152 12-79 (86)
73 TIGR02985 Sig70_bacteroi1 RNA 58.5 25 0.00054 28.9 5.5 40 89-129 118-157 (161)
74 PF13325 MCRS_N: N-terminal re 58.0 20 0.00043 32.7 5.0 44 83-127 1-47 (199)
75 PF11626 Rap1_C: TRF2-interact 57.9 8.7 0.00019 30.0 2.4 17 77-93 43-59 (87)
76 PRK11169 leucine-responsive tr 56.1 20 0.00043 31.0 4.6 45 86-131 13-58 (164)
77 KOG4468 Polycomb-group transcr 55.9 13 0.00029 39.0 3.9 49 27-76 87-144 (782)
78 PRK11169 leucine-responsive tr 55.7 4.9 0.00011 34.9 0.7 46 33-80 13-58 (164)
79 cd08319 Death_RAIDD Death doma 55.5 56 0.0012 25.5 6.5 60 89-149 2-72 (83)
80 PF01388 ARID: ARID/BRIGHT DNA 52.5 25 0.00055 27.1 4.2 39 90-128 39-90 (92)
81 KOG2009 Transcription initiati 51.7 17 0.00037 38.2 3.9 45 81-125 409-453 (584)
82 smart00501 BRIGHT BRIGHT, ARID 51.6 38 0.00081 26.4 5.1 42 90-131 35-89 (93)
83 PF10545 MADF_DNA_bdg: Alcohol 51.5 17 0.00037 27.0 3.0 29 103-131 29-58 (85)
84 KOG0384 Chromodomain-helicase 49.8 19 0.00042 40.9 4.2 76 27-109 1132-1208(1373)
85 PF07750 GcrA: GcrA cell cycle 49.6 18 0.00039 31.8 3.2 39 83-122 2-40 (162)
86 TIGR02937 sigma70-ECF RNA poly 48.5 41 0.00089 26.8 5.1 36 93-129 119-154 (158)
87 cd08779 Death_PIDD Death Domai 47.3 34 0.00074 26.6 4.2 69 90-159 3-83 (86)
88 PF07638 Sigma70_ECF: ECF sigm 45.9 47 0.001 29.1 5.4 42 88-130 139-180 (185)
89 PLN03142 Probable chromatin-re 44.5 12 0.00026 42.1 1.6 34 25-58 923-956 (1033)
90 cd08306 Death_FADD Fas-associa 44.4 1.2E+02 0.0025 23.6 6.8 66 93-159 6-82 (86)
91 PRK09652 RNA polymerase sigma 44.3 44 0.00095 28.1 4.8 36 95-131 139-174 (182)
92 cd08805 Death_ank1 Death domai 44.1 52 0.0011 25.7 4.7 59 89-148 4-73 (84)
93 KOG1194 Predicted DNA-binding 42.8 19 0.0004 36.8 2.5 46 26-73 185-230 (534)
94 PF04504 DUF573: Protein of un 42.2 47 0.001 26.6 4.3 49 82-130 5-66 (98)
95 PRK12523 RNA polymerase sigma 41.6 76 0.0016 27.0 5.9 45 91-136 126-170 (172)
96 cd08804 Death_ank2 Death domai 41.2 1.2E+02 0.0026 23.5 6.4 31 89-120 4-34 (84)
97 PRK12512 RNA polymerase sigma 39.0 78 0.0017 27.1 5.6 35 98-133 145-179 (184)
98 PRK11924 RNA polymerase sigma 38.5 69 0.0015 26.8 5.2 31 98-129 139-169 (179)
99 PRK04217 hypothetical protein; 37.9 86 0.0019 25.8 5.3 47 82-130 41-87 (110)
100 PF09420 Nop16: Ribosome bioge 37.2 26 0.00056 30.6 2.3 48 26-74 112-162 (164)
101 cd06171 Sigma70_r4 Sigma70, re 37.2 88 0.0019 20.1 4.6 40 84-125 11-50 (55)
102 PLN03162 golden-2 like transcr 37.1 2.2E+02 0.0048 28.6 8.8 47 81-127 237-288 (526)
103 PRK09643 RNA polymerase sigma 37.0 78 0.0017 27.7 5.4 36 92-128 142-177 (192)
104 PF07750 GcrA: GcrA cell cycle 36.8 25 0.00055 30.8 2.2 39 30-71 2-40 (162)
105 smart00344 HTH_ASNC helix_turn 34.9 74 0.0016 24.9 4.5 42 87-129 3-45 (108)
106 KOG2009 Transcription initiati 34.6 26 0.00057 36.8 2.2 48 24-73 405-452 (584)
107 smart00005 DEATH DEATH domain, 34.6 76 0.0016 23.9 4.3 29 88-117 4-33 (88)
108 PRK09641 RNA polymerase sigma 34.4 81 0.0018 26.9 5.0 31 99-130 151-181 (187)
109 TIGR02939 RpoE_Sigma70 RNA pol 32.3 75 0.0016 27.2 4.5 32 99-131 153-184 (190)
110 TIGR02954 Sig70_famx3 RNA poly 32.2 1E+02 0.0022 26.0 5.2 33 98-131 133-165 (169)
111 PRK12529 RNA polymerase sigma 31.5 1.2E+02 0.0026 26.1 5.6 36 96-132 139-174 (178)
112 cd08311 Death_p75NR Death doma 30.6 54 0.0012 25.2 2.8 33 86-120 2-34 (77)
113 PRK09413 IS2 repressor TnpA; R 30.5 92 0.002 25.5 4.5 45 27-75 9-53 (121)
114 PRK12531 RNA polymerase sigma 30.3 1.2E+02 0.0026 26.4 5.4 33 98-131 155-187 (194)
115 cd08780 Death_TRADD Death Doma 30.1 1E+02 0.0022 24.6 4.3 58 94-152 7-81 (90)
116 PRK09645 RNA polymerase sigma 30.0 1.2E+02 0.0026 25.6 5.3 32 98-130 132-163 (173)
117 smart00344 HTH_ASNC helix_turn 30.0 32 0.00069 27.1 1.5 44 34-79 3-46 (108)
118 PRK09047 RNA polymerase factor 29.7 1.2E+02 0.0025 25.2 5.1 32 97-129 119-150 (161)
119 PRK09648 RNA polymerase sigma 29.5 1.3E+02 0.0028 25.9 5.5 33 98-131 153-185 (189)
120 PRK12515 RNA polymerase sigma 29.4 1.3E+02 0.0028 26.0 5.5 31 98-129 145-175 (189)
121 TIGR02948 SigW_bacill RNA poly 29.4 1.1E+02 0.0023 26.1 4.9 30 100-130 152-181 (187)
122 TIGR02960 SigX5 RNA polymerase 29.1 1.7E+02 0.0037 27.5 6.6 34 99-133 157-190 (324)
123 COG2197 CitB Response regulato 28.6 94 0.002 28.0 4.5 45 82-129 147-191 (211)
124 cd08777 Death_RIP1 Death Domai 28.6 54 0.0012 25.6 2.6 29 91-120 4-32 (86)
125 PF05263 DUF722: Protein of un 28.3 1E+02 0.0023 26.1 4.5 39 88-128 85-125 (130)
126 PF02954 HTH_8: Bacterial regu 28.2 94 0.002 20.6 3.4 34 87-121 5-38 (42)
127 PRK09637 RNA polymerase sigma 28.2 1.3E+02 0.0029 26.0 5.3 32 97-129 119-150 (181)
128 PRK09649 RNA polymerase sigma 27.9 1.4E+02 0.003 25.8 5.4 32 99-131 145-176 (185)
129 PRK09642 RNA polymerase sigma 27.7 1.4E+02 0.0031 24.8 5.3 31 98-129 120-150 (160)
130 PRK12532 RNA polymerase sigma 27.6 1.4E+02 0.003 25.9 5.4 29 98-127 150-178 (195)
131 PF09420 Nop16: Ribosome bioge 27.4 1.2E+02 0.0027 26.3 5.0 46 80-125 113-162 (164)
132 PRK11923 algU RNA polymerase s 27.0 1.3E+02 0.0029 25.9 5.1 30 99-129 153-182 (193)
133 TIGR02943 Sig70_famx1 RNA poly 26.8 1.5E+02 0.0033 25.7 5.5 36 93-129 140-175 (188)
134 TIGR02999 Sig-70_X6 RNA polyme 26.3 1.7E+02 0.0036 24.9 5.6 31 99-130 149-179 (183)
135 PRK08241 RNA polymerase factor 26.2 1.7E+02 0.0038 27.8 6.2 32 99-131 168-199 (339)
136 PRK09646 RNA polymerase sigma 25.3 1.8E+02 0.0039 25.2 5.7 33 99-132 157-189 (194)
137 PRK12530 RNA polymerase sigma 25.0 1.6E+02 0.0034 25.6 5.2 29 99-128 149-177 (189)
138 COG1522 Lrp Transcriptional re 24.6 41 0.0009 28.0 1.4 44 34-79 8-51 (154)
139 smart00351 PAX Paired Box doma 24.4 2E+02 0.0044 23.7 5.5 76 24-101 11-93 (125)
140 PRK12514 RNA polymerase sigma 24.1 1.8E+02 0.0039 24.7 5.3 31 99-130 144-174 (179)
141 PRK12524 RNA polymerase sigma 24.1 1.8E+02 0.0039 25.3 5.4 33 96-129 148-180 (196)
142 PRK05602 RNA polymerase sigma 23.8 1.6E+02 0.0034 25.3 4.9 31 98-129 142-172 (186)
143 PRK12547 RNA polymerase sigma 23.7 2E+02 0.0044 24.1 5.6 34 97-131 125-158 (164)
144 COG2963 Transposase and inacti 23.3 2E+02 0.0042 23.0 5.1 46 81-128 5-51 (116)
145 TIGR02952 Sig70_famx2 RNA poly 23.2 2E+02 0.0043 23.9 5.4 30 99-129 137-166 (170)
146 PF00196 GerE: Bacterial regul 23.1 1.1E+02 0.0025 21.3 3.3 43 83-128 3-45 (58)
147 TIGR02983 SigE-fam_strep RNA p 22.9 2.2E+02 0.0047 23.7 5.5 41 90-131 116-156 (162)
148 TIGR01636 phage_rinA phage tra 22.8 2.6E+02 0.0056 23.4 5.9 49 84-134 83-133 (134)
149 PF00531 Death: Death domain; 22.6 3.1E+02 0.0067 20.0 7.1 67 92-159 3-80 (83)
150 PRK12536 RNA polymerase sigma 22.5 2.2E+02 0.0048 24.3 5.6 34 97-131 142-175 (181)
151 PRK12527 RNA polymerase sigma 22.2 2.1E+02 0.0045 23.8 5.3 36 94-130 115-150 (159)
152 PRK13919 putative RNA polymera 22.2 2.1E+02 0.0045 24.4 5.4 31 99-130 150-180 (186)
153 PRK09638 RNA polymerase sigma 22.2 90 0.0019 26.4 3.1 32 99-131 141-172 (176)
154 PRK12546 RNA polymerase sigma 22.2 1.9E+02 0.0041 25.3 5.2 40 93-133 122-161 (188)
155 PRK13719 conjugal transfer tra 21.9 3.5E+02 0.0077 25.0 7.0 69 82-157 142-210 (217)
156 PRK12537 RNA polymerase sigma 21.8 2.1E+02 0.0046 24.5 5.4 32 99-131 148-179 (182)
157 PRK06759 RNA polymerase factor 21.6 2.1E+02 0.0046 23.4 5.2 29 99-128 121-149 (154)
158 PRK12542 RNA polymerase sigma 21.4 2.1E+02 0.0046 24.5 5.3 33 98-131 136-168 (185)
159 PRK12516 RNA polymerase sigma 21.3 2E+02 0.0043 25.0 5.2 37 92-129 124-160 (187)
160 PRK00118 putative DNA-binding 20.9 2.6E+02 0.0055 22.8 5.2 39 86-125 19-57 (104)
161 PF13936 HTH_38: Helix-turn-he 20.5 1.1E+02 0.0024 20.5 2.6 36 83-120 4-39 (44)
162 TIGR02984 Sig-70_plancto1 RNA 20.3 2.3E+02 0.005 24.0 5.3 32 98-130 154-185 (189)
163 PF08870 DUF1832: Domain of un 20.1 3.8E+02 0.0083 22.0 6.2 92 32-134 5-101 (113)
No 1
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=2.4e-34 Score=262.42 Aligned_cols=126 Identities=52% Similarity=1.004 Sum_probs=116.6
Q ss_pred CccccCCChhhhcCCccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccCCCCccCCCCHHHHHH
Q 021188 12 TKRECNSSEEDQQELRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLKPDIKRGNLTPQEQFL 91 (316)
Q Consensus 12 ~k~~~~~~~~~~~~lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~lkkg~WT~EED~~ 91 (316)
...+||.+ ++++|++||+|||++|+++|++||..+|..||+.++.+|+++|||+||.++|+|.+++++||+|||++
T Consensus 13 ~~~pcc~K----~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~l 88 (249)
T PLN03212 13 KTTPCCTK----MGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDL 88 (249)
T ss_pred CCCCCccc----CCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHH
Confidence 34456555 67999999999999999999999988999999999669999999999999999999999999999999
Q ss_pred HHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCchH
Q 021188 92 ILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQARQLNIESNSET 141 (316)
Q Consensus 92 Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r~~~~~~~e~~ 141 (316)
|++++.+||++|..||+.|||||+++||+||+.++++.+++.++.+.+..
T Consensus 89 Llel~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~~~k 138 (249)
T PLN03212 89 ILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTHK 138 (249)
T ss_pred HHHHHHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCCCCC
Confidence 99999999999999999999999999999999999999999888776643
No 2
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=4.7e-34 Score=263.50 Aligned_cols=115 Identities=51% Similarity=0.915 Sum_probs=109.3
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccCCCCccCCCCHHHHHHHHHHHHhcCCChh
Q 021188 25 ELRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLKPDIKRGNLTPQEQFLILELHSKWGNRWS 104 (316)
Q Consensus 25 ~lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~lkkg~WT~EED~~Ll~lv~~~G~~W~ 104 (316)
.+.||+||+|||++|+++|++||.++|..||+.+|++|++++||.||.|||+|++++|.||+|||++|+++++.+|++|+
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 35679999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCc
Q 021188 105 KIAQCLPGRTDNEIKNYWRTRVQKQARQLNIESNS 139 (316)
Q Consensus 105 ~IA~~lpgRT~~q~knRW~~~l~k~~r~~~~~~~e 139 (316)
.||++|||||+++|||+|+..+++++++.++.+..
T Consensus 86 ~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~~~~~~ 120 (238)
T KOG0048|consen 86 LIAGRLPGRTDNEVKNHWNTHLKKKLLKMGIDPST 120 (238)
T ss_pred HHHhhCCCcCHHHHHHHHHHHHHHHHHHcCCCCCc
Confidence 99999999999999999999999999988754433
No 3
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=4.5e-33 Score=270.70 Aligned_cols=126 Identities=53% Similarity=0.952 Sum_probs=117.1
Q ss_pred cccCCChhhhcCCccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccCCCCccCCCCHHHHHHHH
Q 021188 14 RECNSSEEDQQELRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLKPDIKRGNLTPQEQFLIL 93 (316)
Q Consensus 14 ~~~~~~~~~~~~lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~lkkg~WT~EED~~Ll 93 (316)
..||.+ ++++||+||+|||++|+++|.+||.++|..||+.++++|+++|||+||.++|+|.+++++||+|||++|+
T Consensus 4 ~~Cc~K----qklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLL 79 (459)
T PLN03091 4 HSCCYK----QKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLII 79 (459)
T ss_pred CccCcC----CCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHH
Confidence 345555 6799999999999999999999999999999999877999999999999999999999999999999999
Q ss_pred HHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCchHHH
Q 021188 94 ELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQARQLNIESNSETFF 143 (316)
Q Consensus 94 ~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r~~~~~~~e~~~~ 143 (316)
+++++||++|.+||+.|+|||+++||+||+.+++++++..++.+.+...+
T Consensus 80 eL~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~kpl 129 (459)
T PLN03091 80 ELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPL 129 (459)
T ss_pred HHHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCCCCc
Confidence 99999999999999999999999999999999999999888887665433
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.81 E-value=4.6e-20 Score=185.37 Aligned_cols=146 Identities=23% Similarity=0.382 Sum_probs=129.1
Q ss_pred CccccCCChhh--hcCCccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCcccccccc---------------------
Q 021188 12 TKRECNSSEED--QQELRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCR--------------------- 68 (316)
Q Consensus 12 ~k~~~~~~~~~--~~~lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr--------------------- 68 (316)
+.-.|.+.|.. +|+++|..|+.|||++|+.+...+|..+|.+||..+|++|+..||.
