Query 048610
Match_columns 87
No_of_seqs 166 out of 1061
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 11:09:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048610.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048610hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03091 hypothetical protein; 100.0 2E-32 4.3E-37 197.5 9.7 87 1-87 1-87 (459)
2 PLN03212 Transcription repress 100.0 3.7E-32 8E-37 184.6 8.8 85 3-87 14-98 (249)
3 KOG0048 Transcription factor, 100.0 4.9E-29 1.1E-33 170.0 8.9 79 9-87 4-82 (238)
4 PF13921 Myb_DNA-bind_6: Myb-l 99.9 7.8E-23 1.7E-27 112.9 6.9 60 17-78 1-60 (60)
5 KOG0049 Transcription factor, 99.8 2.1E-21 4.5E-26 145.7 6.1 85 1-86 347-431 (939)
6 PF00249 Myb_DNA-binding: Myb- 99.8 4.6E-19 1E-23 94.1 4.4 47 14-61 1-48 (48)
7 KOG0049 Transcription factor, 99.7 2.5E-17 5.3E-22 124.1 6.3 82 5-86 244-379 (939)
8 PLN03212 Transcription repress 99.6 1.2E-16 2.6E-21 109.1 1.0 59 4-64 68-126 (249)
9 smart00717 SANT SANT SWI3, AD 99.6 4E-15 8.6E-20 77.5 5.5 48 14-62 1-48 (49)
10 PLN03091 hypothetical protein; 99.6 6.1E-16 1.3E-20 112.4 2.3 57 4-62 57-113 (459)
11 KOG0051 RNA polymerase I termi 99.5 2.3E-14 5E-19 107.5 7.1 69 13-84 383-453 (607)
12 COG5147 REB1 Myb superfamily p 99.5 1.5E-14 3.2E-19 107.3 4.5 77 10-87 16-92 (512)
13 cd00167 SANT 'SWI3, ADA2, N-Co 99.5 5E-14 1.1E-18 72.2 5.0 45 16-61 1-45 (45)
14 KOG0048 Transcription factor, 99.5 6.1E-14 1.3E-18 95.8 5.0 59 3-63 51-109 (238)
15 KOG0050 mRNA splicing protein 99.5 3.1E-14 6.7E-19 105.1 3.7 74 12-86 5-78 (617)
16 TIGR01557 myb_SHAQKYF myb-like 98.8 1.2E-08 2.6E-13 56.0 5.6 49 13-61 2-54 (57)
17 KOG0457 Histone acetyltransfer 98.8 6.5E-09 1.4E-13 75.8 5.8 49 12-61 70-118 (438)
18 COG5147 REB1 Myb superfamily p 98.8 3.2E-09 6.9E-14 79.3 1.8 73 9-84 286-360 (512)
19 KOG0050 mRNA splicing protein 98.5 1E-07 2.2E-12 71.2 2.5 53 7-62 52-104 (617)
20 KOG0051 RNA polymerase I termi 98.3 1.1E-06 2.4E-11 66.8 5.5 71 12-83 434-531 (607)
21 COG5259 RSC8 RSC chromatin rem 98.3 7.9E-07 1.7E-11 65.8 4.1 45 13-59 278-322 (531)
22 KOG1279 Chromatin remodeling f 98.2 3.2E-06 7E-11 63.4 5.3 48 10-59 249-296 (506)
23 PF08914 Myb_DNA-bind_2: Rap1 98.1 3.7E-06 8.1E-11 47.2 2.9 52 14-65 2-61 (65)
24 PF13837 Myb_DNA-bind_4: Myb/S 98.0 8E-06 1.7E-10 47.5 3.7 48 14-61 1-64 (90)
25 COG5114 Histone acetyltransfer 98.0 7.4E-06 1.6E-10 58.6 3.4 47 15-62 64-110 (432)
26 TIGR02894 DNA_bind_RsfA transc 97.9 4.6E-06 1E-10 54.2 1.9 48 13-62 3-56 (161)
27 PF00249 Myb_DNA-binding: Myb- 97.9 1.7E-05 3.7E-10 41.5 2.8 21 67-87 1-21 (48)
28 PF13873 Myb_DNA-bind_5: Myb/S 97.6 0.00012 2.5E-09 41.8 3.6 48 14-61 2-69 (78)
29 PRK13923 putative spore coat p 97.4 0.00018 3.9E-09 47.3 3.0 48 13-62 4-57 (170)
30 smart00717 SANT SANT SWI3, AD 97.2 0.00054 1.2E-08 34.6 2.9 20 67-86 1-20 (49)
31 cd00167 SANT 'SWI3, ADA2, N-Co 96.8 0.0016 3.5E-08 32.3 2.8 18 69-86 1-18 (45)
32 PF13325 MCRS_N: N-terminal re 96.8 0.0034 7.4E-08 42.3 4.9 66 16-83 1-89 (199)
33 PF09111 SLIDE: SLIDE; InterP 96.5 0.0044 9.6E-08 38.5 3.5 49 10-59 45-108 (118)
34 PF13921 Myb_DNA-bind_6: Myb-l 96.2 0.006 1.3E-07 32.9 2.6 18 8-25 43-60 (60)
35 COG5118 BDP1 Transcription ini 96.0 0.011 2.5E-07 43.4 4.0 63 14-78 365-435 (507)
36 PF12776 Myb_DNA-bind_3: Myb/S 95.5 0.051 1.1E-06 31.6 5.0 45 16-60 1-61 (96)
37 KOG4282 Transcription factor G 95.5 0.022 4.8E-07 40.7 3.9 47 15-61 55-113 (345)
38 PF13404 HTH_AsnC-type: AsnC-t 94.5 0.11 2.5E-06 26.3 4.0 38 20-59 3-40 (42)
39 PLN03142 Probable chromatin-re 94.2 0.17 3.7E-06 41.5 6.2 70 16-86 826-945 (1033)
40 PF08914 Myb_DNA-bind_2: Rap1 93.8 0.063 1.4E-06 30.0 2.3 19 67-85 2-20 (65)
41 KOG2656 DNA methyltransferase 93.7 0.092 2E-06 38.8 3.6 48 12-60 128-180 (445)
42 TIGR01557 myb_SHAQKYF myb-like 93.5 0.12 2.5E-06 28.1 3.0 20 67-86 3-22 (57)
43 PRK11179 DNA-binding transcrip 92.8 0.27 5.8E-06 31.3 4.4 45 19-65 8-52 (153)
44 PF11626 Rap1_C: TRF2-interact 92.0 0.2 4.4E-06 29.2 2.8 17 10-26 43-59 (87)
45 PF09111 SLIDE: SLIDE; InterP 91.8 0.25 5.3E-06 30.7 3.1 23 64-86 46-68 (118)
46 KOG4167 Predicted DNA-binding 91.6 0.33 7.1E-06 38.6 4.3 44 15-60 620-663 (907)
47 PRK11169 leucine-responsive tr 91.4 0.37 8.1E-06 31.0 3.9 45 19-65 13-57 (164)
48 PLN03142 Probable chromatin-re 90.9 0.53 1.2E-05 38.7 4.9 50 12-61 924-984 (1033)
49 PF08281 Sigma70_r4_2: Sigma-7 89.7 0.71 1.5E-05 23.9 3.4 39 19-60 12-50 (54)
50 PF11626 Rap1_C: TRF2-interact 88.6 0.58 1.3E-05 27.2 2.8 16 63-78 43-58 (87)
51 PF09197 Rap1-DNA-bind: Rap1, 88.1 1.5 3.2E-05 26.8 4.4 46 16-62 1-76 (105)
52 PF13325 MCRS_N: N-terminal re 85.5 1.6 3.5E-05 29.5 3.8 49 12-60 71-125 (199)
53 smart00595 MADF subfamily of S 84.7 0.8 1.7E-05 26.1 1.9 23 36-60 29-51 (89)
54 KOG2009 Transcription initiati 84.3 1.6 3.4E-05 34.0 3.7 50 8-59 403-452 (584)
55 smart00344 HTH_ASNC helix_turn 83.3 3.5 7.7E-05 24.2 4.4 43 20-64 3-45 (108)
56 PF10545 MADF_DNA_bdg: Alcohol 83.3 0.93 2E-05 25.2 1.8 26 36-61 28-53 (85)
57 KOG4468 Polycomb-group transcr 82.8 1.6 3.4E-05 34.3 3.2 46 14-61 88-143 (782)
58 KOG1194 Predicted DNA-binding 82.8 2.6 5.7E-05 32.0 4.3 45 14-60 187-231 (534)
59 PF09420 Nop16: Ribosome bioge 82.1 3.2 6.9E-05 26.8 4.1 48 12-60 112-162 (164)
60 PF01388 ARID: ARID/BRIGHT DNA 80.7 3.9 8.5E-05 23.5 3.8 39 24-62 40-89 (92)
61 COG1522 Lrp Transcriptional re 80.6 3.4 7.4E-05 25.6 3.8 45 19-65 7-51 (154)
62 PF07750 GcrA: GcrA cell cycle 80.3 2.6 5.7E-05 27.4 3.2 39 16-57 2-40 (162)
63 smart00501 BRIGHT BRIGHT, ARID 80.3 2.6 5.6E-05 24.5 2.9 40 24-63 36-86 (93)
64 KOG0384 Chromodomain-helicase 78.4 1.2 2.6E-05 37.5 1.4 27 15-41 1134-1160(1373)
65 PF04504 DUF573: Protein of un 78.1 11 0.00024 22.4 5.2 69 15-84 5-94 (98)
66 PF04545 Sigma70_r4: Sigma-70, 76.6 7.7 0.00017 19.6 3.8 39 20-61 7-45 (50)
67 KOG1279 Chromatin remodeling f 75.5 2.8 6.1E-05 32.1 2.6 21 66-86 252-272 (506)
68 KOG1194 Predicted DNA-binding 71.2 1.7 3.6E-05 33.0 0.5 42 15-59 471-512 (534)
69 KOG0457 Histone acetyltransfer 69.3 6.7 0.00014 29.5 3.3 22 65-86 70-91 (438)
70 cd08319 Death_RAIDD Death doma 69.3 4.2 9.2E-05 23.6 1.9 24 22-46 2-25 (83)
71 COG1168 MalY Bifunctional PLP- 68.4 7.2 0.00016 29.0 3.3 27 8-34 165-192 (388)
72 cd08803 Death_ank3 Death domai 68.4 4.8 0.0001 23.4 2.0 24 22-46 4-27 (84)
73 PF02954 HTH_8: Bacterial regu 66.6 14 0.00031 18.2 3.9 28 20-48 5-32 (42)
74 PF01466 Skp1: Skp1 family, di 64.3 19 0.00042 20.2 4.0 36 37-80 36-71 (78)
75 PF11035 SnAPC_2_like: Small n 62.2 16 0.00036 26.6 4.0 42 15-57 22-66 (344)
76 COG5259 RSC8 RSC chromatin rem 62.1 7 0.00015 29.9 2.3 21 67-87 279-299 (531)
77 TIGR02985 Sig70_bacteroi1 RNA 61.8 18 0.00038 22.0 3.8 24 35-60 130-153 (161)
78 COG2963 Transposase and inacti 61.0 28 0.00061 20.7 4.5 44 14-61 5-49 (116)
79 cd08317 Death_ank Death domain 57.4 6.8 0.00015 22.4 1.2 24 22-46 4-27 (84)
80 KOG4329 DNA-binding protein [G 57.1 21 0.00046 26.6 3.9 43 15-59 278-321 (445)
81 cd08804 Death_ank2 Death domai 53.5 10 0.00022 21.8 1.6 24 22-46 4-27 (84)
82 cd08805 Death_ank1 Death domai 53.1 12 0.00026 21.7 1.8 24 22-46 4-27 (84)
83 COG5201 SKP1 SCF ubiquitin lig 49.6 26 0.00056 22.5 3.0 53 20-80 90-150 (158)
84 PF07638 Sigma70_ECF: ECF sigm 49.3 32 0.0007 22.2 3.6 34 23-59 141-174 (185)
85 PF00531 Death: Death domain; 49.0 13 0.00028 20.4 1.5 23 24-46 2-24 (83)
86 KOG2656 DNA methyltransferase 47.8 25 0.00054 26.4 3.1 27 55-85 122-148 (445)
87 PF01527 HTH_Tnp_1: Transposas 47.5 19 0.00041 19.5 2.0 45 13-61 3-47 (76)
88 TIGR02957 SigX4 RNA polymerase 47.0 94 0.002 21.5 6.3 45 36-82 126-173 (281)
89 PF09846 DUF2073: Uncharacteri 46.6 20 0.00043 21.8 2.1 17 15-31 27-43 (104)
90 TIGR02937 sigma70-ECF RNA poly 44.4 42 0.00092 19.7 3.4 27 32-61 125-151 (158)
91 PF13936 HTH_38: Helix-turn-he 44.1 15 0.00033 18.3 1.2 35 16-54 4-38 (44)
92 PF09905 DUF2132: Uncharacteri 43.9 25 0.00054 19.5 2.1 22 22-46 12-33 (64)
93 cd08779 Death_PIDD Death Domai 43.4 16 0.00034 21.1 1.3 23 23-46 3-25 (86)
94 PF10440 WIYLD: Ubiquitin-bind 42.1 20 0.00044 19.9 1.5 19 23-42 30-48 (65)
95 PF10892 DUF2688: Protein of u 41.3 27 0.00059 19.0 1.9 14 16-29 44-57 (60)
96 PF05263 DUF722: Protein of un 40.3 57 0.0012 20.6 3.5 22 35-58 100-121 (130)
97 PF09548 Spore_III_AB: Stage I 40.3 54 0.0012 21.2 3.6 50 37-87 70-119 (170)
98 PF11216 DUF3012: Protein of u 40.1 17 0.00036 17.5 0.8 13 12-24 13-25 (32)
99 cd08318 Death_NMPP84 Death dom 40.0 24 0.00052 20.3 1.7 21 25-46 10-30 (86)
100 PF04435 SPK: Domain of unknow 39.2 30 0.00065 20.2 2.1 43 37-79 25-68 (109)
101 PRK02866 cyanate hydratase; Va 38.9 1.1E+02 0.0023 19.8 5.8 30 23-55 8-37 (147)
102 PLN03079 Uncharacterized prote 38.5 50 0.0011 19.6 2.9 30 51-83 26-55 (91)
103 PRK11924 RNA polymerase sigma 38.3 59 0.0013 20.1 3.5 24 35-60 142-165 (179)
104 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 38.3 63 0.0014 16.9 4.0 36 18-57 5-40 (50)
105 PRK09643 RNA polymerase sigma 37.9 64 0.0014 20.8 3.7 23 35-59 151-173 (192)
106 cd08777 Death_RIP1 Death Domai 37.5 23 0.0005 20.5 1.4 23 23-46 3-25 (86)
107 smart00351 PAX Paired Box doma 37.0 99 0.0022 18.9 7.5 72 13-86 14-92 (125)
108 PRK09641 RNA polymerase sigma 35.8 68 0.0015 20.2 3.5 24 35-60 153-176 (187)
109 KOG3200 Uncharacterized conser 35.5 34 0.00074 23.1 2.1 27 17-43 21-47 (224)
110 smart00005 DEATH DEATH domain, 35.2 26 0.00057 19.5 1.4 24 22-46 5-29 (88)
111 PRK09652 RNA polymerase sigma 34.8 78 0.0017 19.6 3.6 23 35-59 145-167 (182)
112 cd08311 Death_p75NR Death doma 34.6 31 0.00067 19.6 1.6 26 19-46 2-27 (77)
113 PRK11923 algU RNA polymerase s 34.6 70 0.0015 20.4 3.5 24 35-60 155-178 (193)
114 PRK01905 DNA-binding protein F 34.4 88 0.0019 17.4 4.1 31 18-49 35-65 (77)
115 COG1460 Uncharacterized protei 34.1 1.2E+02 0.0025 18.8 4.6 62 16-85 47-111 (114)
116 PRK12523 RNA polymerase sigma 34.1 86 0.0019 19.6 3.8 24 35-60 136-159 (172)
117 PF14237 DUF4339: Domain of un 34.1 41 0.0009 16.7 1.9 19 62-80 6-24 (45)
118 PRK09047 RNA polymerase factor 32.9 99 0.0021 18.9 3.9 24 35-60 123-146 (161)
119 PRK09637 RNA polymerase sigma 32.8 83 0.0018 20.1 3.6 23 35-59 123-145 (181)
120 PRK12529 RNA polymerase sigma 32.7 94 0.002 19.7 3.8 25 35-61 144-168 (178)
121 TIGR02833 spore_III_AB stage I 32.3 83 0.0018 20.4 3.5 48 38-86 71-118 (170)
122 COG5352 Uncharacterized protei 31.9 67 0.0014 20.9 2.9 34 16-52 2-35 (169)
123 TIGR02939 RpoE_Sigma70 RNA pol 31.8 64 0.0014 20.3 2.9 24 35-60 155-178 (190)
124 PRK12531 RNA polymerase sigma 31.5 97 0.0021 19.9 3.8 24 35-60 158-181 (194)
125 KOG1724 SCF ubiquitin ligase, 31.5 78 0.0017 20.7 3.3 33 38-78 121-153 (162)
126 PRK09413 IS2 repressor TnpA; R 30.9 1.1E+02 0.0024 18.4 3.7 45 13-61 9-53 (121)
127 PRK12524 RNA polymerase sigma 30.9 98 0.0021 19.9 3.7 23 35-59 153-175 (196)
128 PF05373 Pro_3_hydrox_C: L-pro 30.9 21 0.00045 21.6 0.5 34 12-45 20-53 (101)
129 cd06171 Sigma70_r4 Sigma70, re 30.4 70 0.0015 15.1 3.5 38 17-58 11-48 (55)
130 PRK00430 fis global DNA-bindin 30.3 1.2E+02 0.0026 17.8 4.1 29 20-49 55-83 (95)
131 PRK09642 RNA polymerase sigma 30.0 1.1E+02 0.0025 18.7 3.8 24 35-60 123-146 (160)
132 PRK09645 RNA polymerase sigma 30.0 1.1E+02 0.0024 19.0 3.8 24 35-60 135-158 (173)
133 TIGR02954 Sig70_famx3 RNA poly 29.9 1E+02 0.0022 19.1 3.6 24 35-60 136-159 (169)
134 TIGR02948 SigW_bacill RNA poly 29.8 88 0.0019 19.6 3.3 24 35-60 153-176 (187)
135 PRK12515 RNA polymerase sigma 29.7 1.1E+02 0.0024 19.4 3.8 25 35-61 148-172 (189)
136 TIGR02943 Sig70_famx1 RNA poly 29.6 1.1E+02 0.0024 19.6 3.8 24 35-60 148-171 (188)
137 COG1168 MalY Bifunctional PLP- 29.4 82 0.0018 23.6 3.4 18 69-86 174-191 (388)
138 PF08870 DUF1832: Domain of un 29.4 83 0.0018 19.2 3.0 27 17-43 4-30 (113)
139 PF09633 DUF2023: Protein of u 29.3 65 0.0014 19.5 2.4 26 51-78 58-83 (101)
140 PRK09648 RNA polymerase sigma 29.3 1.1E+02 0.0024 19.4 3.7 24 35-60 156-179 (189)
141 PRK12530 RNA polymerase sigma 29.2 1.1E+02 0.0024 19.6 3.7 24 35-60 151-174 (189)
142 PRK09636 RNA polymerase sigma 29.0 2E+02 0.0043 19.9 6.1 43 36-80 133-178 (293)
143 PRK12512 RNA polymerase sigma 28.9 1.1E+02 0.0025 19.2 3.7 24 35-60 148-171 (184)
144 PRK12527 RNA polymerase sigma 28.3 1.3E+02 0.0028 18.4 3.8 23 36-60 123-145 (159)
145 KOG0385 Chromatin remodeling c 28.2 1.9E+02 0.0041 24.1 5.3 30 16-45 797-826 (971)
146 PRK04217 hypothetical protein; 27.8 1.5E+02 0.0032 18.1 5.0 44 12-59 38-81 (110)
147 TIGR00673 cynS cyanate hydrata 27.4 1.8E+02 0.0039 18.8 5.8 26 23-51 11-36 (150)
148 smart00583 SPK domain in SET a 27.4 94 0.002 18.9 2.9 35 46-80 37-72 (114)
149 PRK08307 stage III sporulation 27.2 1.1E+02 0.0024 19.8 3.5 48 38-86 72-119 (171)
150 PF15603 Imm45: Immunity prote 27.1 1.2E+02 0.0026 17.6 3.2 24 62-85 48-71 (82)
151 PF10668 Phage_terminase: Phag 27.0 1.2E+02 0.0025 16.6 3.3 32 21-54 9-40 (60)
152 PF09356 Phage_BR0599: Phage c 26.6 34 0.00073 19.6 0.8 17 46-62 53-69 (80)
153 TIGR02999 Sig-70_X6 RNA polyme 26.5 1.3E+02 0.0029 18.8 3.7 24 35-60 151-174 (183)
154 KOG0724 Zuotin and related mol 26.3 22 0.00049 25.2 0.0 43 17-61 56-98 (335)
155 PF06892 Phage_CP76: Phage reg 26.3 1.9E+02 0.0041 18.7 5.6 50 23-82 12-61 (162)
156 PRK12528 RNA polymerase sigma 26.1 1.5E+02 0.0032 18.2 3.8 24 35-60 130-153 (161)
157 PRK09635 sigI RNA polymerase s 25.6 2.4E+02 0.0052 19.7 6.1 45 36-82 136-183 (290)
158 KOG3493 Ubiquitin-like protein 25.6 76 0.0016 17.9 2.1 28 38-66 29-56 (73)
159 PF13412 HTH_24: Winged helix- 25.5 97 0.0021 15.1 3.5 38 21-60 4-41 (48)
160 PRK09651 RNA polymerase sigma 25.4 1E+02 0.0022 19.4 3.0 25 35-61 136-160 (172)
161 PRK12516 RNA polymerase sigma 24.4 1.5E+02 0.0033 19.0 3.7 23 35-59 133-155 (187)
162 PRK09649 RNA polymerase sigma 24.3 1.4E+02 0.003 19.1 3.5 24 35-60 147-170 (185)
163 PF15586 Imm47: Immunity prote 24.1 60 0.0013 19.9 1.6 22 24-45 84-105 (116)
164 PRK12545 RNA polymerase sigma 24.1 1.5E+02 0.0033 19.2 3.7 24 35-60 156-179 (201)
165 PRK03906 mannonate dehydratase 24.0 76 0.0017 23.5 2.4 27 15-42 38-64 (385)
166 TIGR02952 Sig70_famx2 RNA poly 23.8 1.6E+02 0.0036 18.0 3.7 23 36-60 140-162 (170)
167 PF11084 DUF2621: Protein of u 23.5 64 0.0014 20.6 1.7 27 14-41 56-82 (141)
168 PF03444 HrcA_DNA-bdg: Winged 23.4 1.6E+02 0.0035 16.9 4.0 39 18-58 3-45 (78)
169 PRK12547 RNA polymerase sigma 23.2 1.7E+02 0.0037 18.1 3.7 23 35-59 129-151 (164)
170 PF00196 GerE: Bacterial regul 23.1 1.1E+02 0.0024 15.6 2.4 41 16-61 3-43 (58)
171 PRK08241 RNA polymerase factor 23.1 2.6E+02 0.0056 19.6 4.9 23 36-60 171-193 (339)
172 PF13725 tRNA_bind_2: Possible 22.9 34 0.00074 19.8 0.4 24 21-46 72-95 (101)
173 PRK12536 RNA polymerase sigma 22.9 1.7E+02 0.0037 18.4 3.7 23 35-59 146-168 (181)
174 PRK12532 RNA polymerase sigma 22.9 1.6E+02 0.0034 18.8 3.6 23 35-59 153-175 (195)
175 TIGR00695 uxuA mannonate dehyd 22.3 82 0.0018 23.6 2.3 27 15-42 38-64 (394)
176 KOG1235 Predicted unusual prot 22.2 1.1E+02 0.0024 23.8 3.1 55 23-80 95-150 (538)
177 PF11198 DUF2857: Protein of u 22.0 2.4E+02 0.0052 18.5 7.6 59 21-83 75-136 (180)
178 PRK12546 RNA polymerase sigma 21.9 1.5E+02 0.0034 19.0 3.4 23 35-59 130-152 (188)
179 COG2197 CitB Response regulato 21.8 1.5E+02 0.0033 19.6 3.4 44 15-63 147-190 (211)
180 PRK11922 RNA polymerase sigma 21.8 74 0.0016 21.2 1.9 23 35-59 166-188 (231)
181 PRK12514 RNA polymerase sigma 21.8 1.9E+02 0.0041 18.1 3.7 23 36-60 147-169 (179)
182 PRK06759 RNA polymerase factor 21.7 1.9E+02 0.0042 17.4 3.7 23 36-60 124-146 (154)
183 PF07325 Curto_V2: Curtovirus 21.4 1.7E+02 0.0036 18.1 3.2 35 50-84 20-56 (126)
184 PF13613 HTH_Tnp_4: Helix-turn 21.3 1.3E+02 0.0029 15.3 3.0 42 20-61 5-47 (53)
185 COG3795 Uncharacterized protei 21.3 48 0.001 20.8 0.8 59 15-77 15-78 (123)
186 PRK12542 RNA polymerase sigma 21.2 1.9E+02 0.0041 18.3 3.7 24 35-60 139-162 (185)
187 KOG3554 Histone deacetylase co 21.2 1.4E+02 0.0029 23.4 3.3 41 16-57 287-327 (693)
188 cd08306 Death_FADD Fas-associa 21.2 80 0.0017 18.1 1.7 18 28-46 8-25 (86)
189 PF00674 DUP: DUP family; Int 21.1 1.1E+02 0.0023 18.2 2.3 29 35-63 60-101 (108)
190 TIGR02950 SigM_subfam RNA poly 21.1 46 0.001 20.2 0.7 23 36-60 123-145 (154)
191 PRK13919 putative RNA polymera 20.9 2E+02 0.0044 18.0 3.7 24 35-60 152-175 (186)
192 TIGR02984 Sig-70_plancto1 RNA 20.8 2E+02 0.0043 17.9 3.7 23 36-60 158-180 (189)
193 COG1120 FepC ABC-type cobalami 20.8 1.1E+02 0.0025 21.4 2.7 18 16-33 110-127 (258)
194 TIGR02960 SigX5 RNA polymerase 20.6 3E+02 0.0065 19.0 5.7 22 36-59 160-181 (324)
195 PF07555 NAGidase: beta-N-acet 20.6 1.4E+02 0.0031 21.4 3.2 21 15-35 10-30 (306)
196 cd08801 Death_UNC5D Death doma 20.4 1.1E+02 0.0023 18.4 2.1 22 32-62 19-40 (98)
197 PRK05602 RNA polymerase sigma 20.2 1.8E+02 0.0039 18.3 3.4 23 35-59 145-167 (186)
198 TIGR02983 SigE-fam_strep RNA p 20.2 2E+02 0.0042 17.6 3.5 23 36-60 128-150 (162)
199 PF05546 She9_MDM33: She9 / Md 20.1 1.2E+02 0.0025 20.8 2.5 20 13-32 82-101 (207)
200 PF05254 UPF0203: Uncharacteri 20.0 1.5E+02 0.0032 16.5 2.6 28 51-83 17-46 (68)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=99.98 E-value=2e-32 Score=197.46 Aligned_cols=87 Identities=59% Similarity=1.082 Sum_probs=84.4
Q ss_pred CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCCCCCCCCCCHHHHHHHHH
Q 048610 1 MVKAPGSEKPSLRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQEEDETIIK 80 (87)
Q Consensus 1 m~r~~~~~~p~~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~~wt~eEd~~L~~ 80 (87)
|||++||.++.++|++||+|||++|+++|.+||..+|..||..++.+|+++|||+||.++|+|.+++++||.|||.+|++
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 99999999999999999999999999999999998999999998744999999999999999999999999999999999
Q ss_pred HHHHhCC
Q 048610 81 LHEQLGN 87 (87)
Q Consensus 81 ~v~~~Gn 87 (87)
++.+||+
T Consensus 81 L~k~~Gn 87 (459)
T PLN03091 81 LHAVLGN 87 (459)
T ss_pred HHHHhCc
Confidence 9999996
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.97 E-value=3.7e-32 Score=184.63 Aligned_cols=85 Identities=51% Similarity=1.071 Sum_probs=81.4
Q ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCCCCCCCCCCHHHHHHHHHHH
Q 048610 3 KAPGSEKPSLRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQEEDETIIKLH 82 (87)
Q Consensus 3 r~~~~~~p~~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~~wt~eEd~~L~~~v 82 (87)
++|||.++++++++||+|||++|+++|++||..+|..||+.++.+|+++|||+||.++|+|.+++++||.|||.+|++++
T Consensus 14 ~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~ 93 (249)
T PLN03212 14 TTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLH 93 (249)
T ss_pred CCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHH
Confidence 67999999999999999999999999999998899999999863399999999999999999999999999999999999
Q ss_pred HHhCC
Q 048610 83 EQLGN 87 (87)
Q Consensus 83 ~~~Gn 87 (87)
..|||
T Consensus 94 ~~~Gn 98 (249)
T PLN03212 94 RLLGN 98 (249)
T ss_pred Hhccc
Confidence 99996
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.96 E-value=4.9e-29 Score=170.05 Aligned_cols=79 Identities=59% Similarity=1.099 Sum_probs=75.1
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhCC
Q 048610 9 KPSLRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQEEDETIIKLHEQLGN 87 (87)
Q Consensus 9 ~p~~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~~wt~eEd~~L~~~v~~~Gn 87 (87)
+|.+.||+||+|||++|+++|..||.++|..||+.++..|++++||.||.|||+|+++++.||+|||.+|++++..|||
T Consensus 4 k~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GN 82 (238)
T KOG0048|consen 4 NPELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGN 82 (238)
T ss_pred CccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCc
Confidence 4556689999999999999999999999999999999449999999999999999999999999999999999999998
No 4
>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=99.89 E-value=7.8e-23 Score=112.93 Aligned_cols=60 Identities=43% Similarity=0.917 Sum_probs=54.9
Q ss_pred CCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCCCCCCCCCCHHHHHHH
Q 048610 17 WAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQEEDETI 78 (87)
Q Consensus 17 WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~~wt~eEd~~L 78 (87)
||+|||++|+.+|..|| .+|..||..|+. ||+.||+.||.++|.|.+++++||.+||..|
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~l~~-Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEHLGN-RTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHHSTT-S-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHHHCc-CCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 99999999999999999 599999999987 9999999999999999999999999999987
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.84 E-value=2.1e-21 Score=145.72 Aligned_cols=85 Identities=26% Similarity=0.525 Sum_probs=82.8
Q ss_pred CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCCCCCCCCCCHHHHHHHHH
Q 048610 1 MVKAPGSEKPSLRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQEEDETIIK 80 (87)
Q Consensus 1 m~r~~~~~~p~~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~~wt~eEd~~L~~ 80 (87)
++|+..+.+|++++|+||++||.+|+.+|.+||.+.|-+|-+.+++ |+..|||+||.|.|+...+++.||-.||..|+.
T Consensus 347 I~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPn-RSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~ 425 (939)
T KOG0049|consen 347 ITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPN-RSDSQCRERYTNVLNRSAKVERWTLVEDEQLLY 425 (939)
T ss_pred hhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCC-ccHHHHHHHHHHHHHHhhccCceeecchHHHHH
Confidence 4788999999999999999999999999999999999999999999 999999999999999999999999999999999
Q ss_pred HHHHhC
Q 048610 81 LHEQLG 86 (87)
Q Consensus 81 ~v~~~G 86 (87)
+|..||
T Consensus 426 ~V~~YG 431 (939)
T KOG0049|consen 426 AVKVYG 431 (939)
T ss_pred HHHHHc
Confidence 999999
No 6
>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=99.77 E-value=4.6e-19 Score=94.11 Aligned_cols=47 Identities=40% Similarity=0.810 Sum_probs=42.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCccchhHHhC-CCCChhhHHHHHHhhc
Q 048610 14 KGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAG-LLRCGKSCRLRWMNYL 61 (87)
Q Consensus 14 k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~-~~Rt~~qc~~rw~~~l 61 (87)
|++||++||+.|+++|.+||.++|..||..|+ + ||+.||+.||+++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~-Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGG-RTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSS-STHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCC-CCHHHHHHHHHhhC
Confidence 68999999999999999999766999999999 6 99999999999875
No 7
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.70 E-value=2.5e-17 Score=124.06 Aligned_cols=82 Identities=24% Similarity=0.417 Sum_probs=75.9
Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHH-----------------------------
Q 048610 5 PGSEKPSLRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRL----------------------------- 55 (87)
Q Consensus 5 ~~~~~p~~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~----------------------------- 55 (87)
..+..|+++|..||+|||++|+.+...++..+|..||..++++|++.||..
T Consensus 244 ~n~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~~ 323 (939)
T KOG0049|consen 244 YNELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKIT 323 (939)
T ss_pred hhhcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHh
Confidence 356789999999999999999999999998899999999998899999976
Q ss_pred -------------------------HHHhhcCCCCCCCCCCHHHHHHHHHHHHHhC
Q 048610 56 -------------------------RWMNYLRPDIRRGNFTQEEDETIIKLHEQLG 86 (87)
Q Consensus 56 -------------------------rw~~~l~~~~~~~~wt~eEd~~L~~~v~~~G 86 (87)
||...|+|.+++|+||++||.+|+.+|.+||
T Consensus 324 ~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg 379 (939)
T KOG0049|consen 324 SINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYG 379 (939)
T ss_pred hccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhC
Confidence 8888899999999999999999999999998
No 8
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.61 E-value=1.2e-16 Score=109.07 Aligned_cols=59 Identities=20% Similarity=0.332 Sum_probs=53.5
Q ss_pred CCCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCCC
Q 048610 4 APGSEKPSLRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPD 64 (87)
Q Consensus 4 ~~~~~~p~~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~ 64 (87)
+....+|.+++++||+|||++|++++..+| ++|..||+.|++ ||+.+|++||..+|...
T Consensus 68 W~N~L~P~I~kgpWT~EED~lLlel~~~~G-nKWs~IAk~LpG-RTDnqIKNRWns~LrK~ 126 (249)
T PLN03212 68 WMNYLRPSVKRGGITSDEEDLILRLHRLLG-NRWSLIAGRIPG-RTDNEIKNYWNTHLRKK 126 (249)
T ss_pred HHHhhchhcccCCCChHHHHHHHHHHHhcc-ccHHHHHhhcCC-CCHHHHHHHHHHHHhHH
Confidence 345678999999999999999999999999 589999999999 99999999999877654
No 9
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.59 E-value=4e-15 Score=77.49 Aligned_cols=48 Identities=42% Similarity=0.846 Sum_probs=44.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcC
Q 048610 14 KGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLR 62 (87)
Q Consensus 14 k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~ 62 (87)
+++||++||+.|+.++..||..+|..||..+++ ||+.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~-rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPG-RTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCC-CCHHHHHHHHHHHcC
Confidence 468999999999999999996699999999998 999999999998764
No 10
>PLN03091 hypothetical protein; Provisional
Probab=99.58 E-value=6.1e-16 Score=112.42 Aligned_cols=57 Identities=19% Similarity=0.393 Sum_probs=52.1
Q ss_pred CCCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcC
Q 048610 4 APGSEKPSLRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLR 62 (87)
Q Consensus 4 ~~~~~~p~~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~ 62 (87)
+-...+|.+++++||+|||++|++++..+|. +|..||..|++ ||+.+|++||...|.
T Consensus 57 W~NyLdP~IkKgpWT~EED~lLLeL~k~~Gn-KWskIAk~LPG-RTDnqIKNRWnslLK 113 (459)
T PLN03091 57 WINYLRPDLKRGTFSQQEENLIIELHAVLGN-RWSQIAAQLPG-RTDNEIKNLWNSCLK 113 (459)
T ss_pred HHhccCCcccCCCCCHHHHHHHHHHHHHhCc-chHHHHHhcCC-CCHHHHHHHHHHHHH
Confidence 3446789999999999999999999999994 99999999999 999999999998664
No 11
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.53 E-value=2.3e-14 Score=107.52 Aligned_cols=69 Identities=33% Similarity=0.736 Sum_probs=65.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCCCC--CCCCCCHHHHHHHHHHHHH
Q 048610 13 RKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDI--RRGNFTQEEDETIIKLHEQ 84 (87)
Q Consensus 13 ~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~--~~~~wt~eEd~~L~~~v~~ 84 (87)
.+|.||++|++.|..+|.++| +.|..|+..|+ |.|..|++||+++....- +++.||.+|+..|+++|++
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g-~~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~ 453 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHG-NDWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNE 453 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhc-ccHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHH
Confidence 899999999999999999999 59999999999 999999999999998764 8899999999999999974
No 12
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.51 E-value=1.5e-14 Score=107.31 Aligned_cols=77 Identities=35% Similarity=0.673 Sum_probs=73.4
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhCC
Q 048610 10 PSLRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQEEDETIIKLHEQLGN 87 (87)
Q Consensus 10 p~~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~~wt~eEd~~L~~~v~~~Gn 87 (87)
-.++.|.|+..||+.|..+|+.+|.++|+.||..+.. ++++||+.||.++++|.+++..|+.+||..|+.+..++|+
T Consensus 16 ~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~-~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~ 92 (512)
T COG5147 16 TKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLIS-STGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGT 92 (512)
T ss_pred ceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcc-cccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCc
Confidence 3467889999999999999999999999999999998 9999999999999999999999999999999999999985
No 13
>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=99.50 E-value=5e-14 Score=72.24 Aligned_cols=45 Identities=40% Similarity=0.790 Sum_probs=42.1
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhc
Q 048610 16 SWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYL 61 (87)
Q Consensus 16 ~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l 61 (87)
+||++||..|+.++..+|..+|..||..+++ ||+.+|+.+|.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~-rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPG-RTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCC-CCHHHHHHHHHHhC
Confidence 5999999999999999996699999999999 99999999998753
No 14
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.47 E-value=6.1e-14 Score=95.81 Aligned_cols=59 Identities=20% Similarity=0.380 Sum_probs=53.8
Q ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCC
Q 048610 3 KAPGSEKPSLRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRP 63 (87)
Q Consensus 3 r~~~~~~p~~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~ 63 (87)
|.....+|.+++|.||+|||.+|++++..+| +.|+.||++||| ||++.+++.|...|..
T Consensus 51 RW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~G-NrWs~IA~~LPG-RTDNeIKN~Wnt~lkk 109 (238)
T KOG0048|consen 51 RWTNYLRPDLKRGNFSDEEEDLIIKLHALLG-NRWSLIAGRLPG-RTDNEVKNHWNTHLKK 109 (238)
T ss_pred HhhcccCCCccCCCCCHHHHHHHHHHHHHHC-cHHHHHHhhCCC-cCHHHHHHHHHHHHHH
Confidence 4456789999999999999999999999999 589999999999 9999999999887644
No 15
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.47 E-value=3.1e-14 Score=105.10 Aligned_cols=74 Identities=28% Similarity=0.672 Sum_probs=69.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhC
Q 048610 12 LRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQEEDETIIKLHEQLG 86 (87)
Q Consensus 12 ~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~~wt~eEd~~L~~~v~~~G 86 (87)
++-|-|+.-||+.|..+|..||.+.|+.||+.+.. .++.||+.||..+|||.+++..||.+||..|+.++..+.
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~-kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p 78 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNR-KTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEP 78 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhh-cchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcC
Confidence 45678999999999999999999999999999998 899999999999999999999999999999999987654
No 16
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=98.85 E-value=1.2e-08 Score=55.96 Aligned_cols=49 Identities=8% Similarity=0.234 Sum_probs=43.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCc---cchhHHhCCCC-ChhhHHHHHHhhc
Q 048610 13 RKGSWAPEEDRKLIAYIRRYGIWNW---SEMPKYAGLLR-CGKSCRLRWMNYL 61 (87)
Q Consensus 13 ~k~~WT~eED~~L~~~v~~~g~~~W---~~Ia~~~~~~R-t~~qc~~rw~~~l 61 (87)
++-.||+||....++++..+|.++| ..|++.|...+ |..||+.+++.|.
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 3568999999999999999998799 99999987546 9999999999875
No 17
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.84 E-value=6.5e-09 Score=75.80 Aligned_cols=49 Identities=20% Similarity=0.580 Sum_probs=45.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhc
Q 048610 12 LRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYL 61 (87)
Q Consensus 12 ~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l 61 (87)
+-...||++|+-.|++++..||.+||..||.++++ |+..+|+++|.+++
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGt-Ktkeeck~hy~k~f 118 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIGT-KTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcc-cchHHHHHHHHHHH
Confidence 45668999999999999999999999999999998 99999999999965
No 18
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.76 E-value=3.2e-09 Score=79.26 Aligned_cols=73 Identities=29% Similarity=0.639 Sum_probs=65.4
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCC--CCCCCCCCHHHHHHHHHHHHH
Q 048610 9 KPSLRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRP--DIRRGNFTQEEDETIIKLHEQ 84 (87)
Q Consensus 9 ~p~~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~--~~~~~~wt~eEd~~L~~~v~~ 84 (87)
.+.-.+|.||++|+..|..++..+| ..|..|...++ |-+..|++||.+|... .+++++||.+|+.+|...|.+
T Consensus 286 ~~f~~~~~wt~e~~~eL~~~~~~~~-~~w~~ig~~~~--rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e 360 (512)
T COG5147 286 NIFEQRGKWTKEEEQELAKLVVEHG-GSWTEIGKLLG--RMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNE 360 (512)
T ss_pred hHHhhhccCcccccccccccccccc-chhhHhhhhhc--cCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHH
Confidence 4445689999999999999999999 49999999888 9999999999999887 678889999999999988864
No 19
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.45 E-value=1e-07 Score=71.17 Aligned_cols=53 Identities=26% Similarity=0.574 Sum_probs=48.9
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcC
Q 048610 7 SEKPSLRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLR 62 (87)
Q Consensus 7 ~~~p~~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~ 62 (87)
..+|.+++.-||.+||++|+-+...... .|..||..|+ |++.||-+||.+.|+
T Consensus 52 ~ldp~i~~tews~eederlLhlakl~p~-qwrtIa~i~g--r~~~qc~eRy~~ll~ 104 (617)
T KOG0050|consen 52 WLDPAIKKTEWSREEDERLLHLAKLEPT-QWRTIADIMG--RTSQQCLERYNNLLD 104 (617)
T ss_pred HhCHHHhhhhhhhhHHHHHHHHHHhcCC-ccchHHHHhh--hhHHHHHHHHHHHHH
Confidence 3579999999999999999999999995 9999999999 999999999998763
No 20
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.33 E-value=1.1e-06 Score=66.76 Aligned_cols=71 Identities=20% Similarity=0.478 Sum_probs=54.6
Q ss_pred CCCCCCCHHHHHHHHHHHH-------Hh------------------CCCCccchhHHhCCCCChhhHHHHHHhhc-CCCC
Q 048610 12 LRKGSWAPEEDRKLIAYIR-------RY------------------GIWNWSEMPKYAGLLRCGKSCRLRWMNYL-RPDI 65 (87)
Q Consensus 12 ~~k~~WT~eED~~L~~~v~-------~~------------------g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l-~~~~ 65 (87)
.++++||.||.+.|+++|+ .+ ...+|..|+..+++ |+..|||..|...+ .|..
T Consensus 434 ~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~T-R~~~qCr~Kw~kl~~~~s~ 512 (607)
T KOG0051|consen 434 RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGT-RSRIQCRYKWYKLTTSPSF 512 (607)
T ss_pred cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcC-CCcchHHHHHHHHHhhHHh
Confidence 5899999999999999995 22 23479999998888 99999999999977 4455
Q ss_pred CCCCCCH-HHHHHHHHHHH
Q 048610 66 RRGNFTQ-EEDETIIKLHE 83 (87)
Q Consensus 66 ~~~~wt~-eEd~~L~~~v~ 83 (87)
+...|.. .+..-|++-..