T Consensus 235 S~~~~~~~W~n~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~ 314 (939)
T KOG0049|consen 235 SEWAVKSKWYNELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDT 314 (939)
T ss_pred CHHHHHHHHhhhcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhH
Confidence 44455555633 7999999999999999999999999999999999999779999997
Q ss_pred ---------------------------------chhccccCCCCccCCCCHHHHHHHHHHHHhcCC-ChhhhhhcCCCCC
Q 021188 69 ---------------------------------LRWLNYLKPDIKRGNLTPQEQFLILELHSKWGN-RWSKIAQCLPGRT 114 (316)
Q Consensus 69 ---------------------------------~Rw~n~L~p~lkkg~WT~EED~~Ll~lv~~~G~-~W~~IA~~lpgRT 114 (316)
.||...|+|.+++|+||.+||.+|+.+|.+||. .|.+|...+|||+
T Consensus 315 kL~alV~~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRS 394 (939)
T KOG0049|consen 315 KLIALVKITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRS 394 (939)
T ss_pred HHHHHHHHhhccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCcc
Confidence 477788999999999999999999999999996 6999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCc-hHHHHHHhhhcCChhHHH
Q 021188 115 DNEIKNYWRTRVQKQARQLNIESNS-ETFFEAVRCYWMPRLLQK 157 (316)
Q Consensus 115 ~~q~knRW~~~l~k~~r~~~~~~~e-~~~~~~i~~~~~p~~~~k 157 (316)
+.|||.||.+.|...+|+..|+-.+ ++++..|..|..-.+.+-
T Consensus 395 dsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~YG~g~Wakc 438 (939)
T KOG0049|consen 395 DSQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKVYGKGNWAKC 438 (939)
T ss_pred HHHHHHHHHHHHHHhhccCceeecchHHHHHHHHHHccchHHHH
Confidence 9999999999999999999998765 559999998877776554
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.81 E-value=2.3e-20 Score=187.58 Aligned_cols=123 Identities=23% Similarity=0.381 Sum_probs=108.7
Q ss_pred hhhhhcCccccCCChhh--hcCCccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccCCCCccCC
Q 021188 6 AARAAGTKRECNSSEED--QQELRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLKPDIKRGN 83 (316)
Q Consensus 6 ~~~~~~~k~~~~~~~~~--~~~lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~lkkg~ 83 (316)
.-|+++++.+-..+|.. +|++++|+||.+||.+|+.+|.+||..+|.+|-+.+| +|+..|||+||.|.|+...|++.
T Consensus 336 ~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~r 414 (939)
T KOG0049|consen 336 QYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVER 414 (939)
T ss_pred HhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCc
Confidence 34677777777666644 6999999999999999999999999999999999999 99999999999999999999999
Q ss_pred CCHHHHHHHHHHHHhcC-CChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 84 LTPQEQFLILELHSKWG-NRWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 84 WT~EED~~Ll~lv~~~G-~~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
||-.||+.|+.+|.+|| ++|.+||..||+||+.|...|-...+.-+
T Consensus 415 W~l~edeqL~~~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~~~k 461 (939)
T KOG0049|consen 415 WTLVEDEQLLYAVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLIAAK 461 (939)
T ss_pred eeecchHHHHHHHHHHccchHHHHHHHccccchhHHHHHHHHHHHHH
Confidence 99999999999999999 69999999999999966655544444433
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=99.67 E-value=4.1e-17 Score=119.30 Aligned_cols=60 Identities=43% Similarity=0.800 Sum_probs=55.3
Q ss_pred CCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccCCCCccCCCCHHHHHHH
Q 021188 31 WTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLKPDIKRGNLTPQEQFLI 92 (316)
Q Consensus 31 WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~lkkg~WT~EED~~L 92 (316)
||+|||++|+++|.+||. +|..||+.|| .|++.+|+.||.++|.+.+++++||++||.+|
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999996 9999999998 89999999999999999999999999999987
No 7
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.55 E-value=4.3e-15 Score=149.29 Aligned_cols=108 Identities=27% Similarity=0.487 Sum_probs=103.0
Q ss_pred hcCCccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccCCCCccCCCCHHHHHHHHHHHHhcCCC
Q 021188 23 QQELRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLKPDIKRGNLTPQEQFLILELHSKWGNR 102 (316)
Q Consensus 23 ~~~lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~lkkg~WT~EED~~Ll~lv~~~G~~ 102 (316)
..+++.|.|+..||+.|..+|+++|..+|..||..+. .|+++||+.||.++++|.+++..|+.|||..|+.+..++|..
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ 93 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch
Confidence 3568899999999999999999999999999999998 799999999999999999999999999999999999999999
Q ss_pred hhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 103 WSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 103 W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
|..||..+++|+..+|.+||...+.....
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 99999999999999999999988877665
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.51 E-value=6.9e-15 Score=145.44 Aligned_cols=105 Identities=24% Similarity=0.528 Sum_probs=100.1
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccCCCCccCCCCHHHHHHHHHHHHhcCCChhh
Q 021188 26 LRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLKPDIKRGNLTPQEQFLILELHSKWGNRWSK 105 (316)
Q Consensus 26 lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~lkkg~WT~EED~~Ll~lv~~~G~~W~~ 105 (316)
++.|-|+.-||+.|..+|.+||.+.|.+|++.+. ..+++||+.||..+|+|.+++..|+.|||++||.+...+...|..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrt 83 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRT 83 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccch
Confidence 6789999999999999999999999999999998 899999999999999999999999999999999999999999999
Q ss_pred hhhcCCCCCHHHHHHHHHHHHHHHHHh
Q 021188 106 IAQCLPGRTDNEIKNYWRTRVQKQARQ 132 (316)
Q Consensus 106 IA~~lpgRT~~q~knRW~~~l~k~~r~ 132 (316)
||..| ||+++||-.||.+++-..+..
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s~ 109 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVSY 109 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHhh
Confidence 99999 999999999999988766543
No 9
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.50 E-value=7.9e-15 Score=135.63 Aligned_cols=86 Identities=15% Similarity=0.313 Sum_probs=76.1
Q ss_pred CCCccCCCCHHHHHHHHHHHHhcC-CChhhhhhcCC-CCCHHHHHHHHHHHHHHHHHhcCCCCCchHH------------
Q 021188 77 PDIKRGNLTPQEQFLILELHSKWG-NRWSKIAQCLP-GRTDNEIKNYWRTRVQKQARQLNIESNSETF------------ 142 (316)
Q Consensus 77 p~lkkg~WT~EED~~Ll~lv~~~G-~~W~~IA~~lp-gRT~~q~knRW~~~l~k~~r~~~~~~~e~~~------------ 142 (316)
+.+.+|+||+|||++|+++|++|| ++|..||+.++ +|++++||.||.++|++.++++.|+.+|+.+
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 345579999999999999999999 57999999998 9999999999999999999999999999554
Q ss_pred -----------HHHHhhhcCChhHHHhhhcC
Q 021188 143 -----------FEAVRCYWMPRLLQKMEQNS 162 (316)
Q Consensus 143 -----------~~~i~~~~~p~~~~k~~q~~ 162 (316)
.+.|++||...+.+++.+..
T Consensus 85 s~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 44555899999998887664
No 10
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.45 E-value=1.1e-13 Score=127.20 Aligned_cols=72 Identities=21% Similarity=0.356 Sum_probs=65.2
Q ss_pred CCCCccCCCCHHHHHHHHHHHHhcC-CChhhhhhcC-CCCCHHHHHHHHHHHHHHHHHhcCCCCCchHHHHHHh
Q 021188 76 KPDIKRGNLTPQEQFLILELHSKWG-NRWSKIAQCL-PGRTDNEIKNYWRTRVQKQARQLNIESNSETFFEAVR 147 (316)
Q Consensus 76 ~p~lkkg~WT~EED~~Ll~lv~~~G-~~W~~IA~~l-pgRT~~q~knRW~~~l~k~~r~~~~~~~e~~~~~~i~ 147 (316)
++.+++++||+|||++|+++|++|| .+|..||+.+ ++||++|||.||.++|++.+++..|+.+|+.++..+.
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~ 93 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLH 93 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHH
Confidence 3578999999999999999999999 5899999998 7999999999999999999999999999988554444
No 11
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.43 E-value=3.6e-14 Score=99.57 Aligned_cols=48 Identities=44% Similarity=0.744 Sum_probs=43.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhcccc
Q 021188 28 RGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYL 75 (316)
Q Consensus 28 kg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L 75 (316)
|++||+|||++|+++|.+||.++|..||+.||.+||+.||+.||.++|
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 689999999999999999999669999999988999999999999875
No 12
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.43 E-value=1.6e-13 Score=139.37 Aligned_cols=106 Identities=25% Similarity=0.501 Sum_probs=94.4
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccCCCC--ccCCCCHHHHHHHHHHHH-------
Q 021188 27 RRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLKPDI--KRGNLTPQEQFLILELHS------- 97 (316)
Q Consensus 27 kkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~l--kkg~WT~EED~~Ll~lv~------- 97 (316)
.+|.||+||++.|..+|.++|. +|..|++.|+ |.+..||+||+++..+.- +++.||.||+++|+++|.
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 8999999999999999999997 9999999997 999999999999999874 899999999999999994
Q ss_pred hc-------------------CCChhhhhhcCCCCCHHHHHHHHHHHHHHHHHhcCC
Q 021188 98 KW-------------------GNRWSKIAQCLPGRTDNEIKNYWRTRVQKQARQLNI 135 (316)
Q Consensus 98 ~~-------------------G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r~~~~ 135 (316)
++ +-.|..|++.+..|+..|||-+|..++.........
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~~ 516 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKRQ 516 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhccc
Confidence 33 125999999889999999999999988766544433
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=99.37 E-value=6.2e-13 Score=93.31 Aligned_cols=46 Identities=35% Similarity=0.650 Sum_probs=41.7
Q ss_pred cCCCCHHHHHHHHHHHHhcCCC-hhhhhhcCC-CCCHHHHHHHHHHHH
Q 021188 81 RGNLTPQEQFLILELHSKWGNR-WSKIAQCLP-GRTDNEIKNYWRTRV 126 (316)
Q Consensus 81 kg~WT~EED~~Ll~lv~~~G~~-W~~IA~~lp-gRT~~q~knRW~~~l 126 (316)
+++||+|||++|+++|.+||.. |..||..|+ +||..||++||+.++
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 999999998 999999999999864
No 14
>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=99.35 E-value=3.4e-13 Score=98.51 Aligned_cols=58 Identities=33% Similarity=0.567 Sum_probs=49.6
Q ss_pred CCHHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCchH
Q 021188 84 LTPQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQARQLNIESNSET 141 (316)
Q Consensus 84 WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r~~~~~~~e~~ 141 (316)
||+|||.+|+++|.+||.+|..||+.|+.||..+|++||+..|++..++..++.+++.
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 9999999999999999999999999996699999999999988877777777776654
No 15
>PLN03091 hypothetical protein; Provisional
Probab=99.33 E-value=9.4e-13 Score=129.26 Aligned_cols=70 Identities=17% Similarity=0.368 Sum_probs=63.7
Q ss_pred CCCCccCCCCHHHHHHHHHHHHhcC-CChhhhhhcC-CCCCHHHHHHHHHHHHHHHHHhcCCCCCchHHHHH
Q 021188 76 KPDIKRGNLTPQEQFLILELHSKWG-NRWSKIAQCL-PGRTDNEIKNYWRTRVQKQARQLNIESNSETFFEA 145 (316)
Q Consensus 76 ~p~lkkg~WT~EED~~Ll~lv~~~G-~~W~~IA~~l-pgRT~~q~knRW~~~l~k~~r~~~~~~~e~~~~~~ 145 (316)
+..+++++||+|||++|+++|.+|| .+|..||+.+ +||+++|||.||.++|++.++++.|+.+|+.++..
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 4578999999999999999999999 5799999988 59999999999999999999999999999874443
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.15 E-value=4.8e-11 Score=81.68 Aligned_cols=47 Identities=40% Similarity=0.809 Sum_probs=44.1
Q ss_pred cCCCCHHHHHHHHHHHHhcC-CChhhhhhcCCCCCHHHHHHHHHHHHH
Q 021188 81 RGNLTPQEQFLILELHSKWG-NRWSKIAQCLPGRTDNEIKNYWRTRVQ 127 (316)
Q Consensus 81 kg~WT~EED~~Ll~lv~~~G-~~W~~IA~~lpgRT~~q~knRW~~~l~ 127 (316)
+++||++||.+|+.++.+|| .+|..||..|++||+.+|+.||..+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998764
No 17
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.10 E-value=4.9e-11 Score=81.63 Aligned_cols=48 Identities=44% Similarity=0.824 Sum_probs=44.5
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccC
Q 021188 28 RGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLK 76 (316)
Q Consensus 28 kg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~ 76 (316)
+++||++||++|+.++.+||..+|..||+.++ +|++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~-~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcC-CCCHHHHHHHHHHHcC
Confidence 57899999999999999999559999999999 9999999999988764
No 18
>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=99.03 E-value=3.6e-10 Score=76.19 Aligned_cols=43 Identities=44% Similarity=0.772 Sum_probs=41.2
Q ss_pred CCCHHHHHHHHHHHHhcC-CChhhhhhcCCCCCHHHHHHHHHHH
Q 021188 83 NLTPQEQFLILELHSKWG-NRWSKIAQCLPGRTDNEIKNYWRTR 125 (316)
Q Consensus 83 ~WT~EED~~Ll~lv~~~G-~~W~~IA~~lpgRT~~q~knRW~~~ 125 (316)
+||++|+.+|+.++.+|| .+|..||+.+++||..+|++||..+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 599999999999999999 8999999999999999999999875
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.02 E-value=2.7e-10 Score=116.08 Aligned_cols=119 Identities=24% Similarity=0.379 Sum_probs=97.5
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCC-----------------------CcchhhcccCCccccccccchh---ccccCCC
Q 021188 25 ELRRGPWTLEEDTLLTHYIHQHGEG-----------------------RWNMVAKCAGLKRTGKSCRLRW---LNYLKPD 78 (316)
Q Consensus 25 ~lkkg~WT~eED~~L~~lV~~~g~~-----------------------~W~~IA~~l~~~Rt~~qcr~Rw---~n~L~p~ 78 (316)
.++.+.|+.+||+.|-+.|..|-.. -|+.|.+.|| -|+...++.+- .+.+.+
T Consensus 305 e~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~- 382 (607)
T KOG0051|consen 305 EINLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFEN- 382 (607)
T ss_pred hhhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCcccc-
Confidence 4666999999999999999876211 2678888898 69999998733 334443
Q ss_pred CccCCCCHHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHH--HhcCCCCCchH-HHHHHh
Q 021188 79 IKRGNLTPQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQA--RQLNIESNSET-FFEAVR 147 (316)
Q Consensus 79 lkkg~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~--r~~~~~~~e~~-~~~~i~ 147 (316)
++|.||+||++.|..+|.++|+.|..|++.| ||.+.+|+.||+.+++..- +++.|+-+++. +++.|.
T Consensus 383 -~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~ 452 (607)
T KOG0051|consen 383 -KRGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVN 452 (607)
T ss_pred -ccCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHH
Confidence 8999999999999999999999999999999 9999999999999998774 66667766655 666553
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=98.97 E-value=3.1e-10 Score=76.47 Aligned_cols=45 Identities=47% Similarity=0.830 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhcccc
Q 021188 30 PWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYL 75 (316)
Q Consensus 30 ~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L 75 (316)
+||.+||++|+.++.++|..+|..||+.++ +|++.+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~-~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcC-CCCHHHHHHHHHHhC
Confidence 599999999999999999669999999999 899999999997653
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=98.47 E-value=7.8e-08 Score=97.34 Aligned_cols=120 Identities=14% Similarity=0.201 Sum_probs=98.6
Q ss_pred hhhhhhhhcCccccCCCh--hhhcCCccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccCCCCc
Q 021188 3 TMRAARAAGTKRECNSSE--EDQQELRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLKPDIK 80 (316)
Q Consensus 3 ~~~~~~~~~~k~~~~~~~--~~~~~lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~lk 80 (316)
.|+++...+..++|+.+| ...|.++++.|+.|||+.|+.+..++|. .|..||..++ +|+..+|.+||.+.|.+...
T Consensus 45 ~vas~~~~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~-~wstia~~~d-~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 45 KVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGT-QWSTIADYKD-RRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred HHHHHhcccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCc-hhhhhccccC-ccchHHHHHHHHHHhhhhhc
Confidence 467777778899999999 4479999999999999999999999998 7999999999 99999999999999987655
Q ss_pred cCCCCHHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHH
Q 021188 81 RGNLTPQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTR 125 (316)
Q Consensus 81 kg~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~ 125 (316)
..|+..++...+..+..|+..|..+....-.+-...|.+++.++
T Consensus 123 -~~~s~~~~~~~f~k~d~f~~~~~~~~~~~~~~~~~~~~N~~~~~ 166 (512)
T COG5147 123 -THDSKLQRRNEFDKIDPFNENSARRPDIYEDELLEREVNREASY 166 (512)
T ss_pred -cccccccchhhccccCchhhhhhhhhhhhhcccchhhhhHHHHH
Confidence 78888888777777777777777776655555555555655443
No 22
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.05 E-value=2.6e-07 Score=92.42 Aligned_cols=70 Identities=27% Similarity=0.541 Sum_probs=61.9
Q ss_pred hhhhhhhcCccccCCChhh--hcCCccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccC
Q 021188 4 MRAARAAGTKRECNSSEED--QQELRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLK 76 (316)
Q Consensus 4 ~~~~~~~~~k~~~~~~~~~--~~~lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~ 76 (316)
++......++++|..+|.+ .|.|++--|+.|||++|+.+...... .|..||..|+ |++.||.+||.+.|.
T Consensus 33 i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~-qwrtIa~i~g--r~~~qc~eRy~~ll~ 104 (617)
T KOG0050|consen 33 IASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPT-QWRTIADIMG--RTSQQCLERYNNLLD 104 (617)
T ss_pred HHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCC-ccchHHHHhh--hhHHHHHHHHHHHHH
Confidence 3444566789999999987 79999999999999999999999887 8999999997 999999999987654
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=97.97 E-value=5.5e-06 Score=60.49 Aligned_cols=49 Identities=14% Similarity=0.237 Sum_probs=43.6
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCc---chhhcccCCcc-ccccccchhcccc
Q 021188 27 RRGPWTLEEDTLLTHYIHQHGEGRW---NMVAKCAGLKR-TGKSCRLRWLNYL 75 (316)
Q Consensus 27 kkg~WT~eED~~L~~lV~~~g~~~W---~~IA~~l~~~R-t~~qcr~Rw~n~L 75 (316)
++-.||+||..+++++|+.+|.++| ..|++.|+..| |..||+.|++.|.
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 4568999999999999999999899 99999987566 9999999987764
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.88 E-value=5.3e-06 Score=81.81 Aligned_cols=50 Identities=26% Similarity=0.555 Sum_probs=46.7
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhcccc
Q 021188 25 ELRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYL 75 (316)
Q Consensus 25 ~lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L 75 (316)
.+-...||++|+-+|++++..||.|||..||.++| .|+..+|+++|.+++
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHH
Confidence 45678899999999999999999999999999999 999999999999864
No 25
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.74 E-value=6e-05 Score=55.05 Aligned_cols=46 Identities=17% Similarity=0.224 Sum_probs=40.7
Q ss_pred cCCCCHHHHHHHHHHHHhcCC-Ch---hhhhhcCC-CC-CHHHHHHHHHHHH
Q 021188 81 RGNLTPQEQFLILELHSKWGN-RW---SKIAQCLP-GR-TDNEIKNYWRTRV 126 (316)
Q Consensus 81 kg~WT~EED~~Ll~lv~~~G~-~W---~~IA~~lp-gR-T~~q~knRW~~~l 126 (316)
+-.||+||..++++++..+|. +| ..|++.|. .| |..||+.|.+.+.
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 568999999999999999996 99 99999883 45 9999999987765
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.46 E-value=0.00017 Score=71.31 Aligned_cols=49 Identities=27% Similarity=0.466 Sum_probs=44.2
Q ss_pred CCccCCCCHHHHHHHHHHHHhcC-CChhhhhhcCCCCCHHHHHHHHHHHH
Q 021188 78 DIKRGNLTPQEQFLILELHSKWG-NRWSKIAQCLPGRTDNEIKNYWRTRV 126 (316)
Q Consensus 78 ~lkkg~WT~EED~~Ll~lv~~~G-~~W~~IA~~lpgRT~~q~knRW~~~l 126 (316)
.+-...||.+|+.+||+++..|| ++|..||.++..|+..+|+.+|.+++
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 34456899999999999999999 89999999999999999999997654
No 27
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.34 E-value=0.00055 Score=61.92 Aligned_cols=98 Identities=23% Similarity=0.363 Sum_probs=73.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcchhhcccC--CccccccccchhccccC-CCC--------------------ccCCCCH
Q 021188 30 PWTLEEDTLLTHYIHQHGEGRWNMVAKCAG--LKRTGKSCRLRWLNYLK-PDI--------------------KRGNLTP 86 (316)
Q Consensus 30 ~WT~eED~~L~~lV~~~g~~~W~~IA~~l~--~~Rt~~qcr~Rw~n~L~-p~l--------------------kkg~WT~ 86 (316)
+|+++.|-+|+.+|.... +-..|+..+. ..-|-..+.+||+..|. |.+ .+.+||.
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 699999999999998655 5677766543 25577788899997653 322 3568999
Q ss_pred HHHHHHHHHHHhcCC---Chhhhh----hcC-CCCCHHHHHHHHHHHHHHH
Q 021188 87 QEQFLILELHSKWGN---RWSKIA----QCL-PGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 87 EED~~Ll~lv~~~G~---~W~~IA----~~l-pgRT~~q~knRW~~~l~k~ 129 (316)
+|+++|......... .+.+|- ..| ++||+.++..+|+.+.+..
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~ 129 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYH 129 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhc
Confidence 999999997766543 477773 334 8899999999999655443
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=0.00027 Score=61.65 Aligned_cols=52 Identities=23% Similarity=0.412 Sum_probs=45.2
Q ss_pred ccCCCCHHHHHHHHHHHHhc---CC----ChhhhhhcCCCCCHHHHHHHHHHHHHHHHHh
Q 021188 80 KRGNLTPQEQFLILELHSKW---GN----RWSKIAQCLPGRTDNEIKNYWRTRVQKQARQ 132 (316)
Q Consensus 80 kkg~WT~EED~~Ll~lv~~~---G~----~W~~IA~~lpgRT~~q~knRW~~~l~k~~r~ 132 (316)
+...||.|||.+|.+.|.+| |+ -+..+++.| +||..+|.-||+.++|++...
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 56789999999999999887 33 389999999 999999999999999977553
No 29
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.13 E-value=0.00021 Score=71.33 Aligned_cols=46 Identities=33% Similarity=0.621 Sum_probs=43.3
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccc
Q 021188 27 RRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNY 74 (316)
Q Consensus 27 kkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~ 74 (316)
+...||.+|..+|+++|+.||. +|.+||.++| +|+..||..|+.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 6679999999999999999998 9999999999 99999999999864
No 30
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.98 E-value=0.0004 Score=70.79 Aligned_cols=47 Identities=34% Similarity=0.633 Sum_probs=43.7
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccc
Q 021188 26 LRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNY 74 (316)
Q Consensus 26 lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~ 74 (316)
--++.||.+|+.+|+++|+.||. +|.+||.+++ +|+..||..++.+.
T Consensus 251 ~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 251 SARPNWTEQETLLLLEAIEMYGD-DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred cCCCCccHHHHHHHHHHHHHhcc-cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 45789999999999999999998 9999999999 99999999998763
No 31
>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=96.94 E-value=0.00098 Score=49.95 Aligned_cols=51 Identities=14% Similarity=0.308 Sum_probs=32.7
Q ss_pred cCCCCHHHHHHHHHHHHhcC-------CC--hhhhhhcCC-CCCHHHHHHHHHHHHHHHHH
Q 021188 81 RGNLTPQEQFLILELHSKWG-------NR--WSKIAQCLP-GRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 81 kg~WT~EED~~Ll~lv~~~G-------~~--W~~IA~~lp-gRT~~q~knRW~~~l~k~~r 131 (316)
+.+||.|||..|++.|.++. ++ |..+++.-+ .+|-.+.|+||...|+...+
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~ 62 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR 62 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence 45899999999999996552 12 999999887 99999999999888876544
No 32
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.93 E-value=0.00098 Score=68.02 Aligned_cols=46 Identities=26% Similarity=0.432 Sum_probs=42.7
Q ss_pred ccCCCCHHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHH
Q 021188 80 KRGNLTPQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTR 125 (316)
Q Consensus 80 kkg~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~ 125 (316)
-++.||++|..+|++.+..||..|.+||.++.+||..+|-.|+..+
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhc
Confidence 4678999999999999999999999999999999999999988653
No 33
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.86 E-value=0.001 Score=66.57 Aligned_cols=44 Identities=25% Similarity=0.397 Sum_probs=41.8
Q ss_pred cCCCCHHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHH
Q 021188 81 RGNLTPQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRT 124 (316)
Q Consensus 81 kg~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~ 124 (316)
...|+.+|..+|++.|..||..|.+||+++..||..||--||.+
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~ 322 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQ 322 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHc
Confidence 34899999999999999999999999999999999999999975
No 34
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.69 E-value=0.0012 Score=51.26 Aligned_cols=51 Identities=31% Similarity=0.547 Sum_probs=35.6
Q ss_pred cCCCCHHHHHHHHHHHHh------cC--C------ChhhhhhcC----CCCCHHHHHHHHHHHHHHHHH
Q 021188 81 RGNLTPQEQFLILELHSK------WG--N------RWSKIAQCL----PGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 81 kg~WT~EED~~Ll~lv~~------~G--~------~W~~IA~~l----pgRT~~q~knRW~~~l~k~~r 131 (316)
+..||.+|...||+++.+ ++ + -|..||..| ..||+.||+.+|.++.+...+
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~ 69 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKK 69 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHC
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence 357999999999999877 21 1 399999877 369999999999996665544
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=96.56 E-value=0.0013 Score=49.30 Aligned_cols=52 Identities=29% Similarity=0.496 Sum_probs=33.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCC------CC--cchhhcccCCccccccccchhccccCCCC
Q 021188 28 RGPWTLEEDTLLTHYIHQHGE------GR--WNMVAKCAGLKRTGKSCRLRWLNYLKPDI 79 (316)
Q Consensus 28 kg~WT~eED~~L~~lV~~~g~------~~--W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~l 79 (316)
+-+||.|||+.|++.|..+.. |+ |.++++.-++.+|-.+-|+||...|.+..
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 468999999999999976531 22 99999887778999999999999887643
No 36
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.53 E-value=0.00079 Score=52.25 Aligned_cols=48 Identities=35% Similarity=0.677 Sum_probs=32.9
Q ss_pred cCCCCHHHHHHHHHHHHHh------CC-C------Ccchhhccc---CCccccccccchhcccc
Q 021188 28 RGPWTLEEDTLLTHYIHQH------GE-G------RWNMVAKCA---GLKRTGKSCRLRWLNYL 75 (316)
Q Consensus 28 kg~WT~eED~~L~~lV~~~------g~-~------~W~~IA~~l---~~~Rt~~qcr~Rw~n~L 75 (316)
+..||.+|...|++++... +. + -|..||..| |..|++.||+.||.+..
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 4579999999999999871 11 1 399999986 55799999999998753
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=96.46 E-value=0.001 Score=58.10 Aligned_cols=50 Identities=34% Similarity=0.703 Sum_probs=43.2
Q ss_pred CccCCCCHHHHHHHHHHHHHhCC-C-----CcchhhcccCCccccccccchhccccCC
Q 021188 26 LRRGPWTLEEDTLLTHYIHQHGE-G-----RWNMVAKCAGLKRTGKSCRLRWLNYLKP 77 (316)
Q Consensus 26 lkkg~WT~eED~~L~~lV~~~g~-~-----~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p 77 (316)
.|+..||.|||.+|.+.|-+|-. | .+.++++.++ ||+..|.=||..++..
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 57889999999999999999843 2 4889999986 9999999999988764
No 38
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.32 E-value=0.0045 Score=54.74 Aligned_cols=52 Identities=19% Similarity=0.286 Sum_probs=43.7
Q ss_pred CccCCCCHHHHHHHHHHHHhcCCC-------hhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 79 IKRGNLTPQEQFLILELHSKWGNR-------WSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 79 lkkg~WT~EED~~Ll~lv~~~G~~-------W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
.+...||.|||.+|.+.|..|+.. ...++..| +||..+|.-||+..++++..
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Ye 61 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQ 61 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHH
Confidence 456789999999998888888732 67777788 99999999999999997654
No 39
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=96.11 E-value=0.0019 Score=61.90 Aligned_cols=50 Identities=22% Similarity=0.515 Sum_probs=45.6
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccC
Q 021188 26 LRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLK 76 (316)
Q Consensus 26 lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~ 76 (316)
+----|+.+|+-+|++...-.|-|||..||..+| .|+...|+++|..++.
T Consensus 61 I~~e~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 61 IGEEGWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred ccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 3345699999999999999999999999999999 9999999999998765
No 40
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.73 E-value=0.03 Score=42.51 Aligned_cols=52 Identities=27% Similarity=0.509 Sum_probs=41.5
Q ss_pred cCCCCHHHHHHHHHHHHhcC----C-------------ChhhhhhcC-----CCCCHHHHHHHHHHHHHHHHHh
Q 021188 81 RGNLTPQEQFLILELHSKWG----N-------------RWSKIAQCL-----PGRTDNEIKNYWRTRVQKQARQ 132 (316)
Q Consensus 81 kg~WT~EED~~Ll~lv~~~G----~-------------~W~~IA~~l-----pgRT~~q~knRW~~~l~k~~r~ 132 (316)
+..||.+|...|++++.+|. + -|..|+..| +.||..+++.+|.++.....++
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk~ 75 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKKK 75 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 46899999999999998872 1 299999765 3599999999999977655443
No 41
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.69 E-value=0.037 Score=61.32 Aligned_cols=102 Identities=14% Similarity=0.225 Sum_probs=76.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccc-------hhccc----------------------------
Q 021188 30 PWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRL-------RWLNY---------------------------- 74 (316)
Q Consensus 30 ~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~-------Rw~n~---------------------------- 74 (316)
.|+..+=..++.+..+||..+-..||..|. +++...++. ||...
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~ 904 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG 904 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477777777778888888888889999997 788777652 22210
Q ss_pred --------------c-CCCCccCCCCHHHHHHHHHHHHhcC-CChhhhhh------------cCCCCCHHHHHHHHHHHH
Q 021188 75 --------------L-KPDIKRGNLTPQEQFLILELHSKWG-NRWSKIAQ------------CLPGRTDNEIKNYWRTRV 126 (316)
Q Consensus 75 --------------L-~p~lkkg~WT~EED~~Ll~lv~~~G-~~W~~IA~------------~lpgRT~~q~knRW~~~l 126 (316)
+ .+..++..+|+|||..|+-.+.+|| ++|..|.. .+..||+..|..|...++
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 0222345699999999999999999 78999943 234799999999999999
Q ss_pred HHHHHh
Q 021188 127 QKQARQ 132 (316)
Q Consensus 127 ~k~~r~ 132 (316)
+-..|.
T Consensus 985 ~~~~~e 990 (1033)
T PLN03142 985 RLIEKE 990 (1033)
T ss_pred HHHHHH
Confidence 877554
No 42
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.42 E-value=0.015 Score=55.90 Aligned_cols=47 Identities=23% Similarity=0.450 Sum_probs=42.7
Q ss_pred cCCCCHHHHHHHHHHHHhcC-CChhhhhhcCCCCCHHHHHHHHHHHHH
Q 021188 81 RGNLTPQEQFLILELHSKWG-NRWSKIAQCLPGRTDNEIKNYWRTRVQ 127 (316)
Q Consensus 81 kg~WT~EED~~Ll~lv~~~G-~~W~~IA~~lpgRT~~q~knRW~~~l~ 127 (316)
-..|+..|+.+|++.....| ++|..||.++..|+...||.+|..+.-
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 34799999999999999999 899999999999999999999976543
No 43
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.30 E-value=0.0061 Score=46.40 Aligned_cols=49 Identities=24% Similarity=0.456 Sum_probs=40.2
Q ss_pred ccCCCCHHHHHHHHHHHHHhCC----------------CCcchhhccc----CCccccccccchhcccc
Q 021188 27 RRGPWTLEEDTLLTHYIHQHGE----------------GRWNMVAKCA----GLKRTGKSCRLRWLNYL 75 (316)
Q Consensus 27 kkg~WT~eED~~L~~lV~~~g~----------------~~W~~IA~~l----~~~Rt~~qcr~Rw~n~L 75 (316)
|+..||.+|.+.|+++|.+|.. .-|..|+..| +..|+..|++.+|.++.
T Consensus 1 R~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 1 RKPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 4678999999999999998731 1499999877 22799999999998764
No 44
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.20 E-value=0.006 Score=53.92 Aligned_cols=51 Identities=27% Similarity=0.562 Sum_probs=41.3
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCC------CcchhhcccCCccccccccchhccccCC
Q 021188 25 ELRRGPWTLEEDTLLTHYIHQHGEG------RWNMVAKCAGLKRTGKSCRLRWLNYLKP 77 (316)
Q Consensus 25 ~lkkg~WT~eED~~L~~lV~~~g~~------~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p 77 (316)
..|+..||.|||.+|.+.|.+|+.. -...++..+. |+..+|..||..++..
T Consensus 2 k~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vrk 58 (170)
T PRK13923 2 KTRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVRK 58 (170)
T ss_pred cchhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHHH
Confidence 3578999999999999999998653 2566677765 9999999999766653
No 45
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=93.07 E-value=0.17 Score=49.28 Aligned_cols=52 Identities=15% Similarity=0.321 Sum_probs=41.8
Q ss_pred cCCCCHHHHHHHHHHHHhc----------CCChhhhhhcC----CCCCHHHHHHHHHHHHHHHHHh
Q 021188 81 RGNLTPQEQFLILELHSKW----------GNRWSKIAQCL----PGRTDNEIKNYWRTRVQKQARQ 132 (316)
Q Consensus 81 kg~WT~EED~~Ll~lv~~~----------G~~W~~IA~~l----pgRT~~q~knRW~~~l~k~~r~ 132 (316)
...|+.+|-..||++..+. +..|..||+.+ .-||+.+||++|.++.++..+.
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~ 119 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKE 119 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Confidence 4689999999999998653 23499999865 3499999999999987776553
No 46
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=92.92 E-value=0.15 Score=50.33 Aligned_cols=86 Identities=15% Similarity=0.260 Sum_probs=64.3
Q ss_pred CcchhhcccCCccccccccchhccccCCC-------------------------CccCCCCHHHHHHHHHHHHhcCCChh
Q 021188 50 RWNMVAKCAGLKRTGKSCRLRWLNYLKPD-------------------------IKRGNLTPQEQFLILELHSKWGNRWS 104 (316)
Q Consensus 50 ~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~-------------------------lkkg~WT~EED~~Ll~lv~~~G~~W~ 104 (316)
.|..+.=..+ -|...-...||.+.-++. ++...||.+|-+-|++|++.|.-+|-
T Consensus 75 ~W~w~pFtn~-aRkD~~~l~HWvr~~d~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf~ 153 (445)
T KOG2656|consen 75 PWKWVPFTNS-ARKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRFF 153 (445)
T ss_pred CceeeccCCc-cccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeEE
Confidence 4655554444 566666666776653221 22356999999999999999999999
Q ss_pred hhhhc-----CCC-CCHHHHHHHHHHHHHHHHHhcCCC
Q 021188 105 KIAQC-----LPG-RTDNEIKNYWRTRVQKQARQLNIE 136 (316)
Q Consensus 105 ~IA~~-----lpg-RT~~q~knRW~~~l~k~~r~~~~~ 136 (316)
.||.. ++. ||-.++|.||+...++.++-....