T Consensus 513 n~~~~~~~~~~v~l~ErL~ 531 (607)
T KOG0051|consen 513 NKRQESKGSDMVWLLERLS 531 (607)
T ss_pred hcccccccchhHHHHHHHH
Confidence 6666765 34455555443
No 21
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=98.30 E-value=7.9e-07 Score=65.79 Aligned_cols=45 Identities=24% Similarity=0.606 Sum_probs=42.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHh
Q 048610 13 RKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 13 ~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
....||.+|-.+|++.|++||. +|.+||.++++ +|..||-.+|.+
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVgt-Kt~EqCIl~FL~ 322 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVGT-KTKEQCILHFLQ 322 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhCC-CCHHHHHHHHHc
Confidence 4558999999999999999995 99999999998 999999999986
No 22
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=98.19 E-value=3.2e-06 Score=63.40 Aligned_cols=48 Identities=21% Similarity=0.562 Sum_probs=43.8
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHh
Q 048610 10 PSLRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 10 p~~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
-...+..||.+|+-+|+++|..||. +|.+||.++++ ||..||-.++.+
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg~-ks~eqCI~kFL~ 296 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIEMYGD-DWNKVADHVGT-KSQEQCILKFLR 296 (506)
T ss_pred cccCCCCccHHHHHHHHHHHHHhcc-cHHHHHhccCC-CCHHHHHHHHHh
Confidence 3345778999999999999999995 99999999998 999999999986
No 23
>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=98.08 E-value=3.7e-06 Score=47.17 Aligned_cols=52 Identities=21% Similarity=0.339 Sum_probs=32.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCC--------CCccchhHHhCCCCChhhHHHHHHhhcCCCC
Q 048610 14 KGSWAPEEDRKLIAYIRRYGI--------WNWSEMPKYAGLLRCGKSCRLRWMNYLRPDI 65 (87)
Q Consensus 14 k~~WT~eED~~L~~~v~~~g~--------~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~ 65 (87)
+.+||.+||+.|+..|..+.. .=|..+++..++.+|-.+-++||.+.|.+..
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 468999999999999976521 1299999887754899999999999987643
No 24
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=98.02 E-value=8e-06 Score=47.48 Aligned_cols=48 Identities=27% Similarity=0.553 Sum_probs=33.2
Q ss_pred CCCCCHHHHHHHHHHHHH--h----C--CC-----CccchhHHh---CCCCChhhHHHHHHhhc
Q 048610 14 KGSWAPEEDRKLIAYIRR--Y----G--IW-----NWSEMPKYA---GLLRCGKSCRLRWMNYL 61 (87)
Q Consensus 14 k~~WT~eED~~L~~~v~~--~----g--~~-----~W~~Ia~~~---~~~Rt~~qc~~rw~~~l 61 (87)
+..||.+|...|+.++.. + + .. -|..||..| |-.||+.||+.+|.+..
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 357999999999999987 2 1 01 399999986 33499999999999853
No 25
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.97 E-value=7.4e-06 Score=58.56 Aligned_cols=47 Identities=21% Similarity=0.589 Sum_probs=44.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcC
Q 048610 15 GSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLR 62 (87)
Q Consensus 15 ~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~ 62 (87)
-.|+..|+-.|++.+.-.|.+||..||.++|. |+...|+++|..++.
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiGs-r~kee~k~HylK~y~ 110 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIGS-RAKEEIKSHYLKMYD 110 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHhh-hhhHHHHHHHHHHHh
Confidence 45999999999999999999999999999997 999999999999775
No 26
>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=97.95 E-value=4.6e-06 Score=54.15 Aligned_cols=48 Identities=31% Similarity=0.626 Sum_probs=41.0
Q ss_pred CCCCCCHHHHHHHHHHHHHh---CCC---CccchhHHhCCCCChhhHHHHHHhhcC
Q 048610 13 RKGSWAPEEDRKLIAYIRRY---GIW---NWSEMPKYAGLLRCGKSCRLRWMNYLR 62 (87)
Q Consensus 13 ~k~~WT~eED~~L~~~v~~~---g~~---~W~~Ia~~~~~~Rt~~qc~~rw~~~l~ 62 (87)
+...||.|||.+|.+.|-+| |.- .+..++..++ ||+..|..||+.++.
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VR 56 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVR 56 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHH
Confidence 45679999999999999988 211 4788899898 999999999999875
No 27
>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=97.85 E-value=1.7e-05 Score=41.50 Aligned_cols=21 Identities=38% Similarity=0.754 Sum_probs=17.7
Q ss_pred CCCCCHHHHHHHHHHHHHhCC
Q 048610 67 RGNFTQEEDETIIKLHEQLGN 87 (87)
Q Consensus 67 ~~~wt~eEd~~L~~~v~~~Gn 87 (87)
+++||++||.+|++++.+||+
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~ 21 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGK 21 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTT
T ss_pred CCCCCHHHHHHHHHHHHHhCC
Confidence 478999999999999999995
No 28
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=97.56 E-value=0.00012 Score=41.78 Aligned_cols=48 Identities=21% Similarity=0.354 Sum_probs=38.9
Q ss_pred CCCCCHHHHHHHHHHHHHh-----CC-----------CCccchhHHhC----CCCChhhHHHHHHhhc
Q 048610 14 KGSWAPEEDRKLIAYIRRY-----GI-----------WNWSEMPKYAG----LLRCGKSCRLRWMNYL 61 (87)
Q Consensus 14 k~~WT~eED~~L~~~v~~~-----g~-----------~~W~~Ia~~~~----~~Rt~~qc~~rw~~~l 61 (87)
+..||++|...|+++|..| +. .-|..|+..|. +.||..|++..|.++.
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 4679999999999999987 20 13999998862 2499999999999864
No 29
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=97.37 E-value=0.00018 Score=47.26 Aligned_cols=48 Identities=25% Similarity=0.464 Sum_probs=38.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCC------ccchhHHhCCCCChhhHHHHHHhhcC
Q 048610 13 RKGSWAPEEDRKLIAYIRRYGIWN------WSEMPKYAGLLRCGKSCRLRWMNYLR 62 (87)
Q Consensus 13 ~k~~WT~eED~~L~~~v~~~g~~~------W~~Ia~~~~~~Rt~~qc~~rw~~~l~ 62 (87)
+...||.|||..|.+.|-.|+... ...++..|. ||+.+|..||+.++.
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 567899999999999999885332 556666677 999999999976654
No 30
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=97.16 E-value=0.00054 Score=34.64 Aligned_cols=20 Identities=45% Similarity=0.858 Sum_probs=18.5
Q ss_pred CCCCCHHHHHHHHHHHHHhC
Q 048610 67 RGNFTQEEDETIIKLHEQLG 86 (87)
Q Consensus 67 ~~~wt~eEd~~L~~~v~~~G 86 (87)
+++||++||.+|+.++..||
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g 20 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYG 20 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHC
Confidence 36899999999999999998
No 31
>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=96.80 E-value=0.0016 Score=32.31 Aligned_cols=18 Identities=33% Similarity=0.630 Sum_probs=17.3
Q ss_pred CCCHHHHHHHHHHHHHhC
Q 048610 69 NFTQEEDETIIKLHEQLG 86 (87)
Q Consensus 69 ~wt~eEd~~L~~~v~~~G 86 (87)
+||.+||..|+.++..||
T Consensus 1 ~Wt~eE~~~l~~~~~~~g 18 (45)
T cd00167 1 PWTEEEDELLLEAVKKYG 18 (45)
T ss_pred CCCHHHHHHHHHHHHHHC
Confidence 599999999999999998
No 32
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=96.79 E-value=0.0034 Score=42.27 Aligned_cols=66 Identities=20% Similarity=0.318 Sum_probs=47.4
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccchhHH--hCCCCChhhHHHHHHhhc-CCC--------------------CCCCCCCH
Q 048610 16 SWAPEEDRKLIAYIRRYGIWNWSEMPKY--AGLLRCGKSCRLRWMNYL-RPD--------------------IRRGNFTQ 72 (87)
Q Consensus 16 ~WT~eED~~L~~~v~~~g~~~W~~Ia~~--~~~~Rt~~qc~~rw~~~l-~~~--------------------~~~~~wt~ 72 (87)
+|++++|-.|+.+|..-. +-..|+.- |...-|-..+..||+..| +|. ..+.+||.
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 599999999999998665 45555443 222247788899998766 222 23458999
Q ss_pred HHHHHHHHHHH
Q 048610 73 EEDETIIKLHE 83 (87)
Q Consensus 73 eEd~~L~~~v~ 83 (87)
+|+.+|.....
T Consensus 79 ~EE~lL~~v~s 89 (199)
T PF13325_consen 79 EEEQLLGTVAS 89 (199)
T ss_pred HHHHHHHhhhh
Confidence 99999988654
No 33
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=96.47 E-value=0.0044 Score=38.51 Aligned_cols=49 Identities=27% Similarity=0.464 Sum_probs=37.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCC---CCccchhHHhC------------CCCChhhHHHHHHh
Q 048610 10 PSLRKGSWAPEEDRKLIAYIRRYGI---WNWSEMPKYAG------------LLRCGKSCRLRWMN 59 (87)
Q Consensus 10 p~~~k~~WT~eED~~L~~~v~~~g~---~~W~~Ia~~~~------------~~Rt~~qc~~rw~~ 59 (87)
|.-++..||.+||..|+-++.+||. +.|..|-..+. . ||+..+..|-..
T Consensus 45 ~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kS-Rt~~el~rR~~t 108 (118)
T PF09111_consen 45 PNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKS-RTPQELQRRCNT 108 (118)
T ss_dssp STSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHT-S-HHHHHHHHHH
T ss_pred CCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhccc-CCHHHHHHHHHH
Confidence 4667788999999999999999998 88999887642 3 888777777544
No 34
>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=96.16 E-value=0.006 Score=32.85 Aligned_cols=18 Identities=39% Similarity=1.003 Sum_probs=16.3
Q ss_pred CCCCCCCCCCCHHHHHHH
Q 048610 8 EKPSLRKGSWAPEEDRKL 25 (87)
Q Consensus 8 ~~p~~~k~~WT~eED~~L 25 (87)
.+|.+.+++||++||++|
T Consensus 43 l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 43 LRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp TSTTSTSSSSSHHHHHHH
T ss_pred CcccccCCCcCHHHHhcC
Confidence 568899999999999987
No 35
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=95.97 E-value=0.011 Score=43.43 Aligned_cols=63 Identities=17% Similarity=0.344 Sum_probs=49.7
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhh--cCCC-----C-CCCCCCHHHHHHH
Q 048610 14 KGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNY--LRPD-----I-RRGNFTQEEDETI 78 (87)
Q Consensus 14 k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~--l~~~-----~-~~~~wt~eEd~~L 78 (87)
--+||..|-++...+...+|. +++.||..+|+ |+.+|++..|.+- .+|. + .+-|+..+|--.+
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP~-R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k~ 435 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGT-DFSLISSLFPN-RERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNKL 435 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcc-hHHHHHHhcCc-hhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhhH
Confidence 347999999999999999996 99999999999 9999999998763 2221 1 2346777665443
No 36
>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=95.54 E-value=0.051 Score=31.61 Aligned_cols=45 Identities=24% Similarity=0.475 Sum_probs=33.5
Q ss_pred CCCHHHHHHHHHHHHHh---CC----C-----CccchhHHhC----CCCChhhHHHHHHhh
Q 048610 16 SWAPEEDRKLIAYIRRY---GI----W-----NWSEMPKYAG----LLRCGKSCRLRWMNY 60 (87)
Q Consensus 16 ~WT~eED~~L~~~v~~~---g~----~-----~W~~Ia~~~~----~~Rt~~qc~~rw~~~ 60 (87)
.||+++++.|++++... |. + .|..|+..|. ...+..||++||...
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~l 61 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTL 61 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHH
Confidence 59999999999998654 11 1 3888888763 226789999998753
No 37
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=95.48 E-value=0.022 Score=40.75 Aligned_cols=47 Identities=26% Similarity=0.376 Sum_probs=37.3
Q ss_pred CCCCHHHHHHHHHHHHHh---------CCCCccchhHHh---CCCCChhhHHHHHHhhc
Q 048610 15 GSWAPEEDRKLIAYIRRY---------GIWNWSEMPKYA---GLLRCGKSCRLRWMNYL 61 (87)
Q Consensus 15 ~~WT~eED~~L~~~v~~~---------g~~~W~~Ia~~~---~~~Rt~~qc~~rw~~~l 61 (87)
..|+.+|-..|+.+.... ...-|..||+.+ +..||+.||+.+|.+..
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 679999999999988643 112599999854 33499999999998865
No 38
>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=94.53 E-value=0.11 Score=26.35 Aligned_cols=38 Identities=24% Similarity=0.372 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHh
Q 048610 20 EEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 20 eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
+=|.+|+.+....+...+..||+.++ =|+..|..|+..
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 44888999999999889999999999 799999999864
No 39
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.19 E-value=0.17 Score=41.46 Aligned_cols=70 Identities=14% Similarity=0.327 Sum_probs=51.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHH-------H--------------------------------
Q 048610 16 SWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRL-------R-------------------------------- 56 (87)
Q Consensus 16 ~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~-------r-------------------------------- 56 (87)
.||.-+=...+.++.+||..+-..||..+.+ +|...++. |
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~-k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~ 904 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEMEG-KTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG 904 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhcC-CCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4777777777788888998889999999987 88877663 1
Q ss_pred ---------HHhh-c-CCCCCCCCCCHHHHHHHHHHHHHhC
Q 048610 57 ---------WMNY-L-RPDIRRGNFTQEEDETIIKLHEQLG 86 (87)
Q Consensus 57 ---------w~~~-l-~~~~~~~~wt~eEd~~L~~~v~~~G 86 (87)
|... + .+..++..+|.+||..|+-.+.+||
T Consensus 905 ~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g 945 (1033)
T PLN03142 905 KKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLG 945 (1033)
T ss_pred HHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhc
Confidence 1110 1 1223344699999999999999988
No 40
>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=93.78 E-value=0.063 Score=29.97 Aligned_cols=19 Identities=26% Similarity=0.518 Sum_probs=12.6
Q ss_pred CCCCCHHHHHHHHHHHHHh
Q 048610 67 RGNFTQEEDETIIKLHEQL 85 (87)
Q Consensus 67 ~~~wt~eEd~~L~~~v~~~ 85 (87)
+.+||.+||..|+..|.++
T Consensus 2 R~~fT~edD~~l~~~v~~~ 20 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKEN 20 (65)
T ss_dssp -----HHHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHh
Confidence 4589999999999999654
No 41
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=93.70 E-value=0.092 Score=38.78 Aligned_cols=48 Identities=19% Similarity=0.338 Sum_probs=41.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCccchhHH-----hCCCCChhhHHHHHHhh
Q 048610 12 LRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKY-----AGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 12 ~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~-----~~~~Rt~~qc~~rw~~~ 60 (87)
+.-..||.+|-+.|.++++.|.. .|-.||.. ++..||-...++||+.+
T Consensus 128 l~dn~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 128 LNDNSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred hccccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHH
Confidence 44567999999999999999996 89999977 56669999999999864
No 42
>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=93.55 E-value=0.12 Score=28.12 Aligned_cols=20 Identities=20% Similarity=0.429 Sum_probs=18.4
Q ss_pred CCCCCHHHHHHHHHHHHHhC
Q 048610 67 RGNFTQEEDETIIKLHEQLG 86 (87)
Q Consensus 67 ~~~wt~eEd~~L~~~v~~~G 86 (87)
+-.||+||....++++..||
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G 22 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLG 22 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhC
Confidence 45799999999999999998
No 43
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=92.82 E-value=0.27 Score=31.31 Aligned_cols=45 Identities=16% Similarity=0.175 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCCCC
Q 048610 19 PEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDI 65 (87)
Q Consensus 19 ~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~ 65 (87)
.+-|.+|+.+....|...|+.||+.++ -|...|+.|+.+..+..+
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 357999999999999889999999999 899999999998776554
No 44
>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=91.98 E-value=0.2 Score=29.19 Aligned_cols=17 Identities=41% Similarity=0.815 Sum_probs=10.0
Q ss_pred CCCCCCCCCHHHHHHHH
Q 048610 10 PSLRKGSWAPEEDRKLI 26 (87)
Q Consensus 10 p~~~k~~WT~eED~~L~ 26 (87)
|.-..|-||+++|+.|.
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 55568899999999993
No 45
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=91.81 E-value=0.25 Score=30.70 Aligned_cols=23 Identities=17% Similarity=0.421 Sum_probs=18.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC
Q 048610 64 DIRRGNFTQEEDETIIKLHEQLG 86 (87)
Q Consensus 64 ~~~~~~wt~eEd~~L~~~v~~~G 86 (87)
..++..+|.+||..|+-.+.+||
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G 68 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYG 68 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHT
T ss_pred CCCCCCcCcHHHHHHHHHHHHhC
Confidence 44566899999999999999998
No 46
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=91.60 E-value=0.33 Score=38.63 Aligned_cols=44 Identities=14% Similarity=0.299 Sum_probs=40.0
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhh
Q 048610 15 GSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 15 ~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
..||+.|-....+++..|. +++..|+..+.+ +|-.||-+-|+..
T Consensus 620 d~WTp~E~~lF~kA~y~~~-KDF~~v~km~~~-KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYS-KDFIFVQKMVKS-KTVAQCVEYYYTW 663 (907)
T ss_pred ccccHHHHHHHHHHHHHhc-ccHHHHHHHhcc-ccHHHHHHHHHHH
Confidence 4699999999999999999 599999999999 9999999887754
No 47
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=91.44 E-value=0.37 Score=31.01 Aligned_cols=45 Identities=20% Similarity=0.257 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCCCC
Q 048610 19 PEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDI 65 (87)
Q Consensus 19 ~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~ 65 (87)
.+-|.+|+.+.+..+.-.|+.||+.++ -|...|+.|+.+..+..+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 567999999999999889999999999 899999999998776654
No 48
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=90.86 E-value=0.53 Score=38.73 Aligned_cols=50 Identities=18% Similarity=0.259 Sum_probs=39.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCC-----------CCChhhHHHHHHhhc
Q 048610 12 LRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGL-----------LRCGKSCRLRWMNYL 61 (87)
Q Consensus 12 ~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~-----------~Rt~~qc~~rw~~~l 61 (87)
.++..+|.+||..|+-.+.+||.++|..|-..+.. .||+..+..|-...|
T Consensus 924 ~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~ 984 (1033)
T PLN03142 924 NKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI 984 (1033)
T ss_pred CCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence 34556999999999999999999999999665421 288888888866544
No 49
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=89.69 E-value=0.71 Score=23.92 Aligned_cols=39 Identities=18% Similarity=0.333 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhh
Q 048610 19 PEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 19 ~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
++++..++.+....|. ++.+||..++ .|...++.+...-
T Consensus 12 ~~~~r~i~~l~~~~g~-s~~eIa~~l~--~s~~~v~~~l~ra 50 (54)
T PF08281_consen 12 PERQREIFLLRYFQGM-SYAEIAEILG--ISESTVKRRLRRA 50 (54)
T ss_dssp -HHHHHHHHHHHTS----HHHHHHHCT--S-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCc-CHHHHHHHHC--cCHHHHHHHHHHH
Confidence 4677777788878884 9999999998 8999998887654
No 50
>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=88.64 E-value=0.58 Score=27.24 Aligned_cols=16 Identities=44% Similarity=0.696 Sum_probs=9.3
Q ss_pred CCCCCCCCCHHHHHHH
Q 048610 63 PDIRRGNFTQEEDETI 78 (87)
Q Consensus 63 ~~~~~~~wt~eEd~~L 78 (87)
|.-..|-||+++|..|
T Consensus 43 P~n~~GiWT~eDD~~L 58 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEML 58 (87)
T ss_dssp -TT-TT---HHHHHHH
T ss_pred CCCCCCCcCHHHHHHH
Confidence 4456788999999999
No 51
>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.
Probab=88.12 E-value=1.5 Score=26.77 Aligned_cols=46 Identities=15% Similarity=0.303 Sum_probs=30.8
Q ss_pred CCCHHHHHHHHHHHHHh------------CCCC------------------ccchhHHhCCCCChhhHHHHHHhhcC
Q 048610 16 SWAPEEDRKLIAYIRRY------------GIWN------------------WSEMPKYAGLLRCGKSCRLRWMNYLR 62 (87)
Q Consensus 16 ~WT~eED~~L~~~v~~~------------g~~~------------------W~~Ia~~~~~~Rt~~qc~~rw~~~l~ 62 (87)
++|++||-.|...|..+ |... ....+...+. +|...=|+||++++.
T Consensus 1 kfTA~dDY~Lc~~i~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~fF~~~~~~~p~-HT~~sWRDR~RKfv~ 76 (105)
T PF09197_consen 1 KFTADDDYALCKAIKKQFYRDIYQKDPDTGSSLISDGDSKEFIPKRDMRSFFKDLARKNPR-HTENSWRDRYRKFVS 76 (105)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHSB-TTSS-B----------------TTHHHHHHHHTTT-S-HHHHHHHHHHTHH
T ss_pred CCChHHHHHHHHHHHHHHHHHHHhhCcccccccccCCCccccccchhhHHHHHHHHHcCCc-cchhHHHHHHHHHHH
Confidence 48999999999999765 1101 3445566676 999999999998764
No 52
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=85.52 E-value=1.6 Score=29.52 Aligned_cols=49 Identities=18% Similarity=0.110 Sum_probs=34.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC--CCccchhHH----hCCCCChhhHHHHHHhh
Q 048610 12 LRKGSWAPEEDRKLIAYIRRYGI--WNWSEMPKY----AGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 12 ~~k~~WT~eED~~L~~~v~~~g~--~~W~~Ia~~----~~~~Rt~~qc~~rw~~~ 60 (87)
-.+.+||.+|++.|......... ..+.+|-.. |-..||+++..++|+..
T Consensus 71 q~kalfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lm 125 (199)
T PF13325_consen 71 QSKALFSKEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLM 125 (199)
T ss_pred cccCCCCHHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHH
Confidence 35789999999999997765532 245555433 22239999999999974
No 53
>smart00595 MADF subfamily of SANT domain.
Probab=84.67 E-value=0.8 Score=26.13 Aligned_cols=23 Identities=30% Similarity=0.780 Sum_probs=19.8
Q ss_pred CccchhHHhCCCCChhhHHHHHHhh
Q 048610 36 NWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 36 ~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
-|..||..|+ -+..+|+.+|.+.
T Consensus 29 aW~~Ia~~l~--~~~~~~~~kw~~L 51 (89)
T smart00595 29 AWEEIAEELG--LSVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHHC--cCHHHHHHHHHHH
Confidence 4999999998 5999999888764
No 54
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=84.27 E-value=1.6 Score=33.95 Aligned_cols=50 Identities=16% Similarity=0.279 Sum_probs=44.6
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHh
Q 048610 8 EKPSLRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 8 ~~p~~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
.-+....++||..|-++........|. +.+.||..+++ |+..|++..|..