T Consensus 154 VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~s 191 (445)
T KOG2656|consen 154 VIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARAPS 191 (445)
T ss_pred EEeeccchhhccccccHHHHHHHHHHHHHHHHHccCCC
Confidence 99976 655 999999999999999888765444
No 47
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=92.82 E-value=0.16 Score=42.46 Aligned_cols=54 Identities=24% Similarity=0.389 Sum_probs=42.2
Q ss_pred CCccCCCCHHHHHHHHHHHHhcCC----Chhhhhhc------------CCCCCHHHHHHHHHHHHHHHHH
Q 021188 78 DIKRGNLTPQEQFLILELHSKWGN----RWSKIAQC------------LPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 78 ~lkkg~WT~EED~~Ll~lv~~~G~----~W~~IA~~------------lpgRT~~q~knRW~~~l~k~~r 131 (316)
..++..||++||..|+-.+.+||- .|..|... +..||+..+..|...+++-..|
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~K 115 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIEK 115 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHHC
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHHH
Confidence 456779999999999999999995 69888653 2469999999999998876544
No 48
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=90.55 E-value=0.91 Score=45.85 Aligned_cols=48 Identities=21% Similarity=0.340 Sum_probs=43.4
Q ss_pred ccCCCCHHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHH
Q 021188 80 KRGNLTPQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQ 127 (316)
Q Consensus 80 kkg~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~ 127 (316)
....||.||-.++-++...||.++.+|.+.||.|+-..+..+|....+
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK 233 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKK 233 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHH
Confidence 456899999999999999999999999999999999999999876544
No 49
>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=89.74 E-value=0.78 Score=35.73 Aligned_cols=46 Identities=30% Similarity=0.572 Sum_probs=34.4
Q ss_pred CCCHHHHHHHHHHHHhc---CC----------ChhhhhhcC---C--CCCHHHHHHHHHHHHHH
Q 021188 83 NLTPQEQFLILELHSKW---GN----------RWSKIAQCL---P--GRTDNEIKNYWRTRVQK 128 (316)
Q Consensus 83 ~WT~EED~~Ll~lv~~~---G~----------~W~~IA~~l---p--gRT~~q~knRW~~~l~k 128 (316)
.||++++..|++++.+. |+ .|..|+..| + ..+..||++||..+.+.
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 49999999999998543 21 299998876 2 25778999999875554
No 50
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=88.81 E-value=0.62 Score=46.04 Aligned_cols=45 Identities=22% Similarity=0.316 Sum_probs=41.8
Q ss_pred CCCCHHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHH
Q 021188 82 GNLTPQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRV 126 (316)
Q Consensus 82 g~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l 126 (316)
.+|+.+|-++..++...+|..+..|+..+|.|.+.|||.+|.+--
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Ee 410 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEE 410 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHh
Confidence 379999999999999999999999999999999999999997543
No 51
>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=85.54 E-value=0.67 Score=38.73 Aligned_cols=34 Identities=21% Similarity=0.422 Sum_probs=29.2
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCC---CCcchhhccc
Q 021188 25 ELRRGPWTLEEDTLLTHYIHQHGE---GRWNMVAKCA 58 (316)
Q Consensus 25 ~lkkg~WT~eED~~L~~lV~~~g~---~~W~~IA~~l 58 (316)
.-++..||.+||..|+-.+.+||. +.|..|-..+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 677899999999999999999999 8999998765
No 52
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=85.23 E-value=0.56 Score=46.38 Aligned_cols=45 Identities=11% Similarity=0.257 Sum_probs=41.9
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhcc
Q 021188 27 RRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLN 73 (316)
Q Consensus 27 kkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n 73 (316)
.--+||.+|-+++..++...|. ++..|+..+| .|..+|++..|.+
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP-~R~RkqIKaKfi~ 408 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGT-DFSLISSLFP-NRERKQIKAKFIK 408 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcc-hHHHHHHhcC-chhHHHHHHHHHH
Confidence 4468999999999999999998 9999999999 9999999998875
No 53
>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=85.14 E-value=2.5 Score=29.43 Aligned_cols=42 Identities=29% Similarity=0.381 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHH
Q 021188 86 PQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQK 128 (316)
Q Consensus 86 ~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k 128 (316)
++++..++.++...|-.|.+||+.+ |.+...|+.+....+++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~~ 53 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARKK 53 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHhh
Confidence 4677888888899999999999999 99999999987765543
No 54
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=84.12 E-value=0.46 Score=46.21 Aligned_cols=48 Identities=27% Similarity=0.444 Sum_probs=38.0
Q ss_pred cCCCCHHHHHHHHHHHHHh----CCC-----Ccchhhccc---CCccccccccchhcccc
Q 021188 28 RGPWTLEEDTLLTHYIHQH----GEG-----RWNMVAKCA---GLKRTGKSCRLRWLNYL 75 (316)
Q Consensus 28 kg~WT~eED~~L~~lV~~~----g~~-----~W~~IA~~l---~~~Rt~~qcr~Rw~n~L 75 (316)
...|+.+|-..|+++..+. ..+ -|..||+.+ |..|++.||+.||.+..
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 3789999999999998653 222 499999844 45799999999997754
No 55
>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=77.87 E-value=1.4 Score=34.31 Aligned_cols=44 Identities=30% Similarity=0.582 Sum_probs=31.8
Q ss_pred CCCHHHHHHHHHHHHHh---CC----C-----CcchhhcccC----Cccccccccchhcc
Q 021188 30 PWTLEEDTLLTHYIHQH---GE----G-----RWNMVAKCAG----LKRTGKSCRLRWLN 73 (316)
Q Consensus 30 ~WT~eED~~L~~lV~~~---g~----~-----~W~~IA~~l~----~~Rt~~qcr~Rw~n 73 (316)
.||+++++.|++++... |. + .|..|++.|. ...+..||+.||..
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~ 60 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKT 60 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHH
Confidence 59999999999998654 21 1 3888887763 34567788888754
No 56
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=76.61 E-value=5.9 Score=42.43 Aligned_cols=45 Identities=16% Similarity=0.224 Sum_probs=41.2
Q ss_pred cCCCCHHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHH
Q 021188 81 RGNLTPQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTR 125 (316)
Q Consensus 81 kg~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~ 125 (316)
...||+.|-.+.-+++..|.+++-.|++.++++|-.+|-.+|+..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHH
Confidence 357999999999999999999999999999999999999887653
No 57
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=72.56 E-value=6.8 Score=41.12 Aligned_cols=53 Identities=17% Similarity=0.365 Sum_probs=44.3
Q ss_pred cCCCCHHHHHHHHHHHHhcCCChhhhhh----------cCCCCCHHHHHHHHHHHHHHHHHhc
Q 021188 81 RGNLTPQEQFLILELHSKWGNRWSKIAQ----------CLPGRTDNEIKNYWRTRVQKQARQL 133 (316)
Q Consensus 81 kg~WT~EED~~Ll~lv~~~G~~W~~IA~----------~lpgRT~~q~knRW~~~l~k~~r~~ 133 (316)
+..||-.|++-...+++++|.++.+|-. ...-+|-.|++.+|+..+++..+..
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~ 150 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLL 150 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhh
Confidence 5689999999999999999999999822 2334677899999999998887765
No 58
>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=71.46 E-value=15 Score=35.80 Aligned_cols=101 Identities=17% Similarity=0.220 Sum_probs=68.1
Q ss_pred CccccCCChhhhcCCccCCCCHHHHHHHHHHHHHhCCCC---cchhhcccCCccccccccchhccccCCCCccCCCCHHH
Q 021188 12 TKRECNSSEEDQQELRRGPWTLEEDTLLTHYIHQHGEGR---WNMVAKCAGLKRTGKSCRLRWLNYLKPDIKRGNLTPQE 88 (316)
Q Consensus 12 ~k~~~~~~~~~~~~lkkg~WT~eED~~L~~lV~~~g~~~---W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~lkkg~WT~EE 88 (316)
++|.-..++.. ....-..||.-|...|+++........ -.+|++.++ +|+..++++ |.+.|+
T Consensus 6 RrR~~PaRy~g-~~~gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~-fl~~LK------------ 70 (344)
T PF11035_consen 6 RRRAAPARYLG-EVTGPAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRD-FLQQLK------------ 70 (344)
T ss_pred CCCCCCccccC-CCCCcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHH-HHHHHH------------
Confidence 44445555544 334457899999999999988764333 457888898 999999887 344443
Q ss_pred HHHHHHHHHh-c-----CC------------ChhhhhhcCCCCCHHHHHHHHHHHHH
Q 021188 89 QFLILELHSK-W-----GN------------RWSKIAQCLPGRTDNEIKNYWRTRVQ 127 (316)
Q Consensus 89 D~~Ll~lv~~-~-----G~------------~W~~IA~~lpgRT~~q~knRW~~~l~ 127 (316)
+..+.+++++ | |. -|..+|+++.|.-...+-.-|-..|-
T Consensus 71 ~rvareaiqkv~~~g~~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 71 GRVAREAIQKVHPGGLKGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred HHHHHHHHHHhcccccccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 2334444444 1 11 19999999988888888877766553
No 59
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=70.66 E-value=14 Score=25.28 Aligned_cols=42 Identities=17% Similarity=0.232 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 87 QEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 87 EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
+++..++.++-..|..+..||+.| |-+...|+.+-...+++.
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~kL 48 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKKL 48 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHHh
Confidence 455556666666667899999999 889999999887776653
No 60
>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=70.25 E-value=4.4 Score=31.70 Aligned_cols=30 Identities=30% Similarity=0.589 Sum_probs=17.2
Q ss_pred cCCccCCCCHHHHHHH--------HHHHHHhCCCCcchhhc
Q 021188 24 QELRRGPWTLEEDTLL--------THYIHQHGEGRWNMVAK 56 (316)
Q Consensus 24 ~~lkkg~WT~eED~~L--------~~lV~~~g~~~W~~IA~ 56 (316)
|.-..|-||+|+|+.| .+++++|| +..|+.
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG---~~~i~~ 80 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHG---EERIER 80 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH----HHHHHH
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC---HHHHHH
Confidence 5556889999999999 46667777 355554
No 61
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=69.40 E-value=17 Score=36.15 Aligned_cols=45 Identities=16% Similarity=0.142 Sum_probs=39.5
Q ss_pred CCCCHHHHHHHHHHHHhcCCChhhhhh-cCCCCCHHHHHHHHHHHH
Q 021188 82 GNLTPQEQFLILELHSKWGNRWSKIAQ-CLPGRTDNEIKNYWRTRV 126 (316)
Q Consensus 82 g~WT~EED~~Ll~lv~~~G~~W~~IA~-~lpgRT~~q~knRW~~~l 126 (316)
..|+++|-...-+.++.||+++..|.+ +++.|+--.|-..|+...
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWK 323 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWK 323 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhh
Confidence 379999999999999999999999965 579999999998876543
No 62
>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=67.53 E-value=20 Score=34.98 Aligned_cols=51 Identities=25% Similarity=0.444 Sum_probs=38.8
Q ss_pred cCCCCHHHHHHHHHHHHhc-CC---ChhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 81 RGNLTPQEQFLILELHSKW-GN---RWSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 81 kg~WT~EED~~Ll~lv~~~-G~---~W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
...||.-|...|+++.+.. |. .-..|++.++||+..+|++.-..+..+.++
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rvar 75 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRVAR 75 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHHHH
Confidence 4579999999999888665 43 356889999999999999866654444443
No 63
>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=66.92 E-value=23 Score=27.24 Aligned_cols=69 Identities=13% Similarity=0.265 Sum_probs=43.8
Q ss_pred HHHHHHHHHhcCCChhhhhhcCCCCCHHHH---HH--------HHHHHHHHHHHhcCCCCCchHHHHHHhhhcCChhHHH
Q 021188 89 QFLILELHSKWGNRWSKIAQCLPGRTDNEI---KN--------YWRTRVQKQARQLNIESNSETFFEAVRCYWMPRLLQK 157 (316)
Q Consensus 89 D~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~---kn--------RW~~~l~k~~r~~~~~~~e~~~~~~i~~~~~p~~~~k 157 (316)
|..|..+....|..|.++|+.| |=+..+| +. +-...|+.=..+.|-......+..+++.-..-.+..+
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI~~i~~~~~~~~~eq~~~mL~~W~~r~g~~at~~~L~~AL~~i~r~Di~~~ 82 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDIDLIKAENPNSLAQQAQAMLKLWLEREGKKATGNSLEKALKKIGRDDIVEK 82 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHcChHHHHHH
Confidence 5667788899999999999999 5555433 22 2223444444455555666677777776555555544
Q ss_pred h
Q 021188 158 M 158 (316)
Q Consensus 158 ~ 158 (316)
+
T Consensus 83 ~ 83 (84)
T cd08317 83 C 83 (84)
T ss_pred h
Confidence 3
No 64
>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=66.59 E-value=3 Score=28.31 Aligned_cols=38 Identities=18% Similarity=0.268 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhcc
Q 021188 34 EEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLN 73 (316)
Q Consensus 34 eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n 73 (316)
+=|.+|+.++...+...|.+||+.+| =+...|+.|+..
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg--lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG--LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT--S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC--cCHHHHHHHHHH
Confidence 45889999999999889999999997 678888888753
No 65
>smart00595 MADF subfamily of SANT domain.
Probab=66.08 E-value=7.8 Score=29.64 Aligned_cols=26 Identities=31% Similarity=0.621 Sum_probs=21.9
Q ss_pred hhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 103 WSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 103 W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
|..||..| |-+..+|+.+|+++....
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~~y 55 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRDRY 55 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 99999999 559999999999865443
No 66
>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=64.78 E-value=12 Score=25.31 Aligned_cols=38 Identities=21% Similarity=0.321 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHhcCC-ChhhhhhcCCCCCHHHHHHHHHHH
Q 021188 87 QEQFLILELHSKWGN-RWSKIAQCLPGRTDNEIKNYWRTR 125 (316)
Q Consensus 87 EED~~Ll~lv~~~G~-~W~~IA~~lpgRT~~q~knRW~~~ 125 (316)
+=|.+|+.+.++-|. .|..||+.+ |=+...|..|++.+
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 458889998888885 699999999 99999999998763
No 67
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=61.48 E-value=4.3 Score=34.76 Aligned_cols=46 Identities=13% Similarity=0.071 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccCCCCc
Q 021188 33 LEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLKPDIK 80 (316)
Q Consensus 33 ~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~lk 80 (316)
.+-|.+|+++..+.|.-.|.+||+.+| -+...|+.|+.+....++-
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 357999999999999889999999997 8889999999877665543
No 68
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=60.41 E-value=4.9 Score=40.07 Aligned_cols=50 Identities=20% Similarity=0.296 Sum_probs=43.7
Q ss_pred cCCccCCCCHHHHHHHHHHHHHhCCCCcchhhcc-----cCCccccccccchhccc
Q 021188 24 QELRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKC-----AGLKRTGKSCRLRWLNY 74 (316)
Q Consensus 24 ~~lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~-----l~~~Rt~~qcr~Rw~n~ 74 (316)
..++-..||.+|-+-|.++.++|-- .|--||.+ ++..||-...++||..+
T Consensus 126 ~~l~dn~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 126 AHLNDNSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred HhhccccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHH
Confidence 4567788999999999999999997 89999988 67459999999999754
No 69
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=59.82 E-value=5.5 Score=42.65 Aligned_cols=44 Identities=18% Similarity=0.271 Sum_probs=40.0
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhc
Q 021188 27 RRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWL 72 (316)
Q Consensus 27 kkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~ 72 (316)
-...||+.|-.++.+++..|.. ++..|++.++ ++|.+||-+-|.
T Consensus 618 gSd~WTp~E~~lF~kA~y~~~K-DF~~v~km~~-~KtVaqCVeyYY 661 (907)
T KOG4167|consen 618 GSDKWTPLERKLFNKALYTYSK-DFIFVQKMVK-SKTVAQCVEYYY 661 (907)
T ss_pred CcccccHHHHHHHHHHHHHhcc-cHHHHHHHhc-cccHHHHHHHHH
Confidence 3568999999999999999997 9999999999 999999988664
No 70
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=59.70 E-value=18 Score=30.85 Aligned_cols=44 Identities=16% Similarity=0.058 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHhcCC-ChhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 87 QEQFLILELHSKWGN-RWSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 87 EED~~Ll~lv~~~G~-~W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
+-|.+|+.+.++-|. .|+.||+.+ |-+...|+.|++.+....+-
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCe
Confidence 568899998888884 799999999 99999999999887765533
No 71
>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=59.36 E-value=55 Score=25.56 Aligned_cols=61 Identities=11% Similarity=0.133 Sum_probs=38.3
Q ss_pred HHHHHHHHHhcCCChhhhhhcCCCCCHHHHHH---HH--------HHHHHHHHHhcCCCCCchHHHHHHhhhc
Q 021188 89 QFLILELHSKWGNRWSKIAQCLPGRTDNEIKN---YW--------RTRVQKQARQLNIESNSETFFEAVRCYW 150 (316)
Q Consensus 89 D~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~kn---RW--------~~~l~k~~r~~~~~~~e~~~~~~i~~~~ 150 (316)
|.+|..+....|..|..+|+.| |=+...|.. .+ ...|+.=..+.|.....+.+..++..-.
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI~~i~~e~p~~~~~q~~~lL~~W~~r~g~~At~~~L~~aL~~i~ 75 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEINQIRVENPNSLIAQSFMLLKKWVTRDGKNATTDALTSVLTKIN 75 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHCC
Confidence 6778888899999999999999 655554433 22 2233333344445555556666665433
No 72
>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=59.22 E-value=49 Score=25.70 Aligned_cols=58 Identities=19% Similarity=0.265 Sum_probs=35.1
Q ss_pred HHHHhcCCChhhhhhcCCCCCHHHHH----------HHHHHHHHHHHHhcCCCCCchHHHHHHhhhcCC
Q 021188 94 ELHSKWGNRWSKIAQCLPGRTDNEIK----------NYWRTRVQKQARQLNIESNSETFFEAVRCYWMP 152 (316)
Q Consensus 94 ~lv~~~G~~W~~IA~~lpgRT~~q~k----------nRW~~~l~k~~r~~~~~~~e~~~~~~i~~~~~p 152 (316)
.+....|..|..+|+.| |-+..+|. .+-...|+.=..+.|-...-+.+..+++...+.
T Consensus 12 ~ia~~iG~~Wk~Lar~L-Gls~~dI~~i~~~~~~~~eq~~~mL~~W~~r~g~~AT~~~L~~aL~~~~~~ 79 (86)
T cd08318 12 VFANKLGEDWKTLAPHL-EMKDKEIRAIESDSEDIKMQAKQLLVAWQDREGSQATPETLITALNAAGLN 79 (86)
T ss_pred HHHHHHhhhHHHHHHHc-CCCHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCccccHHHHHHHHHHcCcH
Confidence 35588899999999999 66665543 233344444444545445555566666554433
No 73
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=58.55 E-value=25 Score=28.92 Aligned_cols=40 Identities=18% Similarity=0.151 Sum_probs=29.6
Q ss_pred HHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 89 QFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 89 D~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
+..++.+.-..|-.+.+||+.+ |.+...|+.+....+++.
T Consensus 118 ~r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~L 157 (161)
T TIGR02985 118 CRKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKEL 157 (161)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3344444444577899999998 999999999988865544
No 74
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=58.02 E-value=20 Score=32.72 Aligned_cols=44 Identities=16% Similarity=0.280 Sum_probs=34.5
Q ss_pred CCCHHHHHHHHHHHHhcCCChhhhhhcC---CCCCHHHHHHHHHHHHH
Q 021188 83 NLTPQEQFLILELHSKWGNRWSKIAQCL---PGRTDNEIKNYWRTRVQ 127 (316)
Q Consensus 83 ~WT~EED~~Ll~lv~~~G~~W~~IA~~l---pgRT~~q~knRW~~~l~ 127 (316)
.|++++|..|+.+|.. |+.-..|+..+ -.-|-..|..||+.++-
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~lly 47 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLY 47 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHc
Confidence 4999999999998865 56666666543 45788999999998774
No 75
>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=57.90 E-value=8.7 Score=29.99 Aligned_cols=17 Identities=29% Similarity=0.495 Sum_probs=10.1
Q ss_pred CCCccCCCCHHHHHHHH
Q 021188 77 PDIKRGNLTPQEQFLIL 93 (316)
Q Consensus 77 p~lkkg~WT~EED~~Ll 93 (316)
|....|-||+|+|+.|.
T Consensus 43 P~n~~GiWT~eDD~~L~ 59 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLR 59 (87)
T ss_dssp -TT-TT---HHHHHHHT
T ss_pred CCCCCCCcCHHHHHHHH
Confidence 55678899999999984
No 76
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=56.11 E-value=20 Score=31.05 Aligned_cols=45 Identities=13% Similarity=0.000 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHhcCC-ChhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 86 PQEQFLILELHSKWGN-RWSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 86 ~EED~~Ll~lv~~~G~-~W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
.+-|.+|+.+.++-|. .|..||+.+ |=+...|+.|++.+.+..+-
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI 58 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFI 58 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCe
Confidence 4568899988888884 799999999 99999999999887766543
No 77
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=55.89 E-value=13 Score=39.00 Aligned_cols=49 Identities=16% Similarity=0.317 Sum_probs=36.5
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCC---------ccccccccchhccccC
Q 021188 27 RRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGL---------KRTGKSCRLRWLNYLK 76 (316)
Q Consensus 27 kkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~---------~Rt~~qcr~Rw~n~L~ 76 (316)
+|..||..|.+.+..+++++|. ++.+|-+.+-- -+|..|+|.+|.+.+.
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~ 144 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVR 144 (782)
T ss_pred cccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHH
Confidence 3678999999999999999998 89888332210 3456778887766543
No 78
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=55.67 E-value=4.9 Score=34.86 Aligned_cols=46 Identities=13% Similarity=0.073 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccCCCCc
Q 021188 33 LEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLKPDIK 80 (316)
Q Consensus 33 ~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~lk 80 (316)
.+-|.+|+.+..+.|.-.|.+||+.+| -+...|+.|+.+..+.++-
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~GvI 58 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGFI 58 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 567999999999999889999999997 7888899999887666543
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=55.45 E-value=56 Score=25.47 Aligned_cols=60 Identities=12% Similarity=0.276 Sum_probs=38.1
Q ss_pred HHHHHHHHHhcCCChhhhhhcCCCCCHHHHHH---H--------HHHHHHHHHHhcCCCCCchHHHHHHhhh
Q 021188 89 QFLILELHSKWGNRWSKIAQCLPGRTDNEIKN---Y--------WRTRVQKQARQLNIESNSETFFEAVRCY 149 (316)
Q Consensus 89 D~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~kn---R--------W~~~l~k~~r~~~~~~~e~~~~~~i~~~ 149 (316)
|..|..+....|..|..+|++| |=|..+|.. . -...|.+=..+.|....-+.+..+++..
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I~~i~~~~p~~l~eQv~~mL~~W~~r~G~~ATv~~L~~aL~~~ 72 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDIYRCKENHPHNVQSQIVEALVKWRQRFGKKATVQSLIQSLKAV 72 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHc
Confidence 5678889999999999999999 655544322 1 1223333333445556666677776643
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=52.53 E-value=25 Score=27.12 Aligned_cols=39 Identities=15% Similarity=0.347 Sum_probs=27.9
Q ss_pred HHHHHHHHhcCC--------ChhhhhhcCCC-C--C--HHHHHHHHHHHHHH
Q 021188 90 FLILELHSKWGN--------RWSKIAQCLPG-R--T--DNEIKNYWRTRVQK 128 (316)
Q Consensus 90 ~~Ll~lv~~~G~--------~W~~IA~~lpg-R--T--~~q~knRW~~~l~k 128 (316)
-+|..+|.+.|+ .|..||+.|.- . + ..++|..|..+|.+
T Consensus 39 ~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 39 YKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 456777777774 59999999822 1 1 36789888887754
No 81
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=51.74 E-value=17 Score=38.17 Aligned_cols=45 Identities=22% Similarity=0.327 Sum_probs=41.6
Q ss_pred cCCCCHHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHH
Q 021188 81 RGNLTPQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTR 125 (316)
Q Consensus 81 kg~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~ 125 (316)
.++|+.+|-++.-....+.|.+.+.|+..+|+|...|||.++..-
T Consensus 409 ~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~e 453 (584)
T KOG2009|consen 409 TDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKE 453 (584)
T ss_pred cCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhh
Confidence 468999999999999999999999999999999999999988653
No 82
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=51.58 E-value=38 Score=26.41 Aligned_cols=42 Identities=17% Similarity=0.362 Sum_probs=30.9
Q ss_pred HHHHHHHHhcCC--------ChhhhhhcCCC-----CCHHHHHHHHHHHHHHHHH
Q 021188 90 FLILELHSKWGN--------RWSKIAQCLPG-----RTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 90 ~~Ll~lv~~~G~--------~W~~IA~~lpg-----RT~~q~knRW~~~l~k~~r 131 (316)
-+|..+|.+.|+ .|..||+.|.- ....++|..|..+|.+.-+
T Consensus 35 ~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~yE~ 89 (93)
T smart00501 35 YRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPFER 89 (93)
T ss_pred HHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHHHH
Confidence 457777777775 59999999832 2357889999988876544
No 83
>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=51.47 E-value=17 Score=26.95 Aligned_cols=29 Identities=24% Similarity=0.492 Sum_probs=22.5
Q ss_pred hhhhhhcCC-CCCHHHHHHHHHHHHHHHHH
Q 021188 103 WSKIAQCLP-GRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 103 W~~IA~~lp-gRT~~q~knRW~~~l~k~~r 131 (316)
|..||..|. .-+...|+.||.++.....+
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~~y~~ 58 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRDRYRR 58 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHHHHHH
Confidence 999999994 36788999999986654433
No 84
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=49.83 E-value=19 Score=40.87 Aligned_cols=76 Identities=22% Similarity=0.302 Sum_probs=48.8
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccCCCCccCCCCHHHHHHHHHHHHhc-CCChhh
Q 021188 27 RRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLKPDIKRGNLTPQEQFLILELHSKW-GNRWSK 105 (316)
Q Consensus 27 kkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~lkkg~WT~EED~~Ll~lv~~~-G~~W~~ 105 (316)
.---|..+||..|+-.|-+||.|+|..|-.--.++=+.+ ..+...+-.+.+=..+-..|+.+...+ +.+|.+
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~l~dK-------i~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~ 1204 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLGLTDK-------IFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPK 1204 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccCccccchhh-------hcccccCCchHHHHHHHHHHHHHHhhcccCCCch
Confidence 456799999999999999999999999864322122221 112212334556666677777777766 455655
Q ss_pred hhhc
Q 021188 106 IAQC 109 (316)
Q Consensus 106 IA~~ 109 (316)
..+.
T Consensus 1205 ~~~~ 1208 (1373)
T KOG0384|consen 1205 KLKR 1208 (1373)
T ss_pred hhhc
Confidence 4433
No 85
>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=49.55 E-value=18 Score=31.75 Aligned_cols=39 Identities=23% Similarity=0.177 Sum_probs=33.0
Q ss_pred CCCHHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHH
Q 021188 83 NLTPQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYW 122 (316)
Q Consensus 83 ~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW 122 (316)
.||+|+.++|.+|..+ |..=.+||+.|.|.|.++|.-+-
T Consensus 2 ~Wtde~~~~L~~lw~~-G~SasqIA~~lg~vsRnAViGk~ 40 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GLSASQIARQLGGVSRNAVIGKA 40 (162)
T ss_pred CCCHHHHHHHHHHHHc-CCCHHHHHHHhCCcchhhhhhhh
Confidence 5999999999988754 77889999999779999887544
No 86
>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=48.50 E-value=41 Score=26.80 Aligned_cols=36 Identities=25% Similarity=0.265 Sum_probs=27.0
Q ss_pred HHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 93 LELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 93 l~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
+.++...|..+..||+.+ |-+...|+++....+++.
T Consensus 119 i~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~kl 154 (158)
T TIGR02937 119 LVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKKL 154 (158)
T ss_pred HhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 334434577899999999 779999999888765553
No 87
>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=47.29 E-value=34 Score=26.64 Aligned_cols=69 Identities=16% Similarity=0.128 Sum_probs=39.8
Q ss_pred HHHHHHHHhcCCChhhhhhcCCCCCH---HHHHHHH--------HHHHHHHHHhc-CCCCCchHHHHHHhhhcCChhHHH
Q 021188 90 FLILELHSKWGNRWSKIAQCLPGRTD---NEIKNYW--------RTRVQKQARQL-NIESNSETFFEAVRCYWMPRLLQK 157 (316)
Q Consensus 90 ~~Ll~lv~~~G~~W~~IA~~lpgRT~---~q~knRW--------~~~l~k~~r~~-~~~~~e~~~~~~i~~~~~p~~~~k 157 (316)
..|..+..+.|..|..+|++| |=+. ..|+.++ ...|+.=..+. +....-..+..++.......+..+
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L-Glse~~Id~Ie~~~~~dl~eq~~~mL~~W~~~~~~~~atv~~L~~AL~~~gr~dlae~ 81 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL-GLSYRELQRIKYNNRDDLDEQIFDMLFSWAQRQAGDPDAVGKLVTALEESGRQDLADE 81 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc-CCCHHHHHHHHHHCccCHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHcCHHHHHHH
Confidence 467888899999999999998 3222 2344444 23333222222 222223456667666655555555
Q ss_pred hh
Q 021188 158 ME 159 (316)
Q Consensus 158 ~~ 159 (316)
++
T Consensus 82 l~ 83 (86)
T cd08779 82 VR 83 (86)
T ss_pred HH
Confidence 54
No 88
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=45.88 E-value=47 Score=29.10 Aligned_cols=42 Identities=21% Similarity=0.166 Sum_probs=31.7
Q ss_pred HHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHH
Q 021188 88 EQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQA 130 (316)
Q Consensus 88 ED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~ 130 (316)
+..+++.+..-.|-.+.+||+.| |-+...|+.+|........
T Consensus 139 ~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR~~l~ 180 (185)
T PF07638_consen 139 RQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRARAWLR 180 (185)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHH
Confidence 33455555555677899999999 9999999999987654443
No 89
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=44.46 E-value=12 Score=42.06 Aligned_cols=34 Identities=18% Similarity=0.384 Sum_probs=29.3
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCcchhhccc
Q 021188 25 ELRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCA 58 (316)
Q Consensus 25 ~lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l 58 (316)
.-++..||.|||..|+-.+.+||.++|.+|-..+
T Consensus 923 ~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i 956 (1033)
T PLN03142 923 QNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAF 956 (1033)
T ss_pred CCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHH
Confidence 3445669999999999999999999999997665
No 90
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=44.39 E-value=1.2e+02 Score=23.59 Aligned_cols=66 Identities=18% Similarity=0.287 Sum_probs=40.3
Q ss_pred HHHHHhcCCChhhhhhcCCCCCHHHHH-----------HHHHHHHHHHHHhcCCCCCchHHHHHHhhhcCChhHHHhh
Q 021188 93 LELHSKWGNRWSKIAQCLPGRTDNEIK-----------NYWRTRVQKQARQLNIESNSETFFEAVRCYWMPRLLQKME 159 (316)
Q Consensus 93 l~lv~~~G~~W~~IA~~lpgRT~~q~k-----------nRW~~~l~k~~r~~~~~~~e~~~~~~i~~~~~p~~~~k~~ 159 (316)
--+....|..|..+|+.| |=+..+|. ..-...|+.=..+.|-...-..+..+++.-.+.....+++
T Consensus 6 ~~i~~~lG~~Wk~laR~L-Glse~~Id~i~~~~~~~~~eq~~~mL~~W~~~~g~~At~~~L~~aL~~~~l~~~ad~i~ 82 (86)
T cd08306 6 DVICENVGRDWRKLARKL-GLSETKIESIEEAHPRNLREQVRQSLREWKKIKKKEAKVADLIKALRDCQLNLVADLVE 82 (86)
T ss_pred HHHHHHHhhhHHHHHHHc-CCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHhHCcchHHHHHHHHHHHcCcHHHHHHHH
Confidence 344566799999999998 55555443 2233444444445555555567888887766655544444
No 91
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=44.30 E-value=44 Score=28.12 Aligned_cols=36 Identities=14% Similarity=0.129 Sum_probs=26.8
Q ss_pred HHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 95 LHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 95 lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
+....|-.+..||+.| |.+...|+.+....+++..+
T Consensus 139 l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~Lr~ 174 (182)
T PRK09652 139 LREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREALRA 174 (182)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 3344567899999999 89999999887765554433
No 92
>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=44.12 E-value=52 Score=25.75 Aligned_cols=59 Identities=12% Similarity=0.179 Sum_probs=37.3
Q ss_pred HHHHHHHHHhcCCChhhhhhcCCCCCH---HHHHHHH--------HHHHHHHHHhcCCCCCchHHHHHHhh
Q 021188 89 QFLILELHSKWGNRWSKIAQCLPGRTD---NEIKNYW--------RTRVQKQARQLNIESNSETFFEAVRC 148 (316)
Q Consensus 89 D~~Ll~lv~~~G~~W~~IA~~lpgRT~---~q~knRW--------~~~l~k~~r~~~~~~~e~~~~~~i~~ 148 (316)
|.+|..+....|..|..+|+.| |=+. ..|+..+ ...|+.=..+.|.....+.+..+++.
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L-~vs~~dI~~I~~e~p~~l~~Q~~~~L~~W~~r~g~~At~~~L~~AL~~ 73 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL-QFSVEDINRIRVENPNSLLEQSTALLNLWVDREGENAKMSPLYPALYS 73 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc-CCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHhcCccchHHHHHHHHHH
Confidence 5677788899999999999998 4333 3334333 33444444455555555666666654
No 93
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=42.78 E-value=19 Score=36.78 Aligned_cols=46 Identities=15% Similarity=0.219 Sum_probs=40.5
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhcc
Q 021188 26 LRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLN 73 (316)
Q Consensus 26 lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n 73 (316)
-....||.||--++.++...||. ++.+|-+.|+ .|+-.+++.-|..