T Consensus 403 ~sk~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p~-R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 403 YSKKLETDKWDASETELFYKALSERGS-DFSLISNLFPL-RDRKQIKAKFKK 452 (584)
T ss_pred ccCccccCcccchhhHHhhhHHhhhcc-ccccccccccc-ccHHHHHHHHhh
Confidence 345556789999999999999999996 99999999999 999999999875
No 55
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=83.34 E-value=3.5 Score=24.16 Aligned_cols=43 Identities=19% Similarity=0.207 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCCC
Q 048610 20 EEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPD 64 (87)
Q Consensus 20 eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~ 64 (87)
+.|..++.++...+.-.++.||+.++ -+...|+.+.....+..
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l~--~s~~tv~~~l~~L~~~g 45 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKVG--LSPSTVHNRVKRLEEEG 45 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCC
Confidence 56888999999988779999999998 88899999888766544
No 56
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=83.34 E-value=0.93 Score=25.19 Aligned_cols=26 Identities=27% Similarity=0.601 Sum_probs=21.2
Q ss_pred CccchhHHhCCCCChhhHHHHHHhhc
Q 048610 36 NWSEMPKYAGLLRCGKSCRLRWMNYL 61 (87)
Q Consensus 36 ~W~~Ia~~~~~~Rt~~qc~~rw~~~l 61 (87)
-|..||..++..-+..+|+.+|.+.-
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr 53 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLR 53 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHH
Confidence 49999999986457888999998753
No 57
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=82.79 E-value=1.6 Score=34.30 Aligned_cols=46 Identities=13% Similarity=0.342 Sum_probs=36.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCccchhHHh----------CCCCChhhHHHHHHhhc
Q 048610 14 KGSWAPEEDRKLIAYIRRYGIWNWSEMPKYA----------GLLRCGKSCRLRWMNYL 61 (87)
Q Consensus 14 k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~----------~~~Rt~~qc~~rw~~~l 61 (87)
|..||-+|.+-...+++++| +++.+|-..+ .- +|-.|++..|++.+
T Consensus 88 ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~~-Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQS-KTKDQVRHYYYRLV 143 (782)
T ss_pred ccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchhh-hhhHHHHHHHHHHH
Confidence 66799999999999999999 5998883332 12 56788999888754
No 58
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=82.78 E-value=2.6 Score=32.01 Aligned_cols=45 Identities=11% Similarity=0.186 Sum_probs=38.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhh
Q 048610 14 KGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 14 k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
.-.||.||--++-++...|| .++.+|-+.|+. |+-..+..-|...
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~G-K~F~kIrq~LP~-rsLaSlvqyYy~~ 231 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFG-KDFHKIRQALPH-RSLASLVQYYYSW 231 (534)
T ss_pred cccchHHHHHHHHHHHHHhc-ccHHHHHHHccC-ccHHHHHHHHHHH
Confidence 45699999999999999999 599999999999 9988887776643
No 59
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=82.07 E-value=3.2 Score=26.85 Aligned_cols=48 Identities=15% Similarity=0.137 Sum_probs=37.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCC---CChhhHHHHHHhh
Q 048610 12 LRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLL---RCGKSCRLRWMNY 60 (87)
Q Consensus 12 ~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~---Rt~~qc~~rw~~~ 60 (87)
....+-|..|.+.|..||.+||. ++..+|.-...+ .|+.||+.+...+
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 45567899999999999999995 898888664311 7888888877665
No 60
>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=80.71 E-value=3.9 Score=23.48 Aligned_cols=39 Identities=23% Similarity=0.405 Sum_probs=26.1
Q ss_pred HHHHHHHHhCC-------CCccchhHHhCCCC----ChhhHHHHHHhhcC
Q 048610 24 KLIAYIRRYGI-------WNWSEMPKYAGLLR----CGKSCRLRWMNYLR 62 (87)
Q Consensus 24 ~L~~~v~~~g~-------~~W~~Ia~~~~~~R----t~~qc~~rw~~~l~ 62 (87)
.|..+|...|. +.|..||+.++... ++.+++..|.++|.
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 45566666541 26999999987532 13678888888774
No 61
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=80.61 E-value=3.4 Score=25.64 Aligned_cols=45 Identities=11% Similarity=0.161 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCCCC
Q 048610 19 PEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDI 65 (87)
Q Consensus 19 ~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~ 65 (87)
.+-|.+++.+.+..+...+..||+.++ -|+..|..|-.+..+..+
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~lg--lS~~~v~~Ri~~L~~~Gi 51 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERVG--LSPSTVLRRIKRLEEEGV 51 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCc
Confidence 356889999999999889999999999 899999999887766554
No 62
>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=80.31 E-value=2.6 Score=27.43 Aligned_cols=39 Identities=18% Similarity=0.227 Sum_probs=29.1
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHH
Q 048610 16 SWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRW 57 (87)
Q Consensus 16 ~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw 57 (87)
.||.|+.+.|.++... |. .=++||..|++ .|-+.+.-+-
T Consensus 2 ~Wtde~~~~L~~lw~~-G~-SasqIA~~lg~-vsRnAViGk~ 40 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GL-SASQIARQLGG-VSRNAVIGKA 40 (162)
T ss_pred CCCHHHHHHHHHHHHc-CC-CHHHHHHHhCC-cchhhhhhhh
Confidence 5999999999999854 42 78899999995 5555454443
No 63
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=80.26 E-value=2.6 Score=24.52 Aligned_cols=40 Identities=25% Similarity=0.498 Sum_probs=27.6
Q ss_pred HHHHHHHHhC-------CCCccchhHHhCCC----CChhhHHHHHHhhcCC
Q 048610 24 KLIAYIRRYG-------IWNWSEMPKYAGLL----RCGKSCRLRWMNYLRP 63 (87)
Q Consensus 24 ~L~~~v~~~g-------~~~W~~Ia~~~~~~----Rt~~qc~~rw~~~l~~ 63 (87)
.|..+|...| .+.|..||..++-. ..+.+.+..|.++|.|
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 4666666654 23699999998752 2356778888888754
No 64
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=78.39 E-value=1.2 Score=37.45 Aligned_cols=27 Identities=26% Similarity=0.557 Sum_probs=24.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccchh
Q 048610 15 GSWAPEEDRKLIAYIRRYGIWNWSEMP 41 (87)
Q Consensus 15 ~~WT~eED~~L~~~v~~~g~~~W~~Ia 41 (87)
.-|..++|..|+-.|-+||.++|..|-
T Consensus 1134 ~~W~~e~Ds~LLiGI~khGygswe~Ir 1160 (1373)
T KOG0384|consen 1134 CDWGSEDDSMLLIGIFKHGYGSWEAIR 1160 (1373)
T ss_pred cCCCchhhhhHhhhhhhcccccHHHhc
Confidence 459999999999999999999998874
No 65
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=78.15 E-value=11 Score=22.42 Aligned_cols=69 Identities=12% Similarity=0.342 Sum_probs=44.0
Q ss_pred CCCCHHHHHHHHHHHHHh----CCC---CccchhHH----hCCCCChhhH-------HHHHHhhcCCCCCCC---CCCHH
Q 048610 15 GSWAPEEDRKLIAYIRRY----GIW---NWSEMPKY----AGLLRCGKSC-------RLRWMNYLRPDIRRG---NFTQE 73 (87)
Q Consensus 15 ~~WT~eED~~L~~~v~~~----g~~---~W~~Ia~~----~~~~Rt~~qc-------~~rw~~~l~~~~~~~---~wt~e 73 (87)
.-||++++-.|++.+..| |.. ++...... +...=+..|. +.||.+.... .+.| .++..
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~~k-~~~g~~~~~~~~ 83 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAVKK-SKNGKDPSFSKP 83 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhhh-cccCcCCCCCCH
Confidence 459999999999988776 532 44433333 3321244454 3466665543 2223 69999
Q ss_pred HHHHHHHHHHH
Q 048610 74 EDETIIKLHEQ 84 (87)
Q Consensus 74 Ed~~L~~~v~~ 84 (87)
-|..++++...
T Consensus 84 hd~~~f~Lsk~ 94 (98)
T PF04504_consen 84 HDRRLFELSKK 94 (98)
T ss_pred hHHHHHHHHHH
Confidence 99999998764
No 66
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=76.60 E-value=7.7 Score=19.64 Aligned_cols=39 Identities=18% Similarity=0.165 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhc
Q 048610 20 EEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYL 61 (87)
Q Consensus 20 eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l 61 (87)
+++..++.+.--.+ ..+.+||..++ -|...++.+....|
T Consensus 7 ~~er~vi~~~y~~~-~t~~eIa~~lg--~s~~~V~~~~~~al 45 (50)
T PF04545_consen 7 PREREVIRLRYFEG-LTLEEIAERLG--ISRSTVRRILKRAL 45 (50)
T ss_dssp HHHHHHHHHHHTST--SHHHHHHHHT--SCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCC-CCHHHHHHHHC--CcHHHHHHHHHHHH
Confidence 45555666655445 48999999999 67777777665543
No 67
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=75.49 E-value=2.8 Score=32.10 Aligned_cols=21 Identities=29% Similarity=0.444 Sum_probs=18.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhC
Q 048610 66 RRGNFTQEEDETIIKLHEQLG 86 (87)
Q Consensus 66 ~~~~wt~eEd~~L~~~v~~~G 86 (87)
....||.+|..+|++++..||
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ 272 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYG 272 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhc
Confidence 345799999999999999998
No 68
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=71.17 E-value=1.7 Score=33.03 Aligned_cols=42 Identities=19% Similarity=0.379 Sum_probs=36.7
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHh
Q 048610 15 GSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 15 ~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
-.||++|-. +++....|+. +...||..+++ .++.|+..+|..
T Consensus 471 ~~wSp~e~s-~ircf~~y~~-~fe~ia~l~~t-ktp~Q~~~fy~~ 512 (534)
T KOG1194|consen 471 YGWSPEEKS-AIRCFHWYKD-NFELIAELMAT-KTPEQIKKFYMD 512 (534)
T ss_pred CCCCCcccc-cccCchhhcc-chHHHHHHhcC-CCHHHHHHHhcC
Confidence 359999988 7778888885 89999999999 999999999853
No 69
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=69.33 E-value=6.7 Score=29.53 Aligned_cols=22 Identities=23% Similarity=0.406 Sum_probs=19.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC
Q 048610 65 IRRGNFTQEEDETIIKLHEQLG 86 (87)
Q Consensus 65 ~~~~~wt~eEd~~L~~~v~~~G 86 (87)
+-...||.+|+.+|++++..||
T Consensus 70 i~~~~WtadEEilLLea~~t~G 91 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYG 91 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhC
Confidence 4455799999999999999877
No 70
>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=69.29 E-value=4.2 Score=23.59 Aligned_cols=24 Identities=33% Similarity=0.581 Sum_probs=20.8
Q ss_pred HHHHHHHHHHhCCCCccchhHHhCC
Q 048610 22 DRKLIAYIRRYGIWNWSEMPKYAGL 46 (87)
Q Consensus 22 D~~L~~~v~~~g~~~W~~Ia~~~~~ 46 (87)
|+.|..+...-|. +|..+|.+++-
T Consensus 2 ~~~L~~la~~LG~-~W~~Lar~Lgl 25 (83)
T cd08319 2 DRELNQLAQRLGP-EWEQVLLDLGL 25 (83)
T ss_pred HHHHHHHHHHHhh-hHHHHHHHcCC
Confidence 5778899999994 99999999884
No 71
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=68.44 E-value=7.2 Score=28.96 Aligned_cols=27 Identities=33% Similarity=0.544 Sum_probs=22.7
Q ss_pred CCCCCCCCC-CCHHHHHHHHHHHHHhCC
Q 048610 8 EKPSLRKGS-WAPEEDRKLIAYIRRYGI 34 (87)
Q Consensus 8 ~~p~~~k~~-WT~eED~~L~~~v~~~g~ 34 (87)
++|+.+-|+ ||.||=.+|.+++.+||.
T Consensus 165 CnPHNP~Grvwt~eeL~~i~elc~kh~v 192 (388)
T COG1168 165 CNPHNPTGRVWTKEELRKIAELCLRHGV 192 (388)
T ss_pred eCCCCCCCccccHHHHHHHHHHHHHcCC
Confidence 467777776 999999999999999963
No 72
>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=68.40 E-value=4.8 Score=23.37 Aligned_cols=24 Identities=17% Similarity=0.535 Sum_probs=20.4
Q ss_pred HHHHHHHHHHhCCCCccchhHHhCC
Q 048610 22 DRKLIAYIRRYGIWNWSEMPKYAGL 46 (87)
Q Consensus 22 D~~L~~~v~~~g~~~W~~Ia~~~~~ 46 (87)
|.+|..+....|. +|..+|..|+-
T Consensus 4 d~~l~~ia~~LG~-dW~~LA~eLg~ 27 (84)
T cd08803 4 DIRMAIVADHLGL-SWTELARELNF 27 (84)
T ss_pred HHHHHHHHHHhhc-cHHHHHHHcCC
Confidence 5678888888895 99999999984
No 73
>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=66.60 E-value=14 Score=18.18 Aligned_cols=28 Identities=25% Similarity=0.303 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHhCCCCccchhHHhCCCC
Q 048610 20 EEDRKLIAYIRRYGIWNWSEMPKYAGLLR 48 (87)
Q Consensus 20 eED~~L~~~v~~~g~~~W~~Ia~~~~~~R 48 (87)
-|.+.|.+++..++ ++.+..|+.++-.|
T Consensus 5 ~E~~~i~~aL~~~~-gn~~~aA~~Lgisr 32 (42)
T PF02954_consen 5 FEKQLIRQALERCG-GNVSKAARLLGISR 32 (42)
T ss_dssp HHHHHHHHHHHHTT-T-HHHHHHHHTS-H
T ss_pred HHHHHHHHHHHHhC-CCHHHHHHHHCCCH
Confidence 47788888999998 69999999998433
No 74
>PF01466 Skp1: Skp1 family, dimerisation domain; InterPro: IPR016072 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a dimerisation domain found at the C-terminal of SKP1 proteins [], as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. This domain is multi-helical in structure, and consists of an interlocked herterodimer in F-box proteins.; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 2P1O_A 3OGL_G 3OGM_A 3C6O_A 2P1N_A 2P1Q_A 3OGK_I 3C6N_A 3C6P_A 2P1P_A ....
Probab=64.33 E-value=19 Score=20.19 Aligned_cols=36 Identities=22% Similarity=0.237 Sum_probs=25.5
Q ss_pred ccchhHHhCCCCChhhHHHHHHhhcCCCCCCCCCCHHHHHHHHH
Q 048610 37 WSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQEEDETIIK 80 (87)
Q Consensus 37 W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~~wt~eEd~~L~~ 80 (87)
-..||..+.+ +|+.++|.-+. + ...+|++|+..|.+
T Consensus 36 ~~~iA~~i~g-ks~eeir~~fg------i-~~d~t~eee~~i~~ 71 (78)
T PF01466_consen 36 CKYIANMIKG-KSPEEIRKYFG------I-ENDLTPEEEEEIRK 71 (78)
T ss_dssp HHHHHHHHTT-S-HHHHHHHHT----------TSSHHHHHHHHH
T ss_pred HHHHHHHhcC-CCHHHHHHHcC------C-CCCCCHHHHHHHHH
Confidence 4678888888 99999999872 2 23699998887643
No 75
>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=62.19 E-value=16 Score=26.56 Aligned_cols=42 Identities=19% Similarity=0.192 Sum_probs=32.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCCC---ccchhHHhCCCCChhhHHHHH
Q 048610 15 GSWAPEEDRKLIAYIRRYGIWN---WSEMPKYAGLLRCGKSCRLRW 57 (87)
Q Consensus 15 ~~WT~eED~~L~~~v~~~g~~~---W~~Ia~~~~~~Rt~~qc~~rw 57 (87)
..||.-|...|+.+.+...... -..|++.+.+ |+..++++--
T Consensus 22 ~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~-Rs~aEI~~fl 66 (344)
T PF11035_consen 22 AAWSAREKRQLLRLLQARRGQPEPDAAELAKELPG-RSEAEIRDFL 66 (344)
T ss_pred ccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccC-cCHHHHHHHH
Confidence 4699999999999988663233 4567778898 9998888743
No 76
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=62.10 E-value=7 Score=29.87 Aligned_cols=21 Identities=19% Similarity=0.284 Sum_probs=18.7
Q ss_pred CCCCCHHHHHHHHHHHHHhCC
Q 048610 67 RGNFTQEEDETIIKLHEQLGN 87 (87)
Q Consensus 67 ~~~wt~eEd~~L~~~v~~~Gn 87 (87)
..+||.+|..+|++.++.||.
T Consensus 279 dk~WS~qE~~LLLEGIe~ygD 299 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGD 299 (531)
T ss_pred cccccHHHHHHHHHHHHHhhh
Confidence 348999999999999999983
No 77
>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=61.84 E-value=18 Score=22.03 Aligned_cols=24 Identities=13% Similarity=0.105 Sum_probs=19.9
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
-.+.+||..++ .+...++.+....
T Consensus 130 ~~~~eIA~~lg--is~~tv~~~~~ra 153 (161)
T TIGR02985 130 KSYKEIAEELG--ISVKTVEYHISKA 153 (161)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHHH
Confidence 38999999998 8888888887764
No 78
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=61.03 E-value=28 Score=20.68 Aligned_cols=44 Identities=23% Similarity=0.281 Sum_probs=33.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCC-ChhhHHHHHHhhc
Q 048610 14 KGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLR-CGKSCRLRWMNYL 61 (87)
Q Consensus 14 k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~R-t~~qc~~rw~~~l 61 (87)
+..||+|.-..+++++..-|. .-+.||+.++ - ++. ...+|...+
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~-sv~~vAr~~g--v~~~~-~l~~W~~~~ 49 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGD-TVSEVAREFG--IVSAT-QLYKWRIQL 49 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCc-cHHHHHHHhC--CCChH-HHHHHHHHH
Confidence 668999999999999998885 7899999998 4 343 344455433
No 79
>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=57.41 E-value=6.8 Score=22.38 Aligned_cols=24 Identities=21% Similarity=0.495 Sum_probs=19.5
Q ss_pred HHHHHHHHHHhCCCCccchhHHhCC
Q 048610 22 DRKLIAYIRRYGIWNWSEMPKYAGL 46 (87)
Q Consensus 22 D~~L~~~v~~~g~~~W~~Ia~~~~~ 46 (87)
|..|..+....| .+|.++|..|+-
T Consensus 4 ~~~l~~ia~~lG-~dW~~LAr~Lg~ 27 (84)
T cd08317 4 DIRLADISNLLG-SDWPQLARELGV 27 (84)
T ss_pred cchHHHHHHHHh-hHHHHHHHHcCC
Confidence 556777888888 599999999873
No 80
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=57.15 E-value=21 Score=26.65 Aligned_cols=43 Identities=16% Similarity=0.204 Sum_probs=36.7
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccchhHH-hCCCCChhhHHHHHHh
Q 048610 15 GSWAPEEDRKLIAYIRRYGIWNWSEMPKY-AGLLRCGKSCRLRWMN 59 (87)
Q Consensus 15 ~~WT~eED~~L~~~v~~~g~~~W~~Ia~~-~~~~Rt~~qc~~rw~~ 59 (87)
..||.+|-...-+.++.|| +++..|-.. +.+ |+-..|-.-|+-
T Consensus 278 ~~wsEeEcr~FEegl~~yG-KDF~lIr~nkvrt-RsvgElVeyYYl 321 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYG-KDFHLIRANKVRT-RSVGELVEYYYL 321 (445)
T ss_pred ccCCHHHHHHHHHHHHHhc-ccHHHHHhccccc-chHHHHHHHHHH
Confidence 3599999999999999999 599999755 777 999999887754
No 81
>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=53.55 E-value=10 Score=21.83 Aligned_cols=24 Identities=17% Similarity=0.552 Sum_probs=19.6
Q ss_pred HHHHHHHHHHhCCCCccchhHHhCC
Q 048610 22 DRKLIAYIRRYGIWNWSEMPKYAGL 46 (87)
Q Consensus 22 D~~L~~~v~~~g~~~W~~Ia~~~~~ 46 (87)
|.+|..+....|. +|..+|..|+-
T Consensus 4 ~~~l~~ia~~LG~-dWk~LAr~Lg~ 27 (84)
T cd08804 4 EERLAVIADHLGF-SWTELARELDF 27 (84)
T ss_pred hhHHHHHHHHHhh-hHHHHHHHcCC
Confidence 4567778888895 89999999884
No 82
>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=53.07 E-value=12 Score=21.74 Aligned_cols=24 Identities=17% Similarity=0.505 Sum_probs=19.3
Q ss_pred HHHHHHHHHHhCCCCccchhHHhCC
Q 048610 22 DRKLIAYIRRYGIWNWSEMPKYAGL 46 (87)
Q Consensus 22 D~~L~~~v~~~g~~~W~~Ia~~~~~ 46 (87)
|-+|..+++..|. +|.++|..|+-
T Consensus 4 ~~~l~~Ia~~LG~-dW~~Lar~L~v 27 (84)
T cd08805 4 EMKMAVIREHLGL-SWAELARELQF 27 (84)
T ss_pred hhHHHHHHHHhcc-hHHHHHHHcCC
Confidence 4567777888895 99999999874
No 83
>COG5201 SKP1 SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, chaperones]
Probab=49.58 E-value=26 Score=22.48 Aligned_cols=53 Identities=15% Similarity=0.155 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHhCCC--------CccchhHHhCCCCChhhHHHHHHhhcCCCCCCCCCCHHHHHHHHH
Q 048610 20 EEDRKLIAYIRRYGIW--------NWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQEEDETIIK 80 (87)
Q Consensus 20 eED~~L~~~v~~~g~~--------~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~~wt~eEd~~L~~ 80 (87)
-+.+.|++++..-..- .=+.||..+.+ +++..++.-+. . -..||+||+..+.+
T Consensus 90 vDqemL~eI~laaNYL~ikpLLd~gCKivaemirg-kSpeeir~tfn-i------~ndfTpEEe~~irk 150 (158)
T COG5201 90 VDQEMLLEICLAANYLEIKPLLDLGCKIVAEMIRG-KSPEEIRETFN-I------ENDFTPEEERRIRK 150 (158)
T ss_pred hhHHHHHHHHHhhccccchHHHHHHHHHHHHHHcc-CCHHHHHHHhC-C------CCCCCHHHHHHHHH
Confidence 3455666666532111 13568888888 99999987652 2 23699999998754
No 84
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=49.27 E-value=32 Score=22.24 Aligned_cols=34 Identities=18% Similarity=0.258 Sum_probs=24.3
Q ss_pred HHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHh
Q 048610 23 RKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 23 ~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
..++.+..-.|. .+.+||..++ -|+..++.+|..