T Consensus 185 ~~~d~WT~Ed~vlFe~aF~~~GK-~F~kIrq~LP-~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 185 EFPDEWTAEDIVLFEQAFQFFGK-DFHKIRQALP-HRSLASLVQYYYS 230 (534)
T ss_pred CCcccchHHHHHHHHHHHHHhcc-cHHHHHHHcc-CccHHHHHHHHHH
Confidence 45678999999999999999998 9999999999 9999888876543
No 94
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=42.17 E-value=47 Score=26.62 Aligned_cols=49 Identities=14% Similarity=0.172 Sum_probs=31.7
Q ss_pred CCCCHHHHHHHHHHHHhc----CC----Chhhh----hhcC-CCCCHHHHHHHHHHHHHHHH
Q 021188 82 GNLTPQEQFLILELHSKW----GN----RWSKI----AQCL-PGRTDNEIKNYWRTRVQKQA 130 (316)
Q Consensus 82 g~WT~EED~~Ll~lv~~~----G~----~W~~I----A~~l-pgRT~~q~knRW~~~l~k~~ 130 (316)
..||+|++..||+.+..| |. .|..+ ...+ ..=+..|+..+-+.+.++..
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~ 66 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYR 66 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHH
Confidence 469999999999998666 62 35443 3333 22366777777666555443
No 95
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=41.56 E-value=76 Score=26.98 Aligned_cols=45 Identities=18% Similarity=0.161 Sum_probs=33.0
Q ss_pred HHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHHhcCCC
Q 021188 91 LILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQARQLNIE 136 (316)
Q Consensus 91 ~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r~~~~~ 136 (316)
.++.+....|-...+||+.| |.+...|+.+-..-+++.......+
T Consensus 126 ~v~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~~~~l~~~ 170 (172)
T PRK12523 126 AAFLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQCYIALYGE 170 (172)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHhcCC
Confidence 33444444567899999999 9999999999887777665554443
No 96
>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=41.24 E-value=1.2e+02 Score=23.48 Aligned_cols=31 Identities=19% Similarity=0.384 Sum_probs=24.8
Q ss_pred HHHHHHHHHhcCCChhhhhhcCCCCCHHHHHH
Q 021188 89 QFLILELHSKWGNRWSKIAQCLPGRTDNEIKN 120 (316)
Q Consensus 89 D~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~kn 120 (316)
|..|..+....|.+|..+|+.| |=+...|.+
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 5667778889999999999999 666666554
No 97
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=38.96 E-value=78 Score=27.12 Aligned_cols=35 Identities=11% Similarity=0.104 Sum_probs=27.4
Q ss_pred hcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHHhc
Q 021188 98 KWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQARQL 133 (316)
Q Consensus 98 ~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r~~ 133 (316)
-.|....+||..| |-+...|+.+....+++..+..
T Consensus 145 ~~g~s~~eIA~~l-~is~~tV~~~l~ra~~~Lr~~l 179 (184)
T PRK12512 145 VEGASIKETAAKL-SMSEGAVRVALHRGLAALAAKF 179 (184)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHHh
Confidence 3467789999999 9999999999887666655443
No 98
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=38.50 E-value=69 Score=26.80 Aligned_cols=31 Identities=26% Similarity=0.230 Sum_probs=24.6
Q ss_pred hcCCChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 98 KWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 98 ~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
..|-....||+.| |-+...|+++.....++.
T Consensus 139 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~l 169 (179)
T PRK11924 139 VEGLSYREIAEIL-GVPVGTVKSRLRRARQLL 169 (179)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3467899999999 899999999887755443
No 99
>PRK04217 hypothetical protein; Provisional
Probab=37.90 E-value=86 Score=25.82 Aligned_cols=47 Identities=19% Similarity=0.109 Sum_probs=37.0
Q ss_pred CCCCHHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHH
Q 021188 82 GNLTPQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQA 130 (316)
Q Consensus 82 g~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~ 130 (316)
..-|.+| ..++.+....|-...+||+.+ |-+...|+.++....++..
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkkLr 87 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKKVA 87 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHH
Confidence 3466666 577777777788999999999 9999999999987655543
No 100
>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=37.20 E-value=26 Score=30.56 Aligned_cols=48 Identities=19% Similarity=0.263 Sum_probs=36.1
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCC---ccccccccchhccc
Q 021188 26 LRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGL---KRTGKSCRLRWLNY 74 (316)
Q Consensus 26 lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~---~Rt~~qcr~Rw~n~ 74 (316)
.+..+=|..|.+-|..||++||. ++...+.-.-+ ..|..||+.+...+
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGd-Dy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGD-DYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCc-cHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 46677899999999999999997 88888864321 36777777665543
No 101
>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=37.17 E-value=88 Score=20.14 Aligned_cols=40 Identities=18% Similarity=0.253 Sum_probs=27.2
Q ss_pred CCHHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHH
Q 021188 84 LTPQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTR 125 (316)
Q Consensus 84 WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~ 125 (316)
++++ +..++.++...|..+..||..+ |-+...|+.+....
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 3344 4555555555677899999998 77777777665543
No 102
>PLN03162 golden-2 like transcription factor; Provisional
Probab=37.14 E-value=2.2e+02 Score=28.61 Aligned_cols=47 Identities=15% Similarity=0.095 Sum_probs=38.5
Q ss_pred cCCCCHHHHHHHHHHHHhcCC---ChhhhhhcC--CCCCHHHHHHHHHHHHH
Q 021188 81 RGNLTPQEQFLILELHSKWGN---RWSKIAQCL--PGRTDNEIKNYWRTRVQ 127 (316)
Q Consensus 81 kg~WT~EED~~Ll~lv~~~G~---~W~~IA~~l--pgRT~~q~knRW~~~l~ 127 (316)
|-.||+|=.++.+++|.++|. .=+.|-+.| +|=|...|+.|.+.+.-
T Consensus 237 RLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl 288 (526)
T PLN03162 237 KVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRS 288 (526)
T ss_pred cccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHH
Confidence 457999999999999999994 357777776 88999999998766543
No 103
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=37.04 E-value=78 Score=27.65 Aligned_cols=36 Identities=17% Similarity=0.150 Sum_probs=26.7
Q ss_pred HHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHH
Q 021188 92 ILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQK 128 (316)
Q Consensus 92 Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k 128 (316)
++.+....|....+||..| |-+...|++|....+++
T Consensus 142 i~~l~~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~~ 177 (192)
T PRK09643 142 ALVAVDMQGYSVADAARML-GVAEGTVKSRCARGRAR 177 (192)
T ss_pred HHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3333344577899999999 99999999998654443
No 104
>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=36.78 E-value=25 Score=30.83 Aligned_cols=39 Identities=15% Similarity=0.075 Sum_probs=29.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchh
Q 021188 30 PWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRW 71 (316)
Q Consensus 30 ~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw 71 (316)
.||.|+.++|.++..+.- .=.+||+.|| +.+...+.-+-
T Consensus 2 ~Wtde~~~~L~~lw~~G~--SasqIA~~lg-~vsRnAViGk~ 40 (162)
T PF07750_consen 2 SWTDERVERLRKLWAEGL--SASQIARQLG-GVSRNAVIGKA 40 (162)
T ss_pred CCCHHHHHHHHHHHHcCC--CHHHHHHHhC-Ccchhhhhhhh
Confidence 599999999999986533 4689999999 55555554443
No 105
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=34.92 E-value=74 Score=24.95 Aligned_cols=42 Identities=17% Similarity=0.137 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHhcCC-ChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 87 QEQFLILELHSKWGN-RWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 87 EED~~Ll~lv~~~G~-~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
+.|.+|+.+..+.|. .+..||+.+ |-+...|+.+...+.+..
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g 45 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEG 45 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCC
Confidence 568888888888874 799999999 999999999988877654
No 106
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=34.65 E-value=26 Score=36.78 Aligned_cols=48 Identities=15% Similarity=0.378 Sum_probs=43.4
Q ss_pred cCCccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhcc
Q 021188 24 QELRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLN 73 (316)
Q Consensus 24 ~~lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n 73 (316)
++...++|+.+|-++...+....|. +...|+..++ .|..+|++..+..
T Consensus 405 k~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p-~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 405 KKLETDKWDASETELFYKALSERGS-DFSLISNLFP-LRDRKQIKAKFKK 452 (584)
T ss_pred CccccCcccchhhHHhhhHHhhhcc-cccccccccc-cccHHHHHHHHhh
Confidence 4567899999999999999999998 9999999999 9999999987753
No 107
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=34.60 E-value=76 Score=23.91 Aligned_cols=29 Identities=21% Similarity=0.439 Sum_probs=20.7
Q ss_pred HHHHHHHHHHh-cCCChhhhhhcCCCCCHHH
Q 021188 88 EQFLILELHSK-WGNRWSKIAQCLPGRTDNE 117 (316)
Q Consensus 88 ED~~Ll~lv~~-~G~~W~~IA~~lpgRT~~q 117 (316)
-+..|..++.. .|..|..+|++| |=+..+
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~L-g~~~~~ 33 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKL-GLSEAD 33 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHc-CCCHHH
Confidence 34566666777 899999999999 434443
No 108
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=34.44 E-value=81 Score=26.88 Aligned_cols=31 Identities=10% Similarity=-0.019 Sum_probs=24.3
Q ss_pred cCCChhhhhhcCCCCCHHHHHHHHHHHHHHHH
Q 021188 99 WGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQA 130 (316)
Q Consensus 99 ~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~ 130 (316)
.|.....||..| |-+...|+++.....++..
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar~~Lr 181 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREALR 181 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 466799999999 8999999998776555443
No 109
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoE. This protein may be called sigma-24, sigma-E factor, sigma-H factor, fecI-like sigma factor or alternative sigma factor AlgU.
Probab=32.35 E-value=75 Score=27.17 Aligned_cols=32 Identities=13% Similarity=0.059 Sum_probs=24.6
Q ss_pred cCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 99 WGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 99 ~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
.|....+||..| |-+...|+++....+++..+
T Consensus 153 ~~~s~~EIA~~l-gis~~tv~~~l~rar~~Lr~ 184 (190)
T TIGR02939 153 EGLSYEDIARIM-DCPVGTVRSRIFRAREAIAI 184 (190)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHH
Confidence 356789999999 88899999988775555433
No 110
>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=32.20 E-value=1e+02 Score=26.00 Aligned_cols=33 Identities=15% Similarity=0.320 Sum_probs=25.2
Q ss_pred hcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 98 KWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 98 ~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
..|-....||+.| |-+...|+++....+++..+
T Consensus 133 ~~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~Lr~ 165 (169)
T TIGR02954 133 YHDLTIKEIAEVM-NKPEGTVKTYLHRALKKLKK 165 (169)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 3456789999999 88999999988876655443
No 111
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=31.53 E-value=1.2e+02 Score=26.05 Aligned_cols=36 Identities=19% Similarity=0.100 Sum_probs=28.9
Q ss_pred HHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHHh
Q 021188 96 HSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQARQ 132 (316)
Q Consensus 96 v~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r~ 132 (316)
....|-...+||..| |-+...|+.|....+++...+
T Consensus 139 ~~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~~ 174 (178)
T PRK12529 139 ATLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLSL 174 (178)
T ss_pred HHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHh
Confidence 334467899999999 999999999988877776554
No 112
>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=30.64 E-value=54 Score=25.19 Aligned_cols=33 Identities=30% Similarity=0.458 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHH
Q 021188 86 PQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKN 120 (316)
Q Consensus 86 ~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~kn 120 (316)
.||-++|+.. -..|.+|..+|..| |=+...|++
T Consensus 2 ~~~v~~ll~~-~nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLES-GRPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhC-CCCccCHHHHHHHc-CCCHHHHHH
Confidence 5788888832 25678999999999 777776655
No 113
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=30.54 E-value=92 Score=25.50 Aligned_cols=45 Identities=20% Similarity=0.290 Sum_probs=31.4
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhcccc
Q 021188 27 RRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYL 75 (316)
Q Consensus 27 kkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L 75 (316)
++..||.|+-..++..+...|. .=..||+.++. +. +-..+|.+.+
T Consensus 9 ~rr~ys~EfK~~aV~~~~~~g~-sv~evA~e~gI--s~-~tl~~W~r~y 53 (121)
T PRK09413 9 KRRRRTTQEKIAIVQQSFEPGM-TVSLVARQHGV--AA-SQLFLWRKQY 53 (121)
T ss_pred CCCCCCHHHHHHHHHHHHcCCC-CHHHHHHHHCc--CH-HHHHHHHHHH
Confidence 4678999998877777766665 66799999883 33 3345576644
No 114
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=30.28 E-value=1.2e+02 Score=26.40 Aligned_cols=33 Identities=15% Similarity=0.067 Sum_probs=25.3
Q ss_pred hcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 98 KWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 98 ~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
-.|-...+||..| |-+...|+.|....+++..+
T Consensus 155 ~eg~s~~EIA~~l-gis~~tVk~rl~ra~~~Lr~ 187 (194)
T PRK12531 155 LEELPHQQVAEMF-DIPLGTVKSRLRLAVEKLRH 187 (194)
T ss_pred HcCCCHHHHHHHh-CcCHHHHHHHHHHHHHHHHH
Confidence 3466789999999 99999999987766655443
No 115
>cd08780 Death_TRADD Death Domain of Tumor Necrosis Factor Receptor 1-Associated Death Domain protein. Death domain (DD) of TRADD (TNF Receptor 1-Associated Death Domain or TNFRSF1A-associated via death domain) protein. TRADD is a central signaling adaptor for TNF-receptor 1 (TNFR1), mediating activation of Nuclear Factor -kappaB (NF-kB) and c-Jun N-terminal kinase (JNK), as well as caspase-dependent apoptosis. It also carries important immunological roles including germinal center formation, DR3-mediated T-cell stimulation, and TNFalpha-mediated inflammatory responses. 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 s
Probab=30.08 E-value=1e+02 Score=24.64 Aligned_cols=58 Identities=9% Similarity=0.173 Sum_probs=33.8
Q ss_pred HHHHhcCCChhhhhhcCCC-----CCHHH------------HHHHHHHHHHHHHHhcCCCCCchHHHHHHhhhcCC
Q 021188 94 ELHSKWGNRWSKIAQCLPG-----RTDNE------------IKNYWRTRVQKQARQLNIESNSETFFEAVRCYWMP 152 (316)
Q Consensus 94 ~lv~~~G~~W~~IA~~lpg-----RT~~q------------~knRW~~~l~k~~r~~~~~~~e~~~~~~i~~~~~p 152 (316)
.+....|.+|+.+++.| | =++.+ +..+=+..|++-....|-...-.+++.++..-.+.
T Consensus 7 ~~~~nvGr~WK~laR~L-g~~cral~d~~ID~I~~~y~r~gL~EqvyQ~L~~W~~~eg~~Atv~~Lv~AL~~c~l~ 81 (90)
T cd08780 7 HFAKSVGKKWKPVGRSL-QKNCRALRDPAIDNLAYEYDREGLYEQAYQLLRRFIQSEGKKATLQRLVQALEENGLT 81 (90)
T ss_pred HHHHHHhHHHHHHHHHH-cccccccchhHHHHHHhhcccccHHHHHHHHHHHHHHhccccchHHHHHHHHHHccch
Confidence 44567899999999999 4 22222 33333444554444455555556666666654443
No 116
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=30.01 E-value=1.2e+02 Score=25.57 Aligned_cols=32 Identities=19% Similarity=0.169 Sum_probs=24.5
Q ss_pred hcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHH
Q 021188 98 KWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQA 130 (316)
Q Consensus 98 ~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~ 130 (316)
-.|-.-.+||+.| |.+...|+.|....+++..
T Consensus 132 ~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~Lr 163 (173)
T PRK09645 132 YRGWSTAQIAADL-GIPEGTVKSRLHYALRALR 163 (173)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHH
Confidence 3466789999999 9999999998876554433
No 117
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=29.95 E-value=32 Score=27.09 Aligned_cols=44 Identities=14% Similarity=0.087 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccCCCC
Q 021188 34 EEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLKPDI 79 (316)
Q Consensus 34 eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~l 79 (316)
+.|.+++.++.+.+.-.+.+||+.++ -+...|+.|.....+.++
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l~--~s~~tv~~~l~~L~~~g~ 46 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKVG--LSPSTVHNRVKRLEEEGV 46 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 57889999999988778999999987 788888888776655443
No 118
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=29.73 E-value=1.2e+02 Score=25.20 Aligned_cols=32 Identities=9% Similarity=0.039 Sum_probs=24.6
Q ss_pred HhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 97 SKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 97 ~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
...|-.-..||..| |-+...|+.|....+++.
T Consensus 119 ~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~L 150 (161)
T PRK09047 119 YWEDMDVAETAAAM-GCSEGSVKTHCSRATHAL 150 (161)
T ss_pred HHhcCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 33466789999999 889999999877655443
No 119
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=29.47 E-value=1.3e+02 Score=25.92 Aligned_cols=33 Identities=12% Similarity=0.116 Sum_probs=25.3
Q ss_pred hcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 98 KWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 98 ~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
..|....+||..| |-+...|+.+....+++..+
T Consensus 153 ~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~Lr~ 185 (189)
T PRK09648 153 VVGLSAEETAEAV-GSTPGAVRVAQHRALARLRA 185 (189)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 3466799999999 88899999988766555433
No 120
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=29.43 E-value=1.3e+02 Score=25.98 Aligned_cols=31 Identities=10% Similarity=0.098 Sum_probs=24.4
Q ss_pred hcCCChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 98 KWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 98 ~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
..|-....||..| |-+...|+.+....+++.
T Consensus 145 ~~~~s~~eIA~~l-gis~~tV~~~l~Rar~~L 175 (189)
T PRK12515 145 YHEKSVEEVGEIV-GIPESTVKTRMFYARKKL 175 (189)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 3466899999999 889999999987655443
No 121
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=29.40 E-value=1.1e+02 Score=26.14 Aligned_cols=30 Identities=10% Similarity=0.028 Sum_probs=23.4
Q ss_pred CCChhhhhhcCCCCCHHHHHHHHHHHHHHHH
Q 021188 100 GNRWSKIAQCLPGRTDNEIKNYWRTRVQKQA 130 (316)
Q Consensus 100 G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~ 130 (316)
|..-..||+.| |.+...|+++....+++..
T Consensus 152 g~s~~eIA~~l-gis~~~v~~~l~Rar~~Lr 181 (187)
T TIGR02948 152 DLSLKEISEIL-DLPVGTVKTRIHRGREALR 181 (187)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 56789999999 8899999998876555443
No 122
>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=29.09 E-value=1.7e+02 Score=27.55 Aligned_cols=34 Identities=15% Similarity=0.126 Sum_probs=26.1
Q ss_pred cCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHHhc
Q 021188 99 WGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQARQL 133 (316)
Q Consensus 99 ~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r~~ 133 (316)
.|-.-.+||+.| |.+...|+.|....+++..+..
T Consensus 157 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~Lr~~l 190 (324)
T TIGR02960 157 LGWRAAETAELL-GTSTASVNSALQRARATLDEVG 190 (324)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHhc
Confidence 456789999999 9999999999876555544433
No 123
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=28.57 E-value=94 Score=27.95 Aligned_cols=45 Identities=24% Similarity=0.231 Sum_probs=35.4
Q ss_pred CCCCHHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 82 GNLTPQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 82 g~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
...|+.|-+.|.-+.+ |-.=+.||..| +.+..-||+|..++++|.
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 3688888887665544 55568999999 999999999988887653
No 124
>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=28.57 E-value=54 Score=25.62 Aligned_cols=29 Identities=31% Similarity=0.567 Sum_probs=22.3
Q ss_pred HHHHHHHhcCCChhhhhhcCCCCCHHHHHH
Q 021188 91 LILELHSKWGNRWSKIAQCLPGRTDNEIKN 120 (316)
Q Consensus 91 ~Ll~lv~~~G~~W~~IA~~lpgRT~~q~kn 120 (316)
.|-.+....|.+|..+|+.| |=+..+|..
T Consensus 4 ~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 4 HLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 34455688899999999999 777776654
No 125
>PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=28.31 E-value=1e+02 Score=26.13 Aligned_cols=39 Identities=28% Similarity=0.565 Sum_probs=22.8
Q ss_pred HHHHHHHHH-Hhc-CCChhhhhhcCCCCCHHHHHHHHHHHHHH
Q 021188 88 EQFLILELH-SKW-GNRWSKIAQCLPGRTDNEIKNYWRTRVQK 128 (316)
Q Consensus 88 ED~~Ll~lv-~~~-G~~W~~IA~~lpgRT~~q~knRW~~~l~k 128 (316)
|+..++++. ..+ |..|-.||..| +-+..+|+. |+.-+|.
T Consensus 85 e~k~Ii~lry~~r~~~TW~~IA~~l-~i~erta~r-~~~~fK~ 125 (130)
T PF05263_consen 85 EEKRIIKLRYDRRSRRTWYQIAQKL-HISERTARR-WRDRFKN 125 (130)
T ss_pred HHHHHHHHHHcccccchHHHHHHHh-CccHHHHHH-HHHHHHH
Confidence 344455544 333 35799999998 556666653 4444444
No 126
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=28.21 E-value=94 Score=20.60 Aligned_cols=34 Identities=26% Similarity=0.261 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHH
Q 021188 87 QEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNY 121 (316)
Q Consensus 87 EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knR 121 (316)
=|...|.++...++++-...|+.| |=+...+..+
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~k 38 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRK 38 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHH
Confidence 377888899999999999999998 6555555443
No 127
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=28.16 E-value=1.3e+02 Score=25.97 Aligned_cols=32 Identities=22% Similarity=0.048 Sum_probs=24.8
Q ss_pred HhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 97 SKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 97 ~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
.-.|-....||..| |-+...|+.+....+++.
T Consensus 119 ~~~g~~~~EIA~~l-gis~~tV~~~l~Rar~~L 150 (181)
T PRK09637 119 ELEGLSQKEIAEKL-GLSLSGAKSRVQRGRVKL 150 (181)
T ss_pred HhcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 34567899999999 889999999887655443
No 128
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=27.92 E-value=1.4e+02 Score=25.83 Aligned_cols=32 Identities=13% Similarity=0.076 Sum_probs=25.8
Q ss_pred cCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 99 WGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 99 ~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
.|-.-.+||..| |-+...|+.|....+++..+
T Consensus 145 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~ 176 (185)
T PRK09649 145 LGLSYADAAAVC-GCPVGTIRSRVARARDALLA 176 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHh
Confidence 456789999999 99999999998876665544
No 129
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=27.70 E-value=1.4e+02 Score=24.79 Aligned_cols=31 Identities=6% Similarity=-0.174 Sum_probs=24.0
Q ss_pred hcCCChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 98 KWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 98 ~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
..|-.-.+||+.| |-+...|++|....+++.
T Consensus 120 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~L 150 (160)
T PRK09642 120 LEEKSYQEIALQE-KIEVKTVEMKLYRARKWI 150 (160)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3466789999999 999999999877655443
No 130
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=27.62 E-value=1.4e+02 Score=25.94 Aligned_cols=29 Identities=14% Similarity=0.102 Sum_probs=22.6
Q ss_pred hcCCChhhhhhcCCCCCHHHHHHHHHHHHH
Q 021188 98 KWGNRWSKIAQCLPGRTDNEIKNYWRTRVQ 127 (316)
Q Consensus 98 ~~G~~W~~IA~~lpgRT~~q~knRW~~~l~ 127 (316)
..|-.-..||+.| |-+...|+.|....++
T Consensus 150 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 178 (195)
T PRK12532 150 ILGFSSDEIQQMC-GISTSNYHTIMHRARE 178 (195)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3466789999999 9999999988765443
No 131
>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=27.45 E-value=1.2e+02 Score=26.27 Aligned_cols=46 Identities=22% Similarity=0.205 Sum_probs=37.3
Q ss_pred ccCCCCHHHHHHHHHHHHhcCCChhhhhhcC----CCCCHHHHHHHHHHH
Q 021188 80 KRGNLTPQEQFLILELHSKWGNRWSKIAQCL----PGRTDNEIKNYWRTR 125 (316)
Q Consensus 80 kkg~WT~EED~~Ll~lv~~~G~~W~~IA~~l----pgRT~~q~knRW~~~ 125 (316)
....-++.|..-|..|+.+||.++...+.-. --.|..||+.+...+
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 3456889999999999999999999998643 248999998877654
No 132
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=26.98 E-value=1.3e+02 Score=25.88 Aligned_cols=30 Identities=10% Similarity=0.038 Sum_probs=23.2
Q ss_pred cCCChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 99 WGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 99 ~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
.|-....||..| |-+...|++|....+++.
T Consensus 153 ~g~s~~eIA~~l-gis~~tv~~~l~Rar~~L 182 (193)
T PRK11923 153 DGLSYEDIASVM-QCPVGTVRSRIFRAREAI 182 (193)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 355789999999 888999999887655443
No 133
>TIGR02943 Sig70_famx1 RNA polymerase sigma-70 factor, TIGR02943 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=26.82 E-value=1.5e+02 Score=25.74 Aligned_cols=36 Identities=11% Similarity=0.009 Sum_probs=26.5
Q ss_pred HHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 93 LELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 93 l~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
+.+....|.....||..| |-+...|+.|....+++.
T Consensus 140 ~~l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~L 175 (188)
T TIGR02943 140 FMMREVLGFESDEICQEL-EISTSNCHVLLYRARLSL 175 (188)
T ss_pred HHHHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 333344467899999999 999999999877655444
No 134
>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=26.26 E-value=1.7e+02 Score=24.91 Aligned_cols=31 Identities=26% Similarity=0.277 Sum_probs=24.1
Q ss_pred cCCChhhhhhcCCCCCHHHHHHHHHHHHHHHH
Q 021188 99 WGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQA 130 (316)
Q Consensus 99 ~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~ 130 (316)
.|-....||..| |-+...|+.|....+++..
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr 179 (183)
T TIGR02999 149 AGLTVEEIAELL-GVSVRTVERDWRFARAWLA 179 (183)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHH
Confidence 456789999999 8999999998877555443
No 135
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=26.18 E-value=1.7e+02 Score=27.83 Aligned_cols=32 Identities=13% Similarity=0.111 Sum_probs=24.8
Q ss_pred cCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 99 WGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 99 ~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
.|-.-.+||+.| |.+...||.|....+++..+
T Consensus 168 ~g~s~~EIA~~l-gis~~tVk~~l~RAr~~Lr~ 199 (339)
T PRK08241 168 LGWSAAEVAELL-DTSVAAVNSALQRARATLAE 199 (339)
T ss_pred hCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHhh
Confidence 355789999999 99999999998765544433
No 136
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=25.33 E-value=1.8e+02 Score=25.24 Aligned_cols=33 Identities=15% Similarity=0.141 Sum_probs=24.1
Q ss_pred cCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHHh
Q 021188 99 WGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQARQ 132 (316)
Q Consensus 99 ~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r~ 132 (316)
.|-.-.+||+.| |-+...|+.+-...+++..+.
T Consensus 157 ~~~s~~EIA~~L-gis~~tVk~~l~ra~~~Lr~~ 189 (194)
T PRK09646 157 GGLTYREVAERL-AVPLGTVKTRMRDGLIRLRDC 189 (194)
T ss_pred cCCCHHHHHHHh-CCChHhHHHHHHHHHHHHHHH
Confidence 355689999999 778889988876655554443
No 137
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=25.02 E-value=1.6e+02 Score=25.61 Aligned_cols=29 Identities=7% Similarity=-0.075 Sum_probs=23.5
Q ss_pred cCCChhhhhhcCCCCCHHHHHHHHHHHHHH
Q 021188 99 WGNRWSKIAQCLPGRTDNEIKNYWRTRVQK 128 (316)
Q Consensus 99 ~G~~W~~IA~~lpgRT~~q~knRW~~~l~k 128 (316)
.|-...+||..| |-+...|+.|....+++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~RAr~~ 177 (189)
T PRK12530 149 LELSSEQICQEC-DISTSNLHVLLYRARLQ 177 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466799999999 99999999987654443
No 138
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=24.63 E-value=41 Score=28.02 Aligned_cols=44 Identities=9% Similarity=0.062 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhccccCCCC
Q 021188 34 EEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLNYLKPDI 79 (316)
Q Consensus 34 eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n~L~p~l 79 (316)
+-|.++++++++.+...+.+||+.++ -+...|+.|-.+..+.++
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~lg--lS~~~v~~Ri~~L~~~Gi 51 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERVG--LSPSTVLRRIKRLEEEGV 51 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCc
Confidence 56889999999999889999999997 788888887776655443
No 139
>smart00351 PAX Paired Box domain.
Probab=24.36 E-value=2e+02 Score=23.69 Aligned_cols=76 Identities=14% Similarity=0.102 Sum_probs=49.3
Q ss_pred cCCccCCCCHHHHHHHHHHHHHhCCCCcchhhcccCCcc-ccccccchhcc--ccCCCC----ccCCCCHHHHHHHHHHH
Q 021188 24 QELRRGPWTLEEDTLLTHYIHQHGEGRWNMVAKCAGLKR-TGKSCRLRWLN--YLKPDI----KRGNLTPQEQFLILELH 96 (316)
Q Consensus 24 ~~lkkg~WT~eED~~L~~lV~~~g~~~W~~IA~~l~~~R-t~~qcr~Rw~n--~L~p~l----kkg~WT~EED~~Ll~lv 96 (316)
.-....+.+.++-++++.++. -|. .-.+||+.++..| |...+..||.. .+.|.- +...-+.+++..|++++
T Consensus 11 ~~~~~~~~s~~~R~riv~~~~-~G~-s~~~iA~~~gvs~~tV~kwi~r~~~~G~~~pk~~gg~rp~~~~~~~~~~I~~~~ 88 (125)
T smart00351 11 VFVNGRPLPDEERQRIVELAQ-NGV-RPCDISRQLCVSHGCVSKILGRYYETGSIRPGAIGGSKPKVATPKVVKKIADYK 88 (125)
T ss_pred eecCCCCCCHHHHHHHHHHHH-cCC-CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCcCCCCCCCCccCHHHHHHHHHHH
Confidence 335667799999999998886 454 6799999998543 34455666653 344421 22235566677777777
Q ss_pred HhcCC
Q 021188 97 SKWGN 101 (316)
Q Consensus 97 ~~~G~ 101 (316)
.+.+.
T Consensus 89 ~~~p~ 93 (125)
T smart00351 89 QENPG 93 (125)
T ss_pred HHCCC
Confidence 76553
No 140
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=24.11 E-value=1.8e+02 Score=24.73 Aligned_cols=31 Identities=16% Similarity=0.215 Sum_probs=24.2
Q ss_pred cCCChhhhhhcCCCCCHHHHHHHHHHHHHHHH
Q 021188 99 WGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQA 130 (316)
Q Consensus 99 ~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~ 130 (316)
.|-.-.+||+.| |.+...|+.+....+++..
T Consensus 144 ~g~s~~eIA~~l-gis~~tV~~~l~Rar~~Lr 174 (179)
T PRK12514 144 EGLSYKELAERH-DVPLNTMRTWLRRSLLKLR 174 (179)
T ss_pred cCCCHHHHHHHH-CCChHHHHHHHHHHHHHHH
Confidence 356789999999 9999999998876555443
No 141
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=24.05 E-value=1.8e+02 Score=25.33 Aligned_cols=33 Identities=9% Similarity=-0.020 Sum_probs=24.2
Q ss_pred HHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 96 HSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 96 v~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
+...|-.+.+||+.| |-+...|+++-...+++.
T Consensus 148 ~~~~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~L 180 (196)
T PRK12524 148 RHIEGLSNPEIAEVM-EIGVEAVESLTARGKRAL 180 (196)
T ss_pred HHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 334566899999999 888888888776544443
No 142
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=23.80 E-value=1.6e+02 Score=25.33 Aligned_cols=31 Identities=6% Similarity=-0.029 Sum_probs=22.7
Q ss_pred hcCCChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 98 KWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 98 ~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
-.|-.-..||+.| |-+...|+.+....+++.
T Consensus 142 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~L 172 (186)
T PRK05602 142 YQGLSNIEAAAVM-DISVDALESLLARGRRAL 172 (186)
T ss_pred hcCCCHHHHHHHh-CcCHHHHHHHHHHHHHHH
Confidence 3466789999998 888888888866544433
No 143
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=23.70 E-value=2e+02 Score=24.11 Aligned_cols=34 Identities=15% Similarity=0.088 Sum_probs=25.5
Q ss_pred HhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 97 SKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 97 ~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
...|-.-..||+.| |-+...|+++-...+++...
T Consensus 125 ~~~g~s~~eIA~~l-gis~~tV~~~l~Rar~~Lr~ 158 (164)
T PRK12547 125 GASGFSYEDAAAIC-GCAVGTIKSRVSRARNRLQE 158 (164)
T ss_pred HHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHH
Confidence 33466789999999 88899999987776655443
No 144
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=23.30 E-value=2e+02 Score=23.01 Aligned_cols=46 Identities=24% Similarity=0.460 Sum_probs=35.8
Q ss_pred cCCCCHHHHHHHHHHHHhcCCChhhhhhcCCCC-CHHHHHHHHHHHHHH
Q 021188 81 RGNLTPQEQFLILELHSKWGNRWSKIAQCLPGR-TDNEIKNYWRTRVQK 128 (316)
Q Consensus 81 kg~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgR-T~~q~knRW~~~l~k 128 (316)
+..||.|+...+++++.+-|..=+.||+.+ |- ..++++. |...++.
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 568999999999999999898889999999 75 6655554 5444433
No 145
>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=23.23 E-value=2e+02 Score=23.94 Aligned_cols=30 Identities=20% Similarity=0.247 Sum_probs=22.7
Q ss_pred cCCChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 99 WGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 99 ~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
.|-.-.+||+.| |-+...|+.+-...+++.
T Consensus 137 ~g~s~~eIA~~l-~is~~tv~~~l~ra~~~L 166 (170)
T TIGR02952 137 QNLPIAEVARIL-GKTEGAVKILQFRAIKKL 166 (170)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 356789999998 888888988876655443
No 146
>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=23.12 E-value=1.1e+02 Score=21.29 Aligned_cols=43 Identities=28% Similarity=0.322 Sum_probs=29.9
Q ss_pred CCCHHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHH
Q 021188 83 NLTPQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQK 128 (316)
Q Consensus 83 ~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k 128 (316)
.+|+.|-+.|.-+.. |..=.+||..+ |.+...|+.+...+.++
T Consensus 3 ~LT~~E~~vl~~l~~--G~~~~eIA~~l-~is~~tV~~~~~~i~~K 45 (58)
T PF00196_consen 3 SLTERELEVLRLLAQ--GMSNKEIAEEL-GISEKTVKSHRRRIMKK 45 (58)
T ss_dssp SS-HHHHHHHHHHHT--TS-HHHHHHHH-TSHHHHHHHHHHHHHHH
T ss_pred ccCHHHHHHHHHHHh--cCCcchhHHhc-CcchhhHHHHHHHHHHH
Confidence 456666665554433 55668999999 99999999888776655
No 147
>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=22.93 E-value=2.2e+02 Score=23.65 Aligned_cols=41 Identities=12% Similarity=0.093 Sum_probs=28.8
Q ss_pred HHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 90 FLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 90 ~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
..++.+..-.|-.=..||..| |-+...|+.+....+++..+
T Consensus 116 r~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~Lr~ 156 (162)
T TIGR02983 116 RAVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALARLRE 156 (162)
T ss_pred HHHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHH
Confidence 333444444466789999999 88999999988876665444
No 148
>TIGR01636 phage_rinA phage transcriptional activator, RinA family. This model represents a family of phage proteins, including RinA, a transcriptional activator in staphylococcal phage phi 11. This family shows similarity to ArpU, a phage-related putative autolysin regulator, and to some sporulation-specific sigma factors.