T Consensus 141 ~~~v~l~~~~Gl-s~~EIA~~lg--iS~~tV~r~l~~ 174 (185)
T PF07638_consen 141 RRVVELRFFEGL-SVEEIAERLG--ISERTVRRRLRR 174 (185)
T ss_pred HHHHHHHHHCCC-CHHHHHHHHC--cCHHHHHHHHHH
Confidence 333344344464 8999999998 788888888765
No 85
>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=48.95 E-value=13 Score=20.42 Aligned_cols=23 Identities=22% Similarity=0.371 Sum_probs=16.7
Q ss_pred HHHHHHHHhCCCCccchhHHhCC
Q 048610 24 KLIAYIRRYGIWNWSEMPKYAGL 46 (87)
Q Consensus 24 ~L~~~v~~~g~~~W~~Ia~~~~~ 46 (87)
.|..++......+|..+|..++-
T Consensus 2 ~l~~~l~~~~~~~Wk~La~~Lg~ 24 (83)
T PF00531_consen 2 KLFDLLAEDLGSDWKRLARKLGL 24 (83)
T ss_dssp HHHHHHHHSHSTCHHHHHHHTTS
T ss_pred hHHHHHhhcchhhHHHHHHHhCc
Confidence 45666655544699999999874
No 86
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=47.77 E-value=25 Score=26.41 Aligned_cols=27 Identities=15% Similarity=0.352 Sum_probs=21.1
Q ss_pred HHHHhhcCCCCCCCCCCHHHHHHHHHHHHHh
Q 048610 55 LRWMNYLRPDIRRGNFTQEEDETIIKLHEQL 85 (87)
Q Consensus 55 ~rw~~~l~~~~~~~~wt~eEd~~L~~~v~~~ 85 (87)
+.|..+|+. ..||.+|-.-|+.+++.|
T Consensus 122 eEYe~~l~d----n~WskeETD~LF~lck~f 148 (445)
T KOG2656|consen 122 EEYEAHLND----NSWSKEETDYLFDLCKRF 148 (445)
T ss_pred HHHHHhhcc----ccccHHHHHHHHHHHHhc
Confidence 455556553 469999999999999876
No 87
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition. This family consists of various Escherichia coli insertion elements and other bacterial transposases some of which are members of the IS3 family. This region includes a helix-turn-helix motif (HTH) at the N terminus followed by a leucine zipper (LZ) motif. The LZ motif has been shown to mediate oligomerisation of the transposase components in IS911 []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2JN6_A 2RN7_A.
Probab=47.53 E-value=19 Score=19.52 Aligned_cols=45 Identities=18% Similarity=0.279 Sum_probs=30.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhc
Q 048610 13 RKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYL 61 (87)
Q Consensus 13 ~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l 61 (87)
++..||+|+-..++..+...| ..-..||..++- ..+...+|...+
T Consensus 3 ~r~~ys~e~K~~~v~~~~~~g-~sv~~va~~~gi---~~~~l~~W~~~~ 47 (76)
T PF01527_consen 3 KRRRYSPEFKLQAVREYLESG-ESVSEVAREYGI---SPSTLYNWRKQY 47 (76)
T ss_dssp SS----HHHHHHHHHHHHHHH-CHHHHHHHHHTS----HHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHHHHCC-CceEeeeccccc---ccccccHHHHHH
Confidence 356899999999999996667 488999988873 345566777765
No 88
>TIGR02957 SigX4 RNA polymerase sigma-70 factor, TIGR02957 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building and bidirectional best hits, to represent a conserved family. This family is found in a limited number of bacterial lineages. This family includes apparent paralogous expansion in Streptomyces coelicolor A3(2), and multiple copies in Mycobacterium smegmatis MC2, Streptomyces avermitilis MA-4680 and Nocardia farcinica IFM10152.
Probab=47.02 E-value=94 Score=21.47 Aligned_cols=45 Identities=18% Similarity=0.308 Sum_probs=29.8
Q ss_pred CccchhHHhCCCCChhhHHHHHHhh---cCCCCCCCCCCHHHHHHHHHHH
Q 048610 36 NWSEMPKYAGLLRCGKSCRLRWMNY---LRPDIRRGNFTQEEDETIIKLH 82 (87)
Q Consensus 36 ~W~~Ia~~~~~~Rt~~qc~~rw~~~---l~~~~~~~~wt~eEd~~L~~~v 82 (87)
+-.+||..|+ .|...|+.+..+- |........-..++...|++..
T Consensus 126 s~~EIA~~lg--~s~~tVr~~l~RAr~~Lr~~~~~~~~~~~~~~~~~~~f 173 (281)
T TIGR02957 126 PYEEIASIVG--KSEANCRQLVSRARRHLDARRPRFEVSREESRQLLERF 173 (281)
T ss_pred CHHHHHHHHC--CCHHHHHHHHHHHHHHHHhhCCCCCCChHHHHHHHHHH
Confidence 6789999999 8999998877653 3332322345666666665543
No 89
>PF09846 DUF2073: Uncharacterized protein conserved in archaea (DUF2073); InterPro: IPR012017 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=46.55 E-value=20 Score=21.84 Aligned_cols=17 Identities=35% Similarity=0.497 Sum_probs=14.1
Q ss_pred CCCCHHHHHHHHHHHHH
Q 048610 15 GSWAPEEDRKLIAYIRR 31 (87)
Q Consensus 15 ~~WT~eED~~L~~~v~~ 31 (87)
+-|||+|+..|++.--.
T Consensus 27 ~GLtPeEe~~LIE~TM~ 43 (104)
T PF09846_consen 27 EGLTPEEESKLIEMTMT 43 (104)
T ss_pred CCCChHHHHHHHHHHHH
Confidence 46999999999997643
No 90
>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=44.36 E-value=42 Score=19.69 Aligned_cols=27 Identities=15% Similarity=0.180 Sum_probs=19.9
Q ss_pred hCCCCccchhHHhCCCCChhhHHHHHHhhc
Q 048610 32 YGIWNWSEMPKYAGLLRCGKSCRLRWMNYL 61 (87)
Q Consensus 32 ~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l 61 (87)
.| .++.+||..++ -+...++.+....+
T Consensus 125 ~g-~s~~eIA~~l~--~s~~~v~~~~~~~~ 151 (158)
T TIGR02937 125 EG-LSYKEIAEILG--ISVGTVKRRLKRAR 151 (158)
T ss_pred cC-CCHHHHHHHHC--CCHHHHHHHHHHHH
Confidence 35 48999999998 67777777766543
No 91
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=44.07 E-value=15 Score=18.34 Aligned_cols=35 Identities=26% Similarity=0.410 Sum_probs=16.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHH
Q 048610 16 SWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCR 54 (87)
Q Consensus 16 ~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~ 54 (87)
.+|.+|-..+..+. ..| ..-.+||+.|+ |+...+.
T Consensus 4 ~Lt~~eR~~I~~l~-~~G-~s~~~IA~~lg--~s~sTV~ 38 (44)
T PF13936_consen 4 HLTPEERNQIEALL-EQG-MSIREIAKRLG--RSRSTVS 38 (44)
T ss_dssp --------HHHHHH-CS----HHHHHHHTT----HHHHH
T ss_pred chhhhHHHHHHHHH-HcC-CCHHHHHHHHC--cCcHHHH
Confidence 47788877777664 345 37889999999 7776554
No 92
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=43.94 E-value=25 Score=19.54 Aligned_cols=22 Identities=23% Similarity=0.656 Sum_probs=17.6
Q ss_pred HHHHHHHHHHhCCCCccchhHHhCC
Q 048610 22 DRKLIAYIRRYGIWNWSEMPKYAGL 46 (87)
Q Consensus 22 D~~L~~~v~~~g~~~W~~Ia~~~~~ 46 (87)
+.+|.++|..|| |...+..+.-
T Consensus 12 e~il~~Lv~~yG---W~~L~~~i~i 33 (64)
T PF09905_consen 12 ETILTELVEHYG---WEELGERINI 33 (64)
T ss_dssp HHHHHHHHHHT----HHHHHHHTTS
T ss_pred HHHHHHHHHHhC---HHHHHhhccc
Confidence 567888999998 9999998764
No 93
>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=43.41 E-value=16 Score=21.12 Aligned_cols=23 Identities=26% Similarity=0.619 Sum_probs=19.6
Q ss_pred HHHHHHHHHhCCCCccchhHHhCC
Q 048610 23 RKLIAYIRRYGIWNWSEMPKYAGL 46 (87)
Q Consensus 23 ~~L~~~v~~~g~~~W~~Ia~~~~~ 46 (87)
+.|..+....|. +|..+|..++-
T Consensus 3 ~~l~~ia~~LG~-~Wk~lar~LGl 25 (86)
T cd08779 3 SNLLSIAGRLGL-DWQAIGLHLGL 25 (86)
T ss_pred hHHHHHHHHHhH-HHHHHHHHcCC
Confidence 467888899995 99999999874
No 94
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=42.14 E-value=20 Score=19.95 Aligned_cols=19 Identities=21% Similarity=0.436 Sum_probs=14.2
Q ss_pred HHHHHHHHHhCCCCccchhH
Q 048610 23 RKLIAYIRRYGIWNWSEMPK 42 (87)
Q Consensus 23 ~~L~~~v~~~g~~~W~~Ia~ 42 (87)
..|.+|.+.|+ ++|.-|-.
T Consensus 30 ~vl~~LL~lY~-~nW~lIEe 48 (65)
T PF10440_consen 30 PVLKNLLKLYD-GNWELIEE 48 (65)
T ss_pred HHHHHHHHHHc-CCchhhhc
Confidence 35777888999 47988863
No 95
>PF10892 DUF2688: Protein of unknown function (DUF2688); InterPro: IPR024392 Members of this protein family are annotated as KleB, and may play a role in the regulation of transcription in plasmids.
Probab=41.28 E-value=27 Score=19.01 Aligned_cols=14 Identities=36% Similarity=0.646 Sum_probs=11.4
Q ss_pred CCCHHHHHHHHHHH
Q 048610 16 SWAPEEDRKLIAYI 29 (87)
Q Consensus 16 ~WT~eED~~L~~~v 29 (87)
--|||||..+.++.
T Consensus 44 CitpEE~~~I~e~~ 57 (60)
T PF10892_consen 44 CITPEEDREILEAT 57 (60)
T ss_pred cCCHHHHHHHHHHH
Confidence 46899999998764
No 96
>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=40.34 E-value=57 Score=20.57 Aligned_cols=22 Identities=9% Similarity=0.160 Sum_probs=16.0
Q ss_pred CCccchhHHhCCCCChhhHHHHHH
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWM 58 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~ 58 (87)
..|-.||..+. -+..+|+..+.
T Consensus 100 ~TW~~IA~~l~--i~erta~r~~~ 121 (130)
T PF05263_consen 100 RTWYQIAQKLH--ISERTARRWRD 121 (130)
T ss_pred chHHHHHHHhC--ccHHHHHHHHH
Confidence 47999999987 66666665443
No 97
>PF09548 Spore_III_AB: Stage III sporulation protein AB (spore_III_AB); InterPro: IPR014198 This entry represents the stage III sporulation protein AB, which is encoded in a spore formation operon: spoIIIAABCDEFGH that is under sigma G regulation []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.
Probab=40.26 E-value=54 Score=21.17 Aligned_cols=50 Identities=16% Similarity=0.347 Sum_probs=40.2
Q ss_pred ccchhHHhCCCCChhhHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhCC
Q 048610 37 WSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQEEDETIIKLHEQLGN 87 (87)
Q Consensus 37 W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~~wt~eEd~~L~~~v~~~Gn 87 (87)
...+|..+.. +.......-|...++........+.+|-..|.++-..+|.
T Consensus 70 f~~~a~~L~~-~~~~~~~~~w~~~~~~~~~~~~L~~~d~e~L~~lg~~LG~ 119 (170)
T PF09548_consen 70 FERVAERLEK-NEGESFAEAWEEAVEKLLKESALKKEDKEILLELGKSLGY 119 (170)
T ss_pred HHHHHHHHHc-CCCCCHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcc
Confidence 4667777776 6777888889988887777888999999999998887773
No 98
>PF11216 DUF3012: Protein of unknown function (DUF3012); InterPro: IPR021379 This family of proteins with unknown function is restricted to Gammaproteobacteria.
Probab=40.08 E-value=17 Score=17.50 Aligned_cols=13 Identities=31% Similarity=0.680 Sum_probs=9.8
Q ss_pred CCCCCCCHHHHHH
Q 048610 12 LRKGSWAPEEDRK 24 (87)
Q Consensus 12 ~~k~~WT~eED~~ 24 (87)
.+||.||.+|-.-
T Consensus 13 kpK~dWtanea~~ 25 (32)
T PF11216_consen 13 KPKGDWTANEAAD 25 (32)
T ss_pred CCcccCcHhHHHH
Confidence 4589999988653
No 99
>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=40.02 E-value=24 Score=20.28 Aligned_cols=21 Identities=10% Similarity=0.468 Sum_probs=15.7
Q ss_pred HHHHHHHhCCCCccchhHHhCC
Q 048610 25 LIAYIRRYGIWNWSEMPKYAGL 46 (87)
Q Consensus 25 L~~~v~~~g~~~W~~Ia~~~~~ 46 (87)
|..+....| .+|..+|..|+-
T Consensus 10 l~~ia~~iG-~~Wk~Lar~LGl 30 (86)
T cd08318 10 ITVFANKLG-EDWKTLAPHLEM 30 (86)
T ss_pred HHHHHHHHh-hhHHHHHHHcCC
Confidence 334566778 499999999984
No 100
>PF04435 SPK: Domain of unknown function (DUF545) ; InterPro: IPR006570 SPK is a domain of unknown function found in SET and PHD domain containing proteins and protein kinases.
Probab=39.22 E-value=30 Score=20.23 Aligned_cols=43 Identities=33% Similarity=0.552 Sum_probs=32.4
Q ss_pred ccchhHHhCCCCChhhHHHHHHhhcCCCCC-CCCCCHHHHHHHH
Q 048610 37 WSEMPKYAGLLRCGKSCRLRWMNYLRPDIR-RGNFTQEEDETII 79 (87)
Q Consensus 37 W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~-~~~wt~eEd~~L~ 79 (87)
|.+.....+..++....+.||.+.+.|.+. ...++.+.-..|+
T Consensus 25 ~~~f~~~~~~~~~~~~l~~~~~~~l~~~i~~~~~~d~~tk~~m~ 68 (109)
T PF04435_consen 25 WEEFKKKSGSKRSPKSLRKRFRRKLAPNIHKLSDFDLETKAKML 68 (109)
T ss_pred HHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHH
Confidence 666666666668888889999988887776 6678877766654
No 101
>PRK02866 cyanate hydratase; Validated
Probab=38.88 E-value=1.1e+02 Score=19.79 Aligned_cols=30 Identities=17% Similarity=0.385 Sum_probs=22.2
Q ss_pred HHHHHHHHHhCCCCccchhHHhCCCCChhhHHH
Q 048610 23 RKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRL 55 (87)
Q Consensus 23 ~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~ 55 (87)
+.|+++-.+.|. .|.+||+.++ ++..-+..
T Consensus 8 e~Ll~AK~~kGL-Tw~~IA~~iG--~S~v~vaa 37 (147)
T PRK02866 8 EKILAAKKEKGL-TWADIAEAIG--LSEVWVTA 37 (147)
T ss_pred HHHHHHHHHcCC-CHHHHHHHhC--CCHHHHHH
Confidence 457777777785 9999999987 77764443
No 102
>PLN03079 Uncharacterized protein At4g33100; Provisional
Probab=38.46 E-value=50 Score=19.63 Aligned_cols=30 Identities=17% Similarity=0.360 Sum_probs=18.3
Q ss_pred hhHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHH
Q 048610 51 KSCRLRWMNYLRPDIRRGNFTQEEDETIIKLHE 83 (87)
Q Consensus 51 ~qc~~rw~~~l~~~~~~~~wt~eEd~~L~~~v~ 83 (87)
.+|.++|..- ..=+|.|+.+|-.-+++.++
T Consensus 26 D~CFN~WYsE---kFLKG~~~~~eC~~~w~~Yq 55 (91)
T PLN03079 26 HNCFNRWYSE---KFVKGQWDKEDCVAEWHKYR 55 (91)
T ss_pred HHHHHHHHHH---hhhcCCcccchHHHHHHHHH
Confidence 5788888642 22347777766666665554
No 103
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=38.30 E-value=59 Score=20.06 Aligned_cols=24 Identities=13% Similarity=0.133 Sum_probs=18.0
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
.....||..++ -+...++.+....
T Consensus 142 ~~~~eIA~~lg--is~~tv~~~~~ra 165 (179)
T PRK11924 142 LSYREIAEILG--VPVGTVKSRLRRA 165 (179)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHHH
Confidence 37889999998 6777777766543
No 104
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=38.26 E-value=63 Score=16.94 Aligned_cols=36 Identities=19% Similarity=0.504 Sum_probs=22.2
Q ss_pred CHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHH
Q 048610 18 APEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRW 57 (87)
Q Consensus 18 T~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw 57 (87)
-..+|+..+.+....|. .=.+||+.++ |+- .|-.+|
T Consensus 5 Lt~~Eqaqid~m~qlG~-s~~~isr~i~--RSr-~~Ir~y 40 (50)
T PF11427_consen 5 LTDAEQAQIDVMHQLGM-SLREISRRIG--RSR-TCIRRY 40 (50)
T ss_dssp --HHHHHHHHHHHHTT---HHHHHHHHT----H-HHHHHH
T ss_pred CCHHHHHHHHHHHHhch-hHHHHHHHhC--ccH-HHHHHH
Confidence 34556667777778885 8889999999 665 355555
No 105
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=37.90 E-value=64 Score=20.78 Aligned_cols=23 Identities=9% Similarity=0.229 Sum_probs=18.6
Q ss_pred CCccchhHHhCCCCChhhHHHHHHh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
.+..+||..++ -+...++.|...
T Consensus 151 ~s~~EIA~~lg--~s~~tV~~rl~r 173 (192)
T PRK09643 151 YSVADAARMLG--VAEGTVKSRCAR 173 (192)
T ss_pred CCHHHHHHHHC--cCHHHHHHHHHH
Confidence 48999999999 777788877754
No 106
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=37.50 E-value=23 Score=20.50 Aligned_cols=23 Identities=17% Similarity=0.387 Sum_probs=17.1
Q ss_pred HHHHHHHHHhCCCCccchhHHhCC
Q 048610 23 RKLIAYIRRYGIWNWSEMPKYAGL 46 (87)
Q Consensus 23 ~~L~~~v~~~g~~~W~~Ia~~~~~ 46 (87)
+.|-.+...-| .+|..+|+.|+-
T Consensus 3 ~~l~~l~~~lG-~~Wk~lar~LG~ 25 (86)
T cd08777 3 KHLDLLRENLG-KKWKRCARKLGF 25 (86)
T ss_pred HHHHHHHHHHH-HHHHHHHHHcCC
Confidence 44555666668 499999999984
No 107
>smart00351 PAX Paired Box domain.
Probab=37.02 E-value=99 Score=18.86 Aligned_cols=72 Identities=13% Similarity=0.182 Sum_probs=46.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCC-ChhhHHHHHHh--hcCCCC----CCCCCCHHHHHHHHHHHHHh
Q 048610 13 RKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLR-CGKSCRLRWMN--YLRPDI----RRGNFTQEEDETIIKLHEQL 85 (87)
Q Consensus 13 ~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~R-t~~qc~~rw~~--~l~~~~----~~~~wt~eEd~~L~~~v~~~ 85 (87)
.-.+.|.++-++++.++. -| ..-..||+.|+-.+ |...+..||.. .+.|.. ....-+...+..|+.++.+.
T Consensus 14 ~~~~~s~~~R~riv~~~~-~G-~s~~~iA~~~gvs~~tV~kwi~r~~~~G~~~pk~~gg~rp~~~~~~~~~~I~~~~~~~ 91 (125)
T smart00351 14 NGRPLPDEERQRIVELAQ-NG-VRPCDISRQLCVSHGCVSKILGRYYETGSIRPGAIGGSKPKVATPKVVKKIADYKQEN 91 (125)
T ss_pred CCCCCCHHHHHHHHHHHH-cC-CCHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCcCCCCCCCCccCHHHHHHHHHHHHHC
Confidence 345699999999998886 45 37899999988543 44555666654 344422 12235666677777777654
Q ss_pred C
Q 048610 86 G 86 (87)
Q Consensus 86 G 86 (87)
+
T Consensus 92 p 92 (125)
T smart00351 92 P 92 (125)
T ss_pred C
Confidence 3
No 108
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=35.81 E-value=68 Score=20.15 Aligned_cols=24 Identities=8% Similarity=-0.045 Sum_probs=18.2
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
.+..+||..++ -|...++.+..+.
T Consensus 153 ~s~~eIA~~lg--is~~~v~~~l~Ra 176 (187)
T PRK09641 153 LSLKEISEILD--LPVGTVKTRIHRG 176 (187)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHHH
Confidence 47899999998 6777777776543
No 109
>KOG3200 consensus Uncharacterized conserved protein [Function unknown]
Probab=35.53 E-value=34 Score=23.11 Aligned_cols=27 Identities=15% Similarity=0.213 Sum_probs=20.5
Q ss_pred CCHHHHHHHHHHHHHhCCCCccchhHH
Q 048610 17 WAPEEDRKLIAYIRRYGIWNWSEMPKY 43 (87)
Q Consensus 17 WT~eED~~L~~~v~~~g~~~W~~Ia~~ 43 (87)
=|.||+.+++..+..-..-+|..++..