Probab=22.78 E-value=2.6e+02 Score=23.36 Aligned_cols=49 Identities=14% Similarity=0.052 Sum_probs=30.0
Q ss_pred CCHHHHHHHHHHHHhcCC--ChhhhhhcCCCCCHHHHHHHHHHHHHHHHHhcC
Q 021188 84 LTPQEQFLILELHSKWGN--RWSKIAQCLPGRTDNEIKNYWRTRVQKQARQLN 134 (316)
Q Consensus 84 WT~EED~~Ll~lv~~~G~--~W~~IA~~lpgRT~~q~knRW~~~l~k~~r~~~ 134 (316)
.+++|. .|+.+.--.+. .|..||..+ |=+...|..+=+..+.+.+...|
T Consensus 83 Ld~~er-~II~~rY~~~~~~t~~~Ia~~l-~iS~~t~~r~r~~~l~kla~~lG 133 (134)
T TIGR01636 83 ADEQTR-VIIQELYMKKRPLTLVGLAQQL-FISKSTAYRLRNHIIEAVAEELG 133 (134)
T ss_pred CCHHHH-HHHHHHHccCCCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHHhC
Confidence 344444 44444322233 799999998 77888887655555655555544
No 149
>PF00531 Death: Death domain; InterPro: IPR000488 The death domain (DD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. DD is related in sequence and structure to the death effector domain (DED, see IPR001875 from INTERPRO) and the caspase recruitment domain (CARD, see IPR001315 from INTERPRO), which work in similar pathways and show similar interaction properties []. DD bind each other forming oligomers. Mammals have numerous and diverse DD-containing proteins []. Within these proteins, the DD domains can be found in combination with other domains, including: CARDs, DEDs, ankyrin repeats (IPR002110 from INTERPRO), caspase-like folds, kinase domains, leucine zippers (IPR002158 from INTERPRO), leucine-rich repeats (LRR) (IPR001611 from INTERPRO), TIR domains (IPR000157 from INTERPRO), and ZU5 domains (IPR000906 from INTERPRO) []. Some DD-containing proteins are involved in the regulation of apoptosis and inflammation through their activation of caspases and NF-kappaB, which typically involves interactions with TNF (tumour necrosis factor) cytokine receptors [, ]. In humans, eight of the over 30 known TNF receptors contain DD in their cytoplasmic tails; several of these TNF receptors use caspase activation as a signalling mechanism. The DD mediates self-association of these receptors, thus giving the signal to downstream events that lead to apoptosis. Other DD-containing proteins, such as ankyrin, MyD88 and pelle, are probably not directly involved in cell death signalling. DD-containing proteins also have links to innate immunity, communicating with Toll family receptors through bipartite adapter proteins such as MyD88 [].; GO: 0005515 protein binding, 0007165 signal transduction; PDB: 3OQ9_L 3EZQ_F 1E41_A 1E3Y_A 2GF5_A 2OF5_L 3EWV_E 3G5B_A 3MOP_L 2A9I_A ....
Probab=22.63 E-value=3.1e+02 Score=19.96 Aligned_cols=67 Identities=21% Similarity=0.373 Sum_probs=38.0
Q ss_pred HHHHH-HhcCCChhhhhhcCCCCCHHHHH----------HHHHHHHHHHHHhcCCCCCchHHHHHHhhhcCChhHHHhh
Q 021188 92 ILELH-SKWGNRWSKIAQCLPGRTDNEIK----------NYWRTRVQKQARQLNIESNSETFFEAVRCYWMPRLLQKME 159 (316)
Q Consensus 92 Ll~lv-~~~G~~W~~IA~~lpgRT~~q~k----------nRW~~~l~k~~r~~~~~~~e~~~~~~i~~~~~p~~~~k~~ 159 (316)
|.+++ ...|..|..+|..| |=+..++. .+-...|..-..+.+-...-..+..+++....-....+++
T Consensus 3 l~~~l~~~~~~~Wk~La~~L-g~~~~~i~~i~~~~~~~~~~~~~~L~~W~~~~~~~at~~~L~~aL~~~~~~d~~~~i~ 80 (83)
T PF00531_consen 3 LFDLLAEDLGSDWKRLARKL-GLSESEIENIEEENPDLREQTYEMLQRWRQREGPNATVDQLIQALRDIGRNDLAEKIE 80 (83)
T ss_dssp HHHHHHHSHSTCHHHHHHHT-TS-HHHHHHHHHHSTSHHHHHHHHHHHHHHHHGSTSSHHHHHHHHHHTTHHHHHHHHH
T ss_pred HHHHHhhcchhhHHHHHHHh-CcCHHHHHHHHHhCCChHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHCCcHHHHHHHH
Confidence 44444 55678999999999 65554432 2223344433344445555566777777655555555443
No 150
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=22.53 E-value=2.2e+02 Score=24.34 Aligned_cols=34 Identities=18% Similarity=0.089 Sum_probs=26.5
Q ss_pred HhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 97 SKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 97 ~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
...|-...+||+.| |.+...|+++-...+++..+
T Consensus 142 ~~~g~s~~EIA~~l-~is~~tV~~~l~rar~~Lr~ 175 (181)
T PRK12536 142 KLEGLSVAETAQLT-GLSESAVKVGIHRGLKALAA 175 (181)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 34466799999999 99999999988776655544
No 151
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=22.24 E-value=2.1e+02 Score=23.78 Aligned_cols=36 Identities=17% Similarity=0.130 Sum_probs=25.5
Q ss_pred HHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHH
Q 021188 94 ELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQA 130 (316)
Q Consensus 94 ~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~ 130 (316)
.+..-.|-.-..||..| |-+...|+.|....++...
T Consensus 115 ~l~~~~~~s~~eIA~~l-gis~~tv~~~l~ra~~~Lr 150 (159)
T PRK12527 115 LLRKLEGLSHQQIAEHL-GISRSLVEKHIVNAMKHCR 150 (159)
T ss_pred HHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHH
Confidence 33333455678999999 9999999998776554443
No 152
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=22.23 E-value=2.1e+02 Score=24.41 Aligned_cols=31 Identities=23% Similarity=0.193 Sum_probs=23.6
Q ss_pred cCCChhhhhhcCCCCCHHHHHHHHHHHHHHHH
Q 021188 99 WGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQA 130 (316)
Q Consensus 99 ~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~ 130 (316)
.|-.=.+||+.| |-+...|+.+.+..+++..
T Consensus 150 ~~~s~~eIA~~l-gis~~~V~~~l~ra~~~Lr 180 (186)
T PRK13919 150 QGYTHREAAQLL-GLPLGTLKTRARRALSRLK 180 (186)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHH
Confidence 355678999999 8889999988877555443
No 153
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=22.20 E-value=90 Score=26.42 Aligned_cols=32 Identities=16% Similarity=0.370 Sum_probs=24.4
Q ss_pred cCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 99 WGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 99 ~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
+|-....||+.| |-+...|+.+....+++..+
T Consensus 141 ~g~s~~eIA~~l-~is~~~V~~~l~ra~~~l~~ 172 (176)
T PRK09638 141 YGYTYEEIAKML-NIPEGTVKSRVHHGIKQLRK 172 (176)
T ss_pred cCCCHHHHHHHH-CCChhHHHHHHHHHHHHHHH
Confidence 466789999999 77999998887766555444
No 154
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=22.20 E-value=1.9e+02 Score=25.29 Aligned_cols=40 Identities=20% Similarity=0.149 Sum_probs=28.7
Q ss_pred HHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHHhc
Q 021188 93 LELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQARQL 133 (316)
Q Consensus 93 l~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r~~ 133 (316)
+.++...|-....||..| |-+...|+.+-...+++..+..
T Consensus 122 ~~L~~~~g~s~~EIA~~L-giS~~tVk~~l~Rar~~Lr~~l 161 (188)
T PRK12546 122 LILVGASGFSYEEAAEMC-GVAVGTVKSRANRARARLAELL 161 (188)
T ss_pred hhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 333344567899999999 8899999998877665554433
No 155
>PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional
Probab=21.91 E-value=3.5e+02 Score=25.00 Aligned_cols=69 Identities=20% Similarity=0.097 Sum_probs=45.8
Q ss_pred CCCCHHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCchHHHHHHhhhcCChhHHH
Q 021188 82 GNLTPQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQARQLNIESNSETFFEAVRCYWMPRLLQK 157 (316)
Q Consensus 82 g~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r~~~~~~~e~~~~~~i~~~~~p~~~~k 157 (316)
...|+.|-+.|.-+.+ |..-++||+.| +-+...|+++=..+ .+|.+.....+.+..+++..+...+.++
T Consensus 142 ~~LS~RE~eVL~Lia~--G~SnkEIA~~L-~IS~~TVk~hvs~I----~~KLgv~sR~eLv~~A~~~gli~~~~~~ 210 (217)
T PRK13719 142 NKVTKYQNDVFILYSF--GFSHEYIAQLL-NITVGSSKNKISEI----LKFFGISSRDELLIILHTSEMIFYLYKK 210 (217)
T ss_pred CCCCHHHHHHHHHHHC--CCCHHHHHHHh-CCCHHHHHHHHHHH----HHHhCCCCHHHHHHHHHHcCChHHHHHH
Confidence 4678887776654443 77889999999 99999999865444 4556666655555555544444444444
No 156
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=21.80 E-value=2.1e+02 Score=24.46 Aligned_cols=32 Identities=22% Similarity=0.272 Sum_probs=24.4
Q ss_pred cCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 99 WGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 99 ~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
.|-.-..||+.| |-+...|+.+....+++..+
T Consensus 148 ~~~s~~eIA~~l-gis~~tV~~~l~ra~~~Lr~ 179 (182)
T PRK12537 148 DGCSHAEIAQRL-GAPLGTVKAWIKRSLKALRE 179 (182)
T ss_pred cCCCHHHHHHHH-CCChhhHHHHHHHHHHHHHH
Confidence 455678899998 88889999888776655433
No 157
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=21.65 E-value=2.1e+02 Score=23.41 Aligned_cols=29 Identities=21% Similarity=0.227 Sum_probs=22.1
Q ss_pred cCCChhhhhhcCCCCCHHHHHHHHHHHHHH
Q 021188 99 WGNRWSKIAQCLPGRTDNEIKNYWRTRVQK 128 (316)
Q Consensus 99 ~G~~W~~IA~~lpgRT~~q~knRW~~~l~k 128 (316)
.|....+||+.+ |-+...|+.+-...+++
T Consensus 121 ~~~s~~EIA~~l-~is~~tV~~~~~ra~~~ 149 (154)
T PRK06759 121 VGKTMGEIALET-EMTYYQVRWIYRQALEK 149 (154)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 355688999998 88999998877665544
No 158
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=21.37 E-value=2.1e+02 Score=24.46 Aligned_cols=33 Identities=9% Similarity=0.310 Sum_probs=25.5
Q ss_pred hcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHHH
Q 021188 98 KWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQAR 131 (316)
Q Consensus 98 ~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~r 131 (316)
-.|-.-..||..| |-+...|+.|....+++..+
T Consensus 136 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~ 168 (185)
T PRK12542 136 FYNLTYQEISSVM-GITEANVRKQFERARKRVQN 168 (185)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 3466789999999 99999999987765554433
No 159
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=21.34 E-value=2e+02 Score=25.04 Aligned_cols=37 Identities=19% Similarity=0.133 Sum_probs=26.1
Q ss_pred HHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHHHHHH
Q 021188 92 ILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQ 129 (316)
Q Consensus 92 Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~ 129 (316)
++.|....|-...+||+.| |-+...|+.|-...+++.
T Consensus 124 i~~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~~L 160 (187)
T PRK12516 124 AIILVGASGFAYEEAAEIC-GCAVGTIKSRVNRARQRL 160 (187)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3333344567899999999 888999998876544433
No 160
>PRK00118 putative DNA-binding protein; Validated
Probab=20.88 E-value=2.6e+02 Score=22.79 Aligned_cols=39 Identities=13% Similarity=0.061 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHHHHHHH
Q 021188 86 PQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKNYWRTR 125 (316)
Q Consensus 86 ~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~knRW~~~ 125 (316)
++.+..++.+....|-...+||+.+ |-+...|+.+-...
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RA 57 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRT 57 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 4456666777777788999999999 99999988876543
No 161
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=20.52 E-value=1.1e+02 Score=20.55 Aligned_cols=36 Identities=33% Similarity=0.456 Sum_probs=18.0
Q ss_pred CCCHHHHHHHHHHHHhcCCChhhhhhcCCCCCHHHHHH
Q 021188 83 NLTPQEQFLILELHSKWGNRWSKIAQCLPGRTDNEIKN 120 (316)
Q Consensus 83 ~WT~EED~~Ll~lv~~~G~~W~~IA~~lpgRT~~q~kn 120 (316)
.+|.+|-..|..++ +-|..=.+||+.| ||+...|..
T Consensus 4 ~Lt~~eR~~I~~l~-~~G~s~~~IA~~l-g~s~sTV~r 39 (44)
T PF13936_consen 4 HLTPEERNQIEALL-EQGMSIREIAKRL-GRSRSTVSR 39 (44)
T ss_dssp --------HHHHHH-CS---HHHHHHHT-T--HHHHHH
T ss_pred chhhhHHHHHHHHH-HcCCCHHHHHHHH-CcCcHHHHH
Confidence 56777777777664 5677889999999 999887764
No 162
>TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are apparently found only in the Planctomycetaceae family including the genuses Gemmata and Pirellula (in which seven sequences are found).
Probab=20.34 E-value=2.3e+02 Score=24.00 Aligned_cols=32 Identities=13% Similarity=0.358 Sum_probs=24.5
Q ss_pred hcCCChhhhhhcCCCCCHHHHHHHHHHHHHHHH
Q 021188 98 KWGNRWSKIAQCLPGRTDNEIKNYWRTRVQKQA 130 (316)
Q Consensus 98 ~~G~~W~~IA~~lpgRT~~q~knRW~~~l~k~~ 130 (316)
-.|-.-.+||..| |-+...|+.+....+++..
T Consensus 154 ~~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~Lr 185 (189)
T TIGR02984 154 LEGLSFAEVAERM-DRSEGAVSMLWVRGLARLR 185 (189)
T ss_pred hcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHH
Confidence 3466789999998 8999999988877655543
No 163
>PF08870 DUF1832: Domain of unknown function (DUF1832); InterPro: IPR014969 This entry describes the DndE protein encoded by an operon associated with a sulphur-containing modification to DNA []. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndE is a putative carboxylase homologous to NCAIR synthetases.
Probab=20.08 E-value=3.8e+02 Score=22.01 Aligned_cols=92 Identities=14% Similarity=0.166 Sum_probs=58.3
Q ss_pred CHHHHHHHHHHHHHhCCCCcchhhcccCCccccccccchhcc---cc--CCCCccCCCCHHHHHHHHHHHHhcCCChhhh
Q 021188 32 TLEEDTLLTHYIHQHGEGRWNMVAKCAGLKRTGKSCRLRWLN---YL--KPDIKRGNLTPQEQFLILELHSKWGNRWSKI 106 (316)
Q Consensus 32 T~eED~~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qcr~Rw~n---~L--~p~lkkg~WT~EED~~Ll~lv~~~G~~W~~I 106 (316)
|++-++.|.++-.+.|...|+.+++..- .|+-..=+ ++.. .. ...+++..|+-|-+.....+++++-+
T Consensus 5 S~~~~~~L~~Lk~~tgi~~~Nil~R~A~-~~SL~~~~-~~~~~~~~~d~g~e~~~~t~~Ge~~~~~~~ll~q~~g----- 77 (113)
T PF08870_consen 5 SKKAKEQLKKLKRRTGITPWNILCRIAF-CRSLEEPS-IPSDEDIKDDSGLELNWKTFTGEYDDIYEALLKQRYG----- 77 (113)
T ss_pred CHHHHHHHHHHHHhcCCCcccHHHHHHH-HHHHccCC-CCCCCccCCCCCeEEeeeeecCchHHHHHHHHHHHhC-----
Confidence 6677889999999999989988876542 22221111 1111 11 11345667888887777766655431
Q ss_pred hhcCCCCCHHHHHHHHHHHHHHHHHhcC
Q 021188 107 AQCLPGRTDNEIKNYWRTRVQKQARQLN 134 (316)
Q Consensus 107 A~~lpgRT~~q~knRW~~~l~k~~r~~~ 134 (316)
++.++..+...|+.++.+-+....
T Consensus 78 ----~~~d~~~l~~~~~~Hl~rGi~~L~ 101 (113)
T PF08870_consen 78 ----PELDDEELPKYFKLHLDRGIEYLS 101 (113)
T ss_pred ----CCCCHHHHHHHHHHHHHHhHHHHh
Confidence 355888888888888877665543
Done!