T Consensus 21 It~EEe~~~lshIe~ap~pkW~~L~NR 47 (224)
T KOG3200|consen 21 ITEEEENLYLSHIENAPQPKWRVLANR 47 (224)
T ss_pred cChHHHHHHHHHHhcCCCchhHHHHhh
Confidence 477888888888877765689888753
No 110
>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=35.23 E-value=26 Score=19.54 Aligned_cols=24 Identities=29% Similarity=0.667 Sum_probs=18.1
Q ss_pred HHHHHHHHHH-hCCCCccchhHHhCC
Q 048610 22 DRKLIAYIRR-YGIWNWSEMPKYAGL 46 (87)
Q Consensus 22 D~~L~~~v~~-~g~~~W~~Ia~~~~~ 46 (87)
++.|..++.. .| .+|..+|+.++.
T Consensus 5 ~~~~~~l~~~~~g-~~W~~la~~Lg~ 29 (88)
T smart00005 5 REKLAKLLDHPLG-LDWRELARKLGL 29 (88)
T ss_pred HHHHHHHHcCccc-hHHHHHHHHcCC
Confidence 4566666666 56 599999999985
No 111
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=34.77 E-value=78 Score=19.56 Aligned_cols=23 Identities=17% Similarity=0.224 Sum_probs=16.8
Q ss_pred CCccchhHHhCCCCChhhHHHHHHh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
-+...||..++ -+...++.+...
T Consensus 145 ~s~~eIA~~lg--is~~tV~~~l~r 167 (182)
T PRK09652 145 LSYEEIAEIMG--CPIGTVRSRIFR 167 (182)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHH
Confidence 38999999998 666666655544
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=34.61 E-value=31 Score=19.63 Aligned_cols=26 Identities=31% Similarity=0.460 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHhCCCCccchhHHhCC
Q 048610 19 PEEDRKLIAYIRRYGIWNWSEMPKYAGL 46 (87)
Q Consensus 19 ~eED~~L~~~v~~~g~~~W~~Ia~~~~~ 46 (87)
.||-++|+..= .-| .+|...|..|+-
T Consensus 2 ~~~v~~ll~~~-nlG-~dW~~LA~~LG~ 27 (77)
T cd08311 2 QEEVEKLLESG-RPG-RDWRSLAGELGY 27 (77)
T ss_pred hHHHHHHHhCC-CCc-cCHHHHHHHcCC
Confidence 57778777322 234 589999999984
No 113
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=34.60 E-value=70 Score=20.36 Aligned_cols=24 Identities=8% Similarity=0.062 Sum_probs=18.9
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
-....||..++ -+...++.+....
T Consensus 155 ~s~~eIA~~lg--is~~tv~~~l~Ra 178 (193)
T PRK11923 155 LSYEDIASVMQ--CPVGTVRSRIFRA 178 (193)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHHH
Confidence 37889999998 7788888877654
No 114
>PRK01905 DNA-binding protein Fis; Provisional
Probab=34.36 E-value=88 Score=17.45 Aligned_cols=31 Identities=26% Similarity=0.211 Sum_probs=23.8
Q ss_pred CHHHHHHHHHHHHHhCCCCccchhHHhCCCCC
Q 048610 18 APEEDRKLIAYIRRYGIWNWSEMPKYAGLLRC 49 (87)
Q Consensus 18 T~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt 49 (87)
..-|.+.+..++..++ ++.++.|+.++-.|+
T Consensus 35 ~~~E~~~i~~aL~~~~-gn~s~aAr~LGIsrs 65 (77)
T PRK01905 35 SCVEKPLLEVVMEQAG-GNQSLAAEYLGINRN 65 (77)
T ss_pred HHHHHHHHHHHHHHcC-CCHHHHHHHHCCCHH
Confidence 3457777888888888 599999999885343
No 115
>COG1460 Uncharacterized protein conserved in archaea [Function unknown]
Probab=34.12 E-value=1.2e+02 Score=18.83 Aligned_cols=62 Identities=15% Similarity=0.131 Sum_probs=40.7
Q ss_pred CCCHHHHHHHHHHHHHhCCC---CccchhHHhCCCCChhhHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHh
Q 048610 16 SWAPEEDRKLIAYIRRYGIW---NWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQEEDETIIKLHEQL 85 (87)
Q Consensus 16 ~WT~eED~~L~~~v~~~g~~---~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~~wt~eEd~~L~~~v~~~ 85 (87)
.|.++.=..|.+=....+.. -=.+||..+| ||+...|.-|-+.-. +-|.++-..|+..+.+|
T Consensus 47 kldpe~a~e~veEL~~i~~~~e~~avkIadI~P--~t~~ElRsIla~e~~------~~s~E~l~~Ildiv~Ky 111 (114)
T COG1460 47 KLDPEKARELVEELLSIVKMSEKIAVKIADIMP--RTPDELRSILAKERV------MLSDEELDKILDIVDKY 111 (114)
T ss_pred cCCHHHHHHHHHHHHhhccccHHHHHHHHHhCC--CCHHHHHHHHHHccC------CCCHHHHHHHHHHHHHH
Confidence 45566555544433322211 1357888888 999999888765422 33999999999998876
No 116
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=34.11 E-value=86 Score=19.63 Aligned_cols=24 Identities=13% Similarity=0.033 Sum_probs=18.2
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
-+..+||..++ -+...++.+..+-
T Consensus 136 ~s~~EIA~~lg--is~~tV~~~l~ra 159 (172)
T PRK12523 136 MGHAEIAERLG--VSVSRVRQYLAQG 159 (172)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHHH
Confidence 37899999998 7777777766543
No 117
>PF14237 DUF4339: Domain of unknown function (DUF4339)
Probab=34.09 E-value=41 Score=16.68 Aligned_cols=19 Identities=32% Similarity=0.494 Sum_probs=14.7
Q ss_pred CCCCCCCCCCHHHHHHHHH
Q 048610 62 RPDIRRGNFTQEEDETIIK 80 (87)
Q Consensus 62 ~~~~~~~~wt~eEd~~L~~ 80 (87)
+...+.||+|.+|-..|++
T Consensus 6 ~~g~~~GP~s~~el~~l~~ 24 (45)
T PF14237_consen 6 RNGQQQGPFSLEELRQLIS 24 (45)
T ss_pred CCCeEECCcCHHHHHHHHH
Confidence 3456789999999888765
No 118
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=32.94 E-value=99 Score=18.85 Aligned_cols=24 Identities=13% Similarity=0.033 Sum_probs=18.9
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
-+-.+||..++ -+...++.+....
T Consensus 123 ~s~~EIA~~lg--is~~tV~~~l~ra 146 (161)
T PRK09047 123 MDVAETAAAMG--CSEGSVKTHCSRA 146 (161)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHHH
Confidence 37899999998 7888888776654
No 119
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=32.76 E-value=83 Score=20.09 Aligned_cols=23 Identities=13% Similarity=0.075 Sum_probs=16.7
Q ss_pred CCccchhHHhCCCCChhhHHHHHHh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
-+...||..|+ -+...++.+...
T Consensus 123 ~~~~EIA~~lg--is~~tV~~~l~R 145 (181)
T PRK09637 123 LSQKEIAEKLG--LSLSGAKSRVQR 145 (181)
T ss_pred CCHHHHHHHhC--CCHHHHHHHHHH
Confidence 37899999998 566666665544
No 120
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=32.68 E-value=94 Score=19.68 Aligned_cols=25 Identities=0% Similarity=-0.134 Sum_probs=19.1
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhhc
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNYL 61 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~l 61 (87)
-+..+||..++ -+...++.|..+-|
T Consensus 144 ~s~~EIA~~lg--is~~tVk~~l~rAl 168 (178)
T PRK12529 144 MKQKDIAQALD--IALPTVKKYIHQAY 168 (178)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHHHH
Confidence 47899999998 67777777766543
No 121
>TIGR02833 spore_III_AB stage III sporulation protein AB. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage III sporulation protein AB.
Probab=32.30 E-value=83 Score=20.40 Aligned_cols=48 Identities=15% Similarity=0.243 Sum_probs=39.6
Q ss_pred cchhHHhCCCCChhhHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhC
Q 048610 38 SEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQEEDETIIKLHEQLG 86 (87)
Q Consensus 38 ~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~~wt~eEd~~L~~~v~~~G 86 (87)
..+|..+.. ++.....+-|...++........+.+|-+.|.++-..+|
T Consensus 71 ~~~a~~L~~-~~g~s~~~~w~~~~~~~~~~~~L~~~d~eiL~~lG~~LG 118 (170)
T TIGR02833 71 ESASERLKE-GEGLTVYEAWKKALNEVWKQTALQKSEKEILLQFGKTLG 118 (170)
T ss_pred HHHHHHHHh-CCCCCHHHHHHHHHHHhhhccCCCHHHHHHHHHHHHHHC
Confidence 566777776 677888889999888777788999999999999887776
No 122
>COG5352 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.93 E-value=67 Score=20.87 Aligned_cols=34 Identities=15% Similarity=0.100 Sum_probs=25.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhh
Q 048610 16 SWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKS 52 (87)
Q Consensus 16 ~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~q 52 (87)
.||.|--+.|.+|..+-- +=++||..|++ -+.+.
T Consensus 2 nWtdERve~LkKLWseGL--SASQIAaQLGG-VsRnA 35 (169)
T COG5352 2 NWTDERVETLKKLWSEGL--SASQIAAQLGG-VSRNA 35 (169)
T ss_pred CchHHHHHHHHHHHHccc--CHHHHHHHhcC-cchhh
Confidence 599999999998887543 56789999987 44433
No 123
>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=31.84 E-value=64 Score=20.32 Aligned_cols=24 Identities=8% Similarity=0.119 Sum_probs=18.3
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
.+...||..++ -|...++.+....
T Consensus 155 ~s~~EIA~~lg--is~~tv~~~l~ra 178 (190)
T TIGR02939 155 LSYEDIARIMD--CPVGTVRSRIFRA 178 (190)
T ss_pred CCHHHHHHHHC--cCHHHHHHHHHHH
Confidence 47899999998 6777777776553
No 124
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=31.52 E-value=97 Score=19.88 Aligned_cols=24 Identities=4% Similarity=-0.158 Sum_probs=18.4
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
-+..+||..++ -+...++.|..+.
T Consensus 158 ~s~~EIA~~lg--is~~tVk~rl~ra 181 (194)
T PRK12531 158 LPHQQVAEMFD--IPLGTVKSRLRLA 181 (194)
T ss_pred CCHHHHHHHhC--cCHHHHHHHHHHH
Confidence 37889999988 7888887776553
No 125
>KOG1724 consensus SCF ubiquitin ligase, Skp1 component [Posttranslational modification, protein turnover, chaperones]
Probab=31.49 E-value=78 Score=20.65 Aligned_cols=33 Identities=21% Similarity=0.232 Sum_probs=23.7
Q ss_pred cchhHHhCCCCChhhHHHHHHhhcCCCCCCCCCCHHHHHHH
Q 048610 38 SEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQEEDETI 78 (87)
Q Consensus 38 ~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~~wt~eEd~~L 78 (87)
..||..+.| +|+.+.|..| ++ ...+|++|+..+
T Consensus 121 k~va~mikg-ktpeEir~~f-~I------~~d~t~eE~~~~ 153 (162)
T KOG1724|consen 121 KTVANMIKG-KTPEEIREIF-NI------ENDETPEEEEAI 153 (162)
T ss_pred HHHHHHHcc-CCHHHHHHHc-CC------CCCCChhHHHHH
Confidence 568888878 9999999994 33 235777776443
No 126
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=30.93 E-value=1.1e+02 Score=18.45 Aligned_cols=45 Identities=13% Similarity=0.220 Sum_probs=33.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhc
Q 048610 13 RKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYL 61 (87)
Q Consensus 13 ~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l 61 (87)
++..||+|+-..++..+...|. +-..||..++- +. +--.+|.+.+
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 4567999999888888777774 78899999884 33 4455677654
No 127
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=30.87 E-value=98 Score=19.90 Aligned_cols=23 Identities=4% Similarity=-0.159 Sum_probs=17.3
Q ss_pred CCccchhHHhCCCCChhhHHHHHHh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
-+..+||..++ -+...++.+...
T Consensus 153 ~s~~eIA~~lg--is~~tV~~~l~R 175 (196)
T PRK12524 153 LSNPEIAEVME--IGVEAVESLTAR 175 (196)
T ss_pred CCHHHHHHHHC--cCHHHHHHHHHH
Confidence 37999999998 667677666554
No 128
>PF05373 Pro_3_hydrox_C: L-proline 3-hydroxylase, C-terminal; InterPro: IPR008035 Iron (II)/2-oxoglutarate (2-OG)-dependent oxygenases catalyse oxidative reactions in a range of metabolic processes. Proline 3-hydroxylase hydroxylates proline at position 3, the first of a 2-OG oxygenase catalysing oxidation of a free alpha-amino acid. The structure contains conserved motifs present in other 2-OG oxygenases including a jelly roll strand core and residues binding iron and 2-oxoglutarate, consistent with divergent evolution within the extended family. The structure differs significantly from many other 2-OG oxygenases in possessing a discrete C-terminal helical domain.; GO: 0016706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors, 0055114 oxidation-reduction process; PDB: 1E5S_A 1E5R_B.
Probab=30.85 E-value=21 Score=21.64 Aligned_cols=34 Identities=15% Similarity=0.177 Sum_probs=23.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhC
Q 048610 12 LRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAG 45 (87)
Q Consensus 12 ~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~ 45 (87)
+.+-+||.++-+.|+.+-.-.+..+|..|...|.
T Consensus 20 ~~R~~~t~e~~e~Ll~ls~vis~~n~r~i~~~La 53 (101)
T PF05373_consen 20 ISRPPLTEEERERLLALSAVISRENFRDIVFLLA 53 (101)
T ss_dssp ---EE--HHHHHHHHGGGGT--TTTHHHHHHHHC
T ss_pred cCCCCCCHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 4477899999999999777777778998888776
No 129
>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=30.38 E-value=70 Score=15.10 Aligned_cols=38 Identities=18% Similarity=0.273 Sum_probs=22.8
Q ss_pred CCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHH
Q 048610 17 WAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWM 58 (87)
Q Consensus 17 WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~ 58 (87)
.+++ +..++.+....| .....||..++ -+...+..+..
T Consensus 11 l~~~-~~~~~~~~~~~~-~~~~~ia~~~~--~s~~~i~~~~~ 48 (55)
T cd06171 11 LPER-EREVILLRFGEG-LSYEEIAEILG--ISRSTVRQRLH 48 (55)
T ss_pred CCHH-HHHHHHHHHhcC-CCHHHHHHHHC--cCHHHHHHHHH
Confidence 3444 344444444455 48999999988 56655554433
No 130
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=30.30 E-value=1.2e+02 Score=17.80 Aligned_cols=29 Identities=17% Similarity=0.006 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHhCCCCccchhHHhCCCCC
Q 048610 20 EEDRKLIAYIRRYGIWNWSEMPKYAGLLRC 49 (87)
Q Consensus 20 eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt 49 (87)
-|...|..++..++ ++..+.|+.++-.|+
T Consensus 55 ~Er~~i~~aL~~~~-gn~s~AAr~LGIsRs 83 (95)
T PRK00430 55 VEAPLLDMVMQYTR-GNQTRAALMLGINRG 83 (95)
T ss_pred HHHHHHHHHHHHcC-CCHHHHHHHhCCCHH
Confidence 46667778888888 589999999885443
No 131
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=29.99 E-value=1.1e+02 Score=18.67 Aligned_cols=24 Identities=8% Similarity=0.034 Sum_probs=18.5
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
-+-.+||..++ -+...++.+....
T Consensus 123 ~s~~EIA~~lg--is~~tV~~~l~Ra 146 (160)
T PRK09642 123 KSYQEIALQEK--IEVKTVEMKLYRA 146 (160)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHHH
Confidence 37889999998 7888887776543
No 132
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=29.98 E-value=1.1e+02 Score=19.02 Aligned_cols=24 Identities=13% Similarity=0.185 Sum_probs=18.5
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
-+-.+||..++ .+...++.+...-
T Consensus 135 ~s~~EIA~~lg--is~~tV~~~l~ra 158 (173)
T PRK09645 135 WSTAQIAADLG--IPEGTVKSRLHYA 158 (173)
T ss_pred CCHHHHHHHHC--cCHHHHHHHHHHH
Confidence 37789999998 7788887776653
No 133
>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=29.88 E-value=1e+02 Score=19.13 Aligned_cols=24 Identities=4% Similarity=-0.009 Sum_probs=18.4
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
-+...||..++ -|...++.+....
T Consensus 136 ~s~~eiA~~lg--is~~tv~~~l~Ra 159 (169)
T TIGR02954 136 LTIKEIAEVMN--KPEGTVKTYLHRA 159 (169)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHHH
Confidence 37889998888 6888887777654
No 134
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=29.78 E-value=88 Score=19.63 Aligned_cols=24 Identities=8% Similarity=-0.045 Sum_probs=18.0
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
.+-.+||..++ -+...++.+..+.
T Consensus 153 ~s~~eIA~~lg--is~~~v~~~l~Ra 176 (187)
T TIGR02948 153 LSLKEISEILD--LPVGTVKTRIHRG 176 (187)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHHH
Confidence 37888999888 6777777776553
No 135
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=29.74 E-value=1.1e+02 Score=19.43 Aligned_cols=25 Identities=12% Similarity=0.029 Sum_probs=19.6
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhhc
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNYL 61 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~l 61 (87)
-+...||..|+ -|...++.+..+.+
T Consensus 148 ~s~~eIA~~lg--is~~tV~~~l~Rar 172 (189)
T PRK12515 148 KSVEEVGEIVG--IPESTVKTRMFYAR 172 (189)
T ss_pred CCHHHHHHHHC--cCHHHHHHHHHHHH
Confidence 37899999999 78888887776543
No 136
>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=29.58 E-value=1.1e+02 Score=19.58 Aligned_cols=24 Identities=8% Similarity=0.113 Sum_probs=18.7
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
.+...||..++ -+...++.|....
T Consensus 148 ~s~~EIA~~lg--is~~tvk~rl~Ra 171 (188)
T TIGR02943 148 FESDEICQELE--ISTSNCHVLLYRA 171 (188)
T ss_pred CCHHHHHHHhC--CCHHHHHHHHHHH
Confidence 47899999998 7777777776654
No 137
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=29.41 E-value=82 Score=23.58 Aligned_cols=18 Identities=33% Similarity=0.364 Sum_probs=17.0
Q ss_pred CCCHHHHHHHHHHHHHhC
Q 048610 69 NFTQEEDETIIKLHEQLG 86 (87)
Q Consensus 69 ~wt~eEd~~L~~~v~~~G 86 (87)
-||.+|-..|.+++.+||
T Consensus 174 vwt~eeL~~i~elc~kh~ 191 (388)
T COG1168 174 VWTKEELRKIAELCLRHG 191 (388)
T ss_pred cccHHHHHHHHHHHHHcC
Confidence 599999999999999987
No 138
>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=29.38 E-value=83 Score=19.19 Aligned_cols=27 Identities=22% Similarity=0.379 Sum_probs=23.3
Q ss_pred CCHHHHHHHHHHHHHhCCCCccchhHH
Q 048610 17 WAPEEDRKLIAYIRRYGIWNWSEMPKY 43 (87)
Q Consensus 17 WT~eED~~L~~~v~~~g~~~W~~Ia~~ 43 (87)
=|++-+++|..+-...|..+|..+++.
T Consensus 4 lS~~~~~~L~~Lk~~tgi~~~Nil~R~ 30 (113)
T PF08870_consen 4 LSKKAKEQLKKLKRRTGITPWNILCRI 30 (113)
T ss_pred cCHHHHHHHHHHHHhcCCCcccHHHHH
Confidence 367888999999999999899888876
No 139
>PF09633 DUF2023: Protein of unknown function (DUF2023); InterPro: IPR018594 This protein of approx.120 residues consists of three beta strands and five alpha helices, thought to fold into a homo-dimer. ; PDB: 2GUK_B.
Probab=29.35 E-value=65 Score=19.55 Aligned_cols=26 Identities=23% Similarity=0.295 Sum_probs=14.5
Q ss_pred hhHHHHHHhhcCCCCCCCCCCHHHHHHH
Q 048610 51 KSCRLRWMNYLRPDIRRGNFTQEEDETI 78 (87)
Q Consensus 51 ~qc~~rw~~~l~~~~~~~~wt~eEd~~L 78 (87)
..|-+--..+....++ .+|+|||.+|
T Consensus 58 ~~Ci~~ir~i~~~pL~--~lTpEEDFiL 83 (101)
T PF09633_consen 58 KECIEVIRSIVTRPLN--ELTPEEDFIL 83 (101)
T ss_dssp HHHHHHHHHHHTS-GG--G--HHHHHHH
T ss_pred HHHHHHHHHHhCCchh--hCCcHHHHHH
Confidence 3455555555554443 5999999987
No 140
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=29.26 E-value=1.1e+02 Score=19.37 Aligned_cols=24 Identities=13% Similarity=0.051 Sum_probs=18.1
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
.+..+||..++ -+...++.+..+.
T Consensus 156 ~s~~EIA~~lg--is~~tV~~~l~Ra 179 (189)
T PRK09648 156 LSAEETAEAVG--STPGAVRVAQHRA 179 (189)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHHH
Confidence 47899999998 6777777776553
No 141
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=29.24 E-value=1.1e+02 Score=19.61 Aligned_cols=24 Identities=0% Similarity=-0.121 Sum_probs=19.4
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
-+..+||..++ -+...++.|..+-
T Consensus 151 ~s~~EIA~~lg--is~~tVk~~l~RA 174 (189)
T PRK12530 151 LSSEQICQECD--ISTSNLHVLLYRA 174 (189)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHHH
Confidence 47899999999 8888888876653
No 142
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=29.03 E-value=2e+02 Score=19.89 Aligned_cols=43 Identities=21% Similarity=0.321 Sum_probs=26.9
Q ss_pred CccchhHHhCCCCChhhHHHHHHhh---cCCCCCCCCCCHHHHHHHHH
Q 048610 36 NWSEMPKYAGLLRCGKSCRLRWMNY---LRPDIRRGNFTQEEDETIIK 80 (87)
Q Consensus 36 ~W~~Ia~~~~~~Rt~~qc~~rw~~~---l~~~~~~~~wt~eEd~~L~~ 80 (87)
+-.+||..++ .+...|+.+..+- |........-..++...++.
T Consensus 133 s~~EIA~~lg--~s~~tVk~~l~RAr~~Lr~~~~~~~~~~~~~~~~v~ 178 (293)
T PRK09636 133 PFDEIASTLG--RSPAACRQLASRARKHVRAARPRFPVSDEEGAELVE 178 (293)
T ss_pred CHHHHHHHHC--CCHHHHHHHHHHHHHHHHhhCCCCCCCchHHHHHHH
Confidence 6789999999 8999998887653 33333222234444444443
No 143
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=28.89 E-value=1.1e+02 Score=19.19 Aligned_cols=24 Identities=8% Similarity=-0.089 Sum_probs=18.3
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
.+..+||..|+ -+...++.+..+.
T Consensus 148 ~s~~eIA~~l~--is~~tV~~~l~ra 171 (184)
T PRK12512 148 ASIKETAAKLS--MSEGAVRVALHRG 171 (184)
T ss_pred CCHHHHHHHhC--CCHHHHHHHHHHH
Confidence 47889999988 7777777776654
No 144
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=28.30 E-value=1.3e+02 Score=18.45 Aligned_cols=23 Identities=9% Similarity=0.063 Sum_probs=16.9
Q ss_pred CccchhHHhCCCCChhhHHHHHHhh
Q 048610 36 NWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 36 ~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
+-.+||..|+ -+...++.|....
T Consensus 123 s~~eIA~~lg--is~~tv~~~l~ra 145 (159)
T PRK12527 123 SHQQIAEHLG--ISRSLVEKHIVNA 145 (159)
T ss_pred CHHHHHHHhC--CCHHHHHHHHHHH
Confidence 6788999988 6777777766543
No 145
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=28.16 E-value=1.9e+02 Score=24.14 Aligned_cols=30 Identities=13% Similarity=0.296 Sum_probs=22.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccchhHHhC
Q 048610 16 SWAPEEDRKLIAYIRRYGIWNWSEMPKYAG 45 (87)
Q Consensus 16 ~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~ 45 (87)
.||.-+=...+.+..+||..+-..||+.+.
T Consensus 797 ~w~k~df~~fi~a~eKygr~di~~ia~~~e 826 (971)
T KOG0385|consen 797 NWTKRDFNQFIKANEKYGRDDIENIAAEVE 826 (971)
T ss_pred chhhhhHHHHHHHhhccCcchhhhhHHhhc
Confidence 477777777788888888777677776665
No 146
>PRK04217 hypothetical protein; Provisional
Probab=27.81 E-value=1.5e+02 Score=18.06 Aligned_cols=44 Identities=14% Similarity=-0.006 Sum_probs=30.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHh
Q 048610 12 LRKGSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 12 ~~k~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
..-..-|++| ..++.+....+. +..+||+.++ -+...++.++..
T Consensus 38 ~p~~~Lt~ee-reai~l~~~eGl-S~~EIAk~LG--IS~sTV~r~L~R 81 (110)
T PRK04217 38 KPPIFMTYEE-FEALRLVDYEGL-TQEEAGKRMG--VSRGTVWRALTS 81 (110)
T ss_pred CCcccCCHHH-HHHHHHHHHcCC-CHHHHHHHHC--cCHHHHHHHHHH
Confidence 3344566666 566666666674 8999999998 777777776654
No 147
>TIGR00673 cynS cyanate hydratase. Alternate names include cyanate lyase, cyanase and cyanate hydrolase.
Probab=27.37 E-value=1.8e+02 Score=18.85 Aligned_cols=26 Identities=12% Similarity=0.299 Sum_probs=20.3
Q ss_pred HHHHHHHHHhCCCCccchhHHhCCCCChh
Q 048610 23 RKLIAYIRRYGIWNWSEMPKYAGLLRCGK 51 (87)
Q Consensus 23 ~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~ 51 (87)
+.|+++-.+.|. .|.+||+.++ ++..
T Consensus 11 ~~Ll~AK~~KGL-Twe~IAe~iG--~sev 36 (150)
T TIGR00673 11 DALLESKKKKGL-TFADIADGLG--LAEV 36 (150)
T ss_pred HHHHHHHHHcCC-CHHHHHHHHC--CCHH
Confidence 567777777785 9999999988 6664
No 148
>smart00583 SPK domain in SET and PHD domain containing proteins and protein kinases.
Probab=27.37 E-value=94 Score=18.92 Aligned_cols=35 Identities=23% Similarity=0.319 Sum_probs=28.1
Q ss_pred CCCChhhHHHHHHhhcCCCCCC-CCCCHHHHHHHHH
Q 048610 46 LLRCGKSCRLRWMNYLRPDIRR-GNFTQEEDETIIK 80 (87)
Q Consensus 46 ~~Rt~~qc~~rw~~~l~~~~~~-~~wt~eEd~~L~~ 80 (87)
..++....+.||++.|.|++.. ..++.++-.+|+=
T Consensus 37 ~~~s~~~~~~rf~~~Lap~i~~~~~y~~~~kirm~F 72 (114)
T smart00583 37 SLLSYETYYKRFHNKLAPNMIKLNNYSIEERIRMMF 72 (114)
T ss_pred CcccHHHHHHHHHHHHHhhHhhccCCCHHHHHHHHH
Confidence 3378888999999999998876 6788888777653
No 149
>PRK08307 stage III sporulation protein SpoAB; Provisional
Probab=27.16 E-value=1.1e+02 Score=19.81 Aligned_cols=48 Identities=15% Similarity=0.306 Sum_probs=39.0
Q ss_pred cchhHHhCCCCChhhHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhC
Q 048610 38 SEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQEEDETIIKLHEQLG 86 (87)
Q Consensus 38 ~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~~wt~eEd~~L~~~v~~~G 86 (87)
..+|..+.. .++....+-|...++........+.+|-+.|.++-..+|
T Consensus 72 ~~~a~~L~~-~~g~s~~eaw~~~~~~~~~~~~L~~~d~eiL~~lg~~LG 119 (171)
T PRK08307 72 QRFSERLES-GEGETAYEAWEKALEENWKNTALKKEDIEILLQFGKTLG 119 (171)
T ss_pred HHHHHHHHh-CCCCCHHHHHHHHHHHhhhccCCCHHHHHHHHHHHHHHC
Confidence 566677766 777888888988888777778999999999999887776
No 150
>PF15603 Imm45: Immunity protein 45
Probab=27.15 E-value=1.2e+02 Score=17.58 Aligned_cols=24 Identities=25% Similarity=0.303 Sum_probs=19.6
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHh
Q 048610 62 RPDIRRGNFTQEEDETIIKLHEQL 85 (87)
Q Consensus 62 ~~~~~~~~wt~eEd~~L~~~v~~~ 85 (87)
+|.....+.|..|-+.|++++..+
T Consensus 48 e~P~e~~~it~~e~q~II~aI~~~ 71 (82)
T PF15603_consen 48 EPPHENEPITIAERQKIIEAIEKY 71 (82)
T ss_pred cCCCCCcccCHHHHHHHHHHHHHH
Confidence 455566799999999999999764
No 151
>PF10668 Phage_terminase: Phage terminase small subunit; InterPro: IPR018925 This entry describes the terminase small subunit from Enterococcus phage phiFL1A, related proteins in other bacteriophage, and prophage regions of bacterial genomes. Packaging of double-stranded viral DNA concatemers requires interaction of the prohead with virus DNA. This process is mediated by a phage-encoded DNA recognition and terminase protein. The terminase enzymes described so far, which are hetero-oligomers composed of a small and a large subunit, do not have a significant level of sequence homology. The small terminase subunit is thought to form a nucleoprotein structure that helps to position the terminase large subunit at the packaging initiation site [].
Probab=27.02 E-value=1.2e+02 Score=16.57 Aligned_cols=32 Identities=16% Similarity=0.270 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHhCCCCccchhHHhCCCCChhhHH
Q 048610 21 EDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCR 54 (87)
Q Consensus 21 ED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~ 54 (87)
-|+...-.....|...=.+||..|+ -++.+++
T Consensus 9 rdkA~e~y~~~~g~i~lkdIA~~Lg--vs~~tIr 40 (60)
T PF10668_consen 9 RDKAFEIYKESNGKIKLKDIAEKLG--VSESTIR 40 (60)
T ss_pred HHHHHHHHHHhCCCccHHHHHHHHC--CCHHHHH
Confidence 3443333333345567899999999 6777776
No 152
>PF09356 Phage_BR0599: Phage conserved hypothetical protein BR0599; InterPro: IPR018964 This entry describes the C-terminal region of a family of proteins found almost exclusively in phage or in prophage regions of bacterial genomes, including the phage-like Rhodobacter capsulatus (Rhodopseudomonas capsulata) gene transfer agent, which packages DNA. An apparent exception is Wolbachia pipientis wMel, a bacterial endosymbiont of the fruit fly, which has several candidate phage-related genes physically separate from obvious prophage regions.
Probab=26.64 E-value=34 Score=19.57 Aligned_cols=17 Identities=24% Similarity=0.346 Sum_probs=14.5
Q ss_pred CCCChhhHHHHHHhhcC
Q 048610 46 LLRCGKSCRLRWMNYLR 62 (87)
Q Consensus 46 ~~Rt~~qc~~rw~~~l~ 62 (87)
-.++...|+.||.|.++
T Consensus 53 CDkt~~tC~~kF~N~~N 69 (80)
T PF09356_consen 53 CDKTFATCRAKFNNALN 69 (80)
T ss_pred CCCCHHHHHHHhCCccc
Confidence 34899999999999876
No 153
>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=26.45 E-value=1.3e+02 Score=18.77 Aligned_cols=24 Identities=13% Similarity=0.203 Sum_probs=18.7
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
-+..+||..++ -+...++.|..+-
T Consensus 151 ~s~~EIA~~lg--is~~tVk~~l~Ra 174 (183)
T TIGR02999 151 LTVEEIAELLG--VSVRTVERDWRFA 174 (183)
T ss_pred CCHHHHHHHhC--CCHHHHHHHHHHH
Confidence 37889999988 7888888777653
No 154
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=26.32 E-value=22 Score=25.20 Aligned_cols=43 Identities=14% Similarity=0.061 Sum_probs=25.3
Q ss_pred CCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhc
Q 048610 17 WAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYL 61 (87)
Q Consensus 17 WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l 61 (87)
||+++...+.+++..++ ..|..|-.+.+. ....+.+..++.++
T Consensus 56 ~t~~~~~~~~~~l~~~~-~~~~~~~~~~~~-~~~v~~~~~~~~~~ 98 (335)
T KOG0724|consen 56 RTPDSWDKFAEALPLEK-RLEDKIEEYIGL-VFDVNIRESGQKPF 98 (335)
T ss_pred cchhhhhHHHhcCcccc-ccchhHHhhhhh-HHHHhhhhccCCCc
Confidence 66666666666665553 366666665555 66666666655443
No 155
>PF06892 Phage_CP76: Phage regulatory protein CII (CP76); InterPro: IPR009679 This entry is represented by Bacteriophage 186, CII. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several phage regulatory protein CII (CP76) sequences which are thought to be DNA binding proteins which are involved in the establishment of lysogeny [].
Probab=26.25 E-value=1.9e+02 Score=18.71 Aligned_cols=50 Identities=16% Similarity=0.143 Sum_probs=33.5
Q ss_pred HHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCCCCCCCCCCHHHHHHHHHHH
Q 048610 23 RKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQEEDETIIKLH 82 (87)
Q Consensus 23 ~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~~wt~eEd~~L~~~v 82 (87)
+.....+..|+ =..||..+| .++ .-..|.|+|+. ....|..|-..|.++-
T Consensus 12 ~Ac~~fa~~h~---~~~lA~~lG--m~~----~~LrNKLNP~q-~H~Lt~~el~~i~~~T 61 (162)
T PF06892_consen 12 EACRAFAKNHN---MAALAERLG--MNP----QTLRNKLNPEQ-PHKLTVDELIAITDAT 61 (162)
T ss_pred HHHHHHHHhcC---HHHHHHHhC--CCH----HHHHHHcCCCC-CCCCCHHHHHHHHHHh
Confidence 34444444444 578999888 555 34667799984 4578999877776653
No 156
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=26.06 E-value=1.5e+02 Score=18.23 Aligned_cols=24 Identities=8% Similarity=0.033 Sum_probs=18.1
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
-+..+||..++ -+...++.|...-
T Consensus 130 ~s~~EIA~~l~--is~~tV~~~l~ra 153 (161)
T PRK12528 130 LGYGEIATELG--ISLATVKRYLNKA 153 (161)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHHH
Confidence 47899999998 6777777776543
No 157
>PRK09635 sigI RNA polymerase sigma factor SigI; Provisional
Probab=25.64 E-value=2.4e+02 Score=19.74 Aligned_cols=45 Identities=7% Similarity=0.168 Sum_probs=28.7
Q ss_pred CccchhHHhCCCCChhhHHHHHHh---hcCCCCCCCCCCHHHHHHHHHHH
Q 048610 36 NWSEMPKYAGLLRCGKSCRLRWMN---YLRPDIRRGNFTQEEDETIIKLH 82 (87)
Q Consensus 36 ~W~~Ia~~~~~~Rt~~qc~~rw~~---~l~~~~~~~~wt~eEd~~L~~~v 82 (87)
+-.+||..++ .|...|+.+.+. .|.........+.++...|++..
T Consensus 136 s~~EIA~~Lg--is~~tVr~~l~RAr~~Lr~~~~~~~~~~~~~~~~~~~f 183 (290)
T PRK09635 136 PYQQIATTIG--SQASTCRQLAHRARRKINESRIAASVEPAQHRVVTRAF 183 (290)
T ss_pred CHHHHHHHHC--cCHHHHHHHHHHHHHHHHhhCCCCCCChHHHHHHHHHH
Confidence 6799999999 899999887765 33322222235556665555443
No 158
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=25.61 E-value=76 Score=17.87 Aligned_cols=28 Identities=18% Similarity=0.317 Sum_probs=22.2
Q ss_pred cchhHHhCCCCChhhHHHHHHhhcCCCCC
Q 048610 38 SEMPKYAGLLRCGKSCRLRWMNYLRPDIR 66 (87)
Q Consensus 38 ~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~ 66 (87)
..||...++ |-.+.+-.+|.+.++..+.
T Consensus 29 KliaaQtGT-~~~kivl~k~~~i~kd~I~ 56 (73)
T KOG3493|consen 29 KLIAAQTGT-RPEKIVLKKWYTIFKDHIT 56 (73)
T ss_pred HHHHHhhCC-ChhHhHHHhhhhhhhcccc
Confidence 357777788 9899999999998876654
No 159
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=25.51 E-value=97 Score=15.15 Aligned_cols=38 Identities=16% Similarity=0.220 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhh
Q 048610 21 EDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 21 ED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
-+..++.++...+.-.-.+||..++ =|...+..+....
T Consensus 4 ~~~~Il~~l~~~~~~t~~ela~~~~--is~~tv~~~l~~L 41 (48)
T PF13412_consen 4 TQRKILNYLRENPRITQKELAEKLG--ISRSTVNRYLKKL 41 (48)
T ss_dssp HHHHHHHHHHHCTTS-HHHHHHHHT--S-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHhC--CCHHHHHHHHHHH
Confidence 3556777888887678999999988 5555555554443
No 160
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=25.36 E-value=1e+02 Score=19.36 Aligned_cols=25 Identities=16% Similarity=0.086 Sum_probs=19.2
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhhc
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNYL 61 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~l 61 (87)
.+..+||..++ -+...++.+..+-+
T Consensus 136 ~s~~EIA~~lg--is~~tV~~~l~Ra~ 160 (172)
T PRK09651 136 LTYSEIAHKLG--VSVSSVKKYVAKAT 160 (172)
T ss_pred CCHHHHHHHhC--CCHHHHHHHHHHHH
Confidence 37889999998 77888887776543
No 161
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=24.36 E-value=1.5e+02 Score=19.00 Aligned_cols=23 Identities=13% Similarity=0.198 Sum_probs=17.2
Q ss_pred CCccchhHHhCCCCChhhHHHHHHh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
-+..+||..|+ -+...++.+-..
T Consensus 133 ~s~~EIA~~Lg--is~~tVk~~l~R 155 (187)
T PRK12516 133 FAYEEAAEICG--CAVGTIKSRVNR 155 (187)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHH
Confidence 37899999998 667777666543
No 162
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=24.28 E-value=1.4e+02 Score=19.05 Aligned_cols=24 Identities=13% Similarity=0.087 Sum_probs=18.9
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
-.-.+||..++ -+...++.+....
T Consensus 147 ~s~~EIA~~lg--is~~tVk~~l~Ra 170 (185)
T PRK09649 147 LSYADAAAVCG--CPVGTIRSRVARA 170 (185)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHHH
Confidence 37899999999 7888888776654
No 163
>PF15586 Imm47: Immunity protein 47
Probab=24.14 E-value=60 Score=19.94 Aligned_cols=22 Identities=14% Similarity=0.210 Sum_probs=16.1
Q ss_pred HHHHHHHHhCCCCccchhHHhC
Q 048610 24 KLIAYIRRYGIWNWSEMPKYAG 45 (87)
Q Consensus 24 ~L~~~v~~~g~~~W~~Ia~~~~ 45 (87)
.|-+.+..+...+|..||..|.
T Consensus 84 ~i~~~i~~c~~~~W~~~~~kLs 105 (116)
T PF15586_consen 84 TIERIIESCEGDDWDEIAEKLS 105 (116)
T ss_pred HHHHHHHHccCCCHHHHHHHHH
Confidence 4455666676579999998876
No 164
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=24.05 E-value=1.5e+02 Score=19.18 Aligned_cols=24 Identities=4% Similarity=0.098 Sum_probs=18.8
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
.+-.+||..++ .+...|+.|..+-
T Consensus 156 ~s~~EIA~~lg--is~~tVk~~l~RA 179 (201)
T PRK12545 156 FEIDDICTELT--LTANHCSVLLYRA 179 (201)
T ss_pred CCHHHHHHHHC--cCHHHHHHHHHHH
Confidence 47899999998 7888888776643
No 165
>PRK03906 mannonate dehydratase; Provisional
Probab=23.99 E-value=76 Score=23.54 Aligned_cols=27 Identities=30% Similarity=0.430 Sum_probs=24.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccchhH
Q 048610 15 GSWAPEEDRKLIAYIRRYGIWNWSEMPK 42 (87)
Q Consensus 15 ~~WT~eED~~L~~~v~~~g~~~W~~Ia~ 42 (87)
..||.+|-..+.+.|+.+|. .|+.|.+
T Consensus 38 ~~W~~~~i~~~~~~ie~~Gl-~~~vvEs 64 (385)
T PRK03906 38 EVWPVEEILARKAEIEAAGL-EWSVVES 64 (385)
T ss_pred CCCCHHHHHHHHHHHHHcCC-eEEEEeC
Confidence 47999999999999999996 9988754
No 166
>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=23.80 E-value=1.6e+02 Score=17.98 Aligned_cols=23 Identities=9% Similarity=0.190 Sum_probs=17.0
Q ss_pred CccchhHHhCCCCChhhHHHHHHhh
Q 048610 36 NWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 36 ~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
+-.+||..++ -+...++.+....
T Consensus 140 s~~eIA~~l~--is~~tv~~~l~ra 162 (170)
T TIGR02952 140 PIAEVARILG--KTEGAVKILQFRA 162 (170)
T ss_pred CHHHHHHHHC--CCHHHHHHHHHHH
Confidence 6788998888 6777777766543
No 167
>PF11084 DUF2621: Protein of unknown function (DUF2621); InterPro: IPR020203 This entry represents a group of uncharacterised proteins.
Probab=23.48 E-value=64 Score=20.60 Aligned_cols=27 Identities=11% Similarity=0.240 Sum_probs=19.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCccchh
Q 048610 14 KGSWAPEEDRKLIAYIRRYGIWNWSEMP 41 (87)
Q Consensus 14 k~~WT~eED~~L~~~v~~~g~~~W~~Ia 41 (87)
+--||+|+-+.|-++|.--.. -...||
T Consensus 56 rhlW~de~K~lL~eLV~PVPe-lFRdvA 82 (141)
T PF11084_consen 56 RHLWTDEQKALLEELVSPVPE-LFRDVA 82 (141)
T ss_pred HhhcCHHHHHHHHHHhhcCcH-HHHHHH
Confidence 345999999999999986552 444343
No 168
>PF03444 HrcA_DNA-bdg: Winged helix-turn-helix transcription repressor, HrcA DNA-binding; InterPro: IPR005104 Prokaryotic cells have a defence mechanism against a sudden heat-shock stress. Commonly, they induce a set of proteins that protect cellular proteins from being denatured by heat. Among such proteins are the GroE and DnaK chaperones whose transcription is regulated by a heat-shock repressor protein HrcA. HrcA is a winged helix-turn-helix repressor that negatively regulates the transcription of dnaK and groE operons by binding the upstream CIRCE (controlling inverted repeat of chaperone expression) element. In Bacillus subtilis this element is a perfect 9 base pair inverted repeat separated by a 9 base pair spacer. The crystal structure of a heat-inducible transcriptional repressor, HrcA, from Thermotoga maritima has been reported at 2.2A resolution. HrcA is composed of three domains: an N-terminal winged helix-turn-helix domain (WHTH), a GAF-like domain, and an inserted dimerizing domain (IDD). The IDD shows a unique structural fold with an anti-parallel beta-sheet composed of three beta-strands sided by four alpha-helices. HrcA crystallises as a dimer, which is formed through hydrophobic contact between the IDDs and a limited contact that involves conserved residues between the GAF-like domains []. The structural studies suggest that the inactive form of HrcA is the dimer and this is converted to its DNA-binding form by interaction with GroEL, which binds to a conserved C-terminal sequence region [, ]. Comparison of the HrcA-CIRCE complexes from B. subtilis and Bacillus thermoglucosidasius (Geobacillus thermoglucosidasius), which grow at vastly different ranges of temperature shows that the thermostability profiles were consistent with the difference in the growth temperatures suggesting that HrcA can function as a thermosensor to detect temperature changes in cells []. Any increase in temperature causes the dissociation of the HrcA from the CIRCE complex with the concomitant activation of transcription of the groE and dnaK operons. This domain represents the winged helix-turn-helix DNA-binding domain which is located close to the N terminus of HrcA. This domain is also found at the N terminus of a set of uncharacterised proteins that have two C-terminal CBS domains. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent
Probab=23.42 E-value=1.6e+02 Score=16.94 Aligned_cols=39 Identities=15% Similarity=0.090 Sum_probs=28.8
Q ss_pred CHHHHHHHHHHHHHhCCC----CccchhHHhCCCCChhhHHHHHH
Q 048610 18 APEEDRKLIAYIRRYGIW----NWSEMPKYAGLLRCGKSCRLRWM 58 (87)
Q Consensus 18 T~eED~~L~~~v~~~g~~----~W~~Ia~~~~~~Rt~~qc~~rw~ 58 (87)
|+-.-+.|..+|+.|-.. .=..||+.++ +++.-||+--.
T Consensus 3 t~rq~~IL~alV~~Y~~~~~PVgSk~ia~~l~--~s~aTIRN~M~ 45 (78)
T PF03444_consen 3 TERQREILKALVELYIETGEPVGSKTIAEELG--RSPATIRNEMA 45 (78)
T ss_pred CHHHHHHHHHHHHHHHhcCCCcCHHHHHHHHC--CChHHHHHHHH
Confidence 567788899999988321 3467888876 88888887544
No 169
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=23.21 E-value=1.7e+02 Score=18.10 Aligned_cols=23 Identities=9% Similarity=0.190 Sum_probs=17.4
Q ss_pred CCccchhHHhCCCCChhhHHHHHHh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
-+-.+||..++ -+...++.+-..
T Consensus 129 ~s~~eIA~~lg--is~~tV~~~l~R 151 (164)
T PRK12547 129 FSYEDAAAICG--CAVGTIKSRVSR 151 (164)
T ss_pred CCHHHHHHHhC--CCHHHHHHHHHH
Confidence 37889999988 677777776654
No 170
>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=23.11 E-value=1.1e+02 Score=15.65 Aligned_cols=41 Identities=15% Similarity=0.082 Sum_probs=26.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhc
Q 048610 16 SWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYL 61 (87)
Q Consensus 16 ~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l 61 (87)
..|+.|-+.|.-+..-+ +=..||..++ .+...++.+..+..
T Consensus 3 ~LT~~E~~vl~~l~~G~---~~~eIA~~l~--is~~tV~~~~~~i~ 43 (58)
T PF00196_consen 3 SLTERELEVLRLLAQGM---SNKEIAEELG--ISEKTVKSHRRRIM 43 (58)
T ss_dssp SS-HHHHHHHHHHHTTS----HHHHHHHHT--SHHHHHHHHHHHHH
T ss_pred ccCHHHHHHHHHHHhcC---CcchhHHhcC--cchhhHHHHHHHHH
Confidence 35777777665555433 4578999998 78888877766543
No 171
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=23.11 E-value=2.6e+02 Score=19.64 Aligned_cols=23 Identities=4% Similarity=-0.065 Sum_probs=18.9
Q ss_pred CccchhHHhCCCCChhhHHHHHHhh
Q 048610 36 NWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 36 ~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
+-.+||..|+ -+...|+.+..+-
T Consensus 171 s~~EIA~~lg--is~~tVk~~l~RA 193 (339)
T PRK08241 171 SAAEVAELLD--TSVAAVNSALQRA 193 (339)
T ss_pred CHHHHHHHhC--CCHHHHHHHHHHH
Confidence 6889999999 8888888877653
No 172
>PF13725 tRNA_bind_2: Possible tRNA binding domain; PDB: 2ZPA_B.
Probab=22.95 E-value=34 Score=19.79 Aligned_cols=24 Identities=33% Similarity=0.365 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHhCCCCccchhHHhCC
Q 048610 21 EDRKLIAYIRRYGIWNWSEMPKYAGL 46 (87)
Q Consensus 21 ED~~L~~~v~~~g~~~W~~Ia~~~~~ 46 (87)
+...|+..+-++ ++|..||+.++-
T Consensus 72 q~~lLi~k~LQ~--ksw~~~a~~l~l 95 (101)
T PF13725_consen 72 QQALLIAKGLQG--KSWEEVAKELGL 95 (101)
T ss_dssp --HHHHHHHCS-----HHHHHHHCT-
T ss_pred HHHHHHHHHHCC--CCHHHHHHHcCC
Confidence 334444443333 368888887664
No 173
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=22.91 E-value=1.7e+02 Score=18.43 Aligned_cols=23 Identities=9% Similarity=0.143 Sum_probs=17.7
Q ss_pred CCccchhHHhCCCCChhhHHHHHHh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
-+..+||..|+ .+...++.+-..
T Consensus 146 ~s~~EIA~~l~--is~~tV~~~l~r 168 (181)
T PRK12536 146 LSVAETAQLTG--LSESAVKVGIHR 168 (181)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHH
Confidence 37889999888 788777777654
No 174
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=22.86 E-value=1.6e+02 Score=18.82 Aligned_cols=23 Identities=9% Similarity=0.118 Sum_probs=18.0
Q ss_pred CCccchhHHhCCCCChhhHHHHHHh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
-+-..||..++ -+...++.+...
T Consensus 153 ~s~~EIA~~lg--is~~tVk~~l~R 175 (195)
T PRK12532 153 FSSDEIQQMCG--ISTSNYHTIMHR 175 (195)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHH
Confidence 37889999998 777777777665
No 175
>TIGR00695 uxuA mannonate dehydratase. This Fe2+-requiring enzyme plays a role in D-glucuronate catabolism in Escherichia coli. Mannonate dehydratase converts D-mannonate to 2-dehydro-3-deoxy-D-gluconate. An apparent equivalog is found in a glucuronate utilization operon in Bacillus stearothermophilus T-6.
Probab=22.33 E-value=82 Score=23.56 Aligned_cols=27 Identities=37% Similarity=0.678 Sum_probs=23.9
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccchhH
Q 048610 15 GSWAPEEDRKLIAYIRRYGIWNWSEMPK 42 (87)
Q Consensus 15 ~~WT~eED~~L~~~v~~~g~~~W~~Ia~ 42 (87)
..||.+|-+.+.+.++.+|. .|+.|-+
T Consensus 38 evW~~~~i~~~k~~ie~~GL-~~~vvEs 64 (394)
T TIGR00695 38 EVWEKEEIRKRKEYIESAGL-HWSVVES 64 (394)
T ss_pred CCCCHHHHHHHHHHHHHcCC-eEEEEeC
Confidence 36999999999999999996 9988754
No 176
>KOG1235 consensus Predicted unusual protein kinase [General function prediction only]
Probab=22.19 E-value=1.1e+02 Score=23.82 Aligned_cols=55 Identities=16% Similarity=0.165 Sum_probs=41.8
Q ss_pred HHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCCCCCC-CCCCHHHHHHHHH
Q 048610 23 RKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRR-GNFTQEEDETIIK 80 (87)
Q Consensus 23 ~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~-~~wt~eEd~~L~~ 80 (87)
+.|++++...| +-|-++++++++ |.. -|-.-|.+.|..-..+ -|++.||-..+++
T Consensus 95 ~~L~e~~~~nG-g~yIKlGQ~lst-~~d-llP~Eyv~~L~~LqD~~Pp~~~ee~~~i~e 150 (538)
T KOG1235|consen 95 ERLLELFLRNG-GTYIKLGQHLST-RPD-LLPKEYVKTLSELQDQAPPFPWEEAFKIFE 150 (538)
T ss_pred HHHHHHHHHcC-CeEEEechhhcc-ccc-cCcHHHHHHHHHHhccCCCCCHHHHHHHHH
Confidence 78889999999 599999999997 664 4666777776443333 3688888888765
No 177
>PF11198 DUF2857: Protein of unknown function (DUF2857); InterPro: IPR021364 This is a bacterial family of uncharacterised proteins.
Probab=22.04 E-value=2.4e+02 Score=18.46 Aligned_cols=59 Identities=22% Similarity=0.351 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCCCCCCC---CCCHHHHHHHHHHHH
Q 048610 21 EDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRG---NFTQEEDETIIKLHE 83 (87)
Q Consensus 21 ED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~---~wt~eEd~~L~~~v~ 83 (87)
++..+++-.-.+| .+...+..+|| -|+..|..| +..|.-...+| .-|++++..|...-+
T Consensus 75 ~~~~~idr~L~lG-AS~~mm~~~FG--ls~~ev~~r-R~llgi~~~~GR~~~~~ee~~~~iW~~W~ 136 (180)
T PF11198_consen 75 QEQQLIDRALRLG-ASIEMMQRLFG--LSSAEVAAR-RRLLGIPVRKGRPPALSEEEEAAIWRRWQ 136 (180)
T ss_pred HHHHHHHHHHHcC-CCHHHHHHHHC--CCHHHHHHH-HHHhCCCCCCCCCCCcCHHHHHHHHHHHH
Confidence 3445555555678 48999999998 677777655 34443333333 477888888877665
No 178
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=21.87 E-value=1.5e+02 Score=19.05 Aligned_cols=23 Identities=13% Similarity=0.227 Sum_probs=17.2
Q ss_pred CCccchhHHhCCCCChhhHHHHHHh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
-+..+||..++ -|...++.+...
T Consensus 130 ~s~~EIA~~Lg--iS~~tVk~~l~R 152 (188)
T PRK12546 130 FSYEEAAEMCG--VAVGTVKSRANR 152 (188)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHH
Confidence 37899999998 667777666554
No 179
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=21.81 E-value=1.5e+02 Score=19.57 Aligned_cols=44 Identities=18% Similarity=0.111 Sum_probs=35.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHHHhhcCC
Q 048610 15 GSWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRP 63 (87)
Q Consensus 15 ~~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~ 63 (87)
...|+.|-+.|.-+.+-+. =++||..|. .|.+-++.+..+.+..
T Consensus 147 ~~LT~RE~eVL~lla~G~s---nkeIA~~L~--iS~~TVk~h~~~i~~K 190 (211)
T COG2197 147 ELLTPRELEVLRLLAEGLS---NKEIAEELN--LSEKTVKTHVSNILRK 190 (211)
T ss_pred CCCCHHHHHHHHHHHCCCC---HHHHHHHHC--CCHhHHHHHHHHHHHH
Confidence 4789999998877766544 478999999 9999999999988753
No 180
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=21.80 E-value=74 Score=21.20 Aligned_cols=23 Identities=13% Similarity=0.101 Sum_probs=17.4
Q ss_pred CCccchhHHhCCCCChhhHHHHHHh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
-+-.+||..++ .+...++.+...
T Consensus 166 ~s~~EIAe~lg--is~~tVk~~l~R 188 (231)
T PRK11922 166 LSVEETAQALG--LPEETVKTRLHR 188 (231)
T ss_pred CCHHHHHHHHC--cCHHHHHHHHHH
Confidence 37899999998 677777766553
No 181
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=21.78 E-value=1.9e+02 Score=18.08 Aligned_cols=23 Identities=9% Similarity=0.005 Sum_probs=18.0
Q ss_pred CccchhHHhCCCCChhhHHHHHHhh
Q 048610 36 NWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 36 ~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
+-..||..|+ .+...++.+....
T Consensus 147 s~~eIA~~lg--is~~tV~~~l~Ra 169 (179)
T PRK12514 147 SYKELAERHD--VPLNTMRTWLRRS 169 (179)
T ss_pred CHHHHHHHHC--CChHHHHHHHHHH
Confidence 6788999888 7888887776654
No 182
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=21.70 E-value=1.9e+02 Score=17.37 Aligned_cols=23 Identities=9% Similarity=-0.059 Sum_probs=17.7
Q ss_pred CccchhHHhCCCCChhhHHHHHHhh
Q 048610 36 NWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 36 ~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
+..+||..++ -+...++.+-.+.
T Consensus 124 s~~EIA~~l~--is~~tV~~~~~ra 146 (154)
T PRK06759 124 TMGEIALETE--MTYYQVRWIYRQA 146 (154)
T ss_pred CHHHHHHHHC--CCHHHHHHHHHHH
Confidence 6788998888 7887887776554
No 183
>PF07325 Curto_V2: Curtovirus V2 protein; InterPro: IPR009931 This family consists of several Curtovirus V2 proteins. The exact function of V2 is unclear but it is known that the protein is required for a successful host infection process [].
Probab=21.43 E-value=1.7e+02 Score=18.12 Aligned_cols=35 Identities=26% Similarity=0.438 Sum_probs=24.3
Q ss_pred hhhHHHHHHhhcCCCC--CCCCCCHHHHHHHHHHHHH
Q 048610 50 GKSCRLRWMNYLRPDI--RRGNFTQEEDETIIKLHEQ 84 (87)
Q Consensus 50 ~~qc~~rw~~~l~~~~--~~~~wt~eEd~~L~~~v~~ 84 (87)
..+|..||+...--.+ ...+.|-+|-...++..++
T Consensus 20 sTSCflrYNkwCilGi~~eie~LtlEeGE~FLqFQKe 56 (126)
T PF07325_consen 20 STSCFLRYNKWCILGIHPEIEPLTLEEGEVFLQFQKE 56 (126)
T ss_pred HhHHHHhhchhheecccccccccchhhhHHHHHHHHH
Confidence 4589999887532222 2368999998888877654
No 184
>PF13613 HTH_Tnp_4: Helix-turn-helix of DDE superfamily endonuclease
Probab=21.31 E-value=1.3e+02 Score=15.27 Aligned_cols=42 Identities=14% Similarity=0.192 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHhCCCCccchhHHhCCCC-ChhhHHHHHHhhc
Q 048610 20 EEDRKLIAYIRRYGIWNWSEMPKYAGLLR-CGKSCRLRWMNYL 61 (87)
Q Consensus 20 eED~~L~~~v~~~g~~~W~~Ia~~~~~~R-t~~qc~~rw~~~l 61 (87)
-||+.++-++.--..-.-..+|..++-.+ |...+...|.+.|
T Consensus 5 ~~d~lll~L~~LR~~~~~~~La~~FgIs~stvsri~~~~~~~L 47 (53)
T PF13613_consen 5 LEDQLLLTLMYLRLNLTFQDLAYRFGISQSTVSRIFHEWIPLL 47 (53)
T ss_pred HHHHHHHHHHHHHcCCcHhHHhhheeecHHHHHHHHHHHHHHH
Confidence 47888888877443347888888876432 4444555666554
No 185
>COG3795 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.28 E-value=48 Score=20.82 Aligned_cols=59 Identities=19% Similarity=0.333 Sum_probs=36.2
Q ss_pred CCCCHHHHHHHHHHHHHhC-----CCCccchhHHhCCCCChhhHHHHHHhhcCCCCCCCCCCHHHHHH
Q 048610 15 GSWAPEEDRKLIAYIRRYG-----IWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQEEDET 77 (87)
Q Consensus 15 ~~WT~eED~~L~~~v~~~g-----~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~~~~~~~~wt~eEd~~ 77 (87)
..||.++|+.|+.....|. .+.+--.+...++ .+....+.+ -=.+.+.-|||.+--|++
T Consensus 15 ~a~~~e~daalm~~~~~y~e~L~~aG~l~~~~~L~pt-~~a~tlr~~---~G~~~viDGPFaEtKEql 78 (123)
T COG3795 15 AAWSVEEDAALMAALGKYNERLAKAGVLGPGARLHPT-TAATTLRFR---GGKRTVIDGPFAETKEQL 78 (123)
T ss_pred hcCCcCccHHHHHHHHHHHHHHHHcCCccccccccCC-ccceEEEec---CCcceecCCCchhHHHHh
Confidence 4699999999999888773 2356656666665 555433321 012234556777665554
No 186
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=21.18 E-value=1.9e+02 Score=18.26 Aligned_cols=24 Identities=13% Similarity=0.225 Sum_probs=18.4
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
-+-.+||..|+ -+...++.+....
T Consensus 139 ~s~~EIA~~lg--is~~tVk~~l~Ra 162 (185)
T PRK12542 139 LTYQEISSVMG--ITEANVRKQFERA 162 (185)
T ss_pred CCHHHHHHHHC--CCHHHHHHHHHHH
Confidence 37889999998 7787777776543
No 187
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=21.15 E-value=1.4e+02 Score=23.40 Aligned_cols=41 Identities=12% Similarity=0.234 Sum_probs=29.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccchhHHhCCCCChhhHHHHH
Q 048610 16 SWAPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRW 57 (87)
Q Consensus 16 ~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~rw 57 (87)
.||.-|-...-++..+|| ++++.|-..+-.-++-..+-+-|
T Consensus 287 EWSasEanLFEeALeKyG-KDFndIrqdfLPWKSl~sIveyY 327 (693)
T KOG3554|consen 287 EWSASEANLFEEALEKYG-KDFNDIRQDFLPWKSLTSIVEYY 327 (693)
T ss_pred hccchhhHHHHHHHHHhc-ccHHHHHHhhcchHHHHHHHHHH
Confidence 499999999999999999 58888865543325555554433
No 188
>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=21.15 E-value=80 Score=18.08 Aligned_cols=18 Identities=22% Similarity=0.617 Sum_probs=13.1
Q ss_pred HHHHhCCCCccchhHHhCC
Q 048610 28 YIRRYGIWNWSEMPKYAGL 46 (87)
Q Consensus 28 ~v~~~g~~~W~~Ia~~~~~ 46 (87)
+...-| .+|..+|+.++-
T Consensus 8 i~~~lG-~~Wk~laR~LGl 25 (86)
T cd08306 8 ICENVG-RDWRKLARKLGL 25 (86)
T ss_pred HHHHHh-hhHHHHHHHcCC
Confidence 334447 599999999873
No 189
>PF00674 DUP: DUP family; InterPro: IPR001142 A number of uncharacterised integral membrane proteins from yeast contain an internal duplication due to duplicated genes. Duplicated copies of genes may be classified in two types of cluster organisation. The first type includes genes sharing a significant level of identity in the amino acid sequences of their predicted protein product. They are recovered on two different chromosomes, transcribed in the same orientation and the distance between them is conserved. The second type of cluster is based on one gene unit tandemly repeated. This duplication is itself repeated elsewhere in the genome. The basic gene unit is recovered many times in the genome and is a component of a multigene family of unknown function. These organisations in clusters of genes suggest a 'Lego organisation' of the yeast chromosomes []. The proteins belonging to this family are of unknown function.
Probab=21.14 E-value=1.1e+02 Score=18.23 Aligned_cols=29 Identities=14% Similarity=0.240 Sum_probs=20.7
Q ss_pred CCccchhHHhCC-------CC------ChhhHHHHHHhhcCC
Q 048610 35 WNWSEMPKYAGL-------LR------CGKSCRLRWMNYLRP 63 (87)
Q Consensus 35 ~~W~~Ia~~~~~-------~R------t~~qc~~rw~~~l~~ 63 (87)
..|..||..|+. .+ ++.+|..-+.+.+-+
T Consensus 60 ~~Wd~IA~~mN~yly~~~~w~t~~~FyDG~~C~~~Fr~~v~~ 101 (108)
T PF00674_consen 60 KKWDIIASRMNQYLYEEGLWNTPYFFYDGKDCYRFFRRLVLK 101 (108)
T ss_pred ccHHHHHHHHHHHHHhCCCCCCcCcccCcHHHHHHHHHHhcc
Confidence 379999999852 12 457888888876544
No 190
>TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot: SIGM_BACSU) and is activated by various stressors.
Probab=21.11 E-value=46 Score=20.22 Aligned_cols=23 Identities=4% Similarity=0.075 Sum_probs=18.2
Q ss_pred CccchhHHhCCCCChhhHHHHHHhh
Q 048610 36 NWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 36 ~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
++.+||..++ -+...++.+....
T Consensus 123 s~~eIA~~lg--is~~tv~~~l~Ra 145 (154)
T TIGR02950 123 SYKEIAELLN--LSLAKVKSNLFRA 145 (154)
T ss_pred cHHHHHHHHC--CCHHHHHHHHHHH
Confidence 7899999988 6788888777654
No 191
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=20.86 E-value=2e+02 Score=18.02 Aligned_cols=24 Identities=13% Similarity=0.027 Sum_probs=17.5
Q ss_pred CCccchhHHhCCCCChhhHHHHHHhh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
.+-.+||..++ -|...++.+..+.
T Consensus 152 ~s~~eIA~~lg--is~~~V~~~l~ra 175 (186)
T PRK13919 152 YTHREAAQLLG--LPLGTLKTRARRA 175 (186)
T ss_pred CCHHHHHHHHC--cCHHHHHHHHHHH
Confidence 36788999888 6777777766543
No 192
>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=20.85 E-value=2e+02 Score=17.93 Aligned_cols=23 Identities=13% Similarity=0.384 Sum_probs=16.9
Q ss_pred CccchhHHhCCCCChhhHHHHHHhh
Q 048610 36 NWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 36 ~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
+-.+||..++ -|...++.+..+.
T Consensus 158 s~~eIA~~lg--is~~~v~~~l~Ra 180 (189)
T TIGR02984 158 SFAEVAERMD--RSEGAVSMLWVRG 180 (189)
T ss_pred CHHHHHHHHC--cCHHHHHHHHHHH
Confidence 7788888888 6777777665543
No 193
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=20.76 E-value=1.1e+02 Score=21.39 Aligned_cols=18 Identities=11% Similarity=0.134 Sum_probs=13.2
Q ss_pred CCCHHHHHHHHHHHHHhC
Q 048610 16 SWAPEEDRKLIAYIRRYG 33 (87)
Q Consensus 16 ~WT~eED~~L~~~v~~~g 33 (87)
.||.++.+...++.+..+
T Consensus 110 ~~~~~D~~~v~~aL~~~~ 127 (258)
T COG1120 110 RPSKEDEEIVEEALELLG 127 (258)
T ss_pred CCCHhHHHHHHHHHHHhC
Confidence 688888887877776553
No 194
>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=20.62 E-value=3e+02 Score=19.04 Aligned_cols=22 Identities=14% Similarity=0.071 Sum_probs=18.0
Q ss_pred CccchhHHhCCCCChhhHHHHHHh
Q 048610 36 NWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 36 ~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
+-.+||..++ .+...|+.|..+
T Consensus 160 s~~EIA~~lg--is~~tV~~~l~R 181 (324)
T TIGR02960 160 RAAETAELLG--TSTASVNSALQR 181 (324)
T ss_pred CHHHHHHHHC--CCHHHHHHHHHH
Confidence 7899999999 788888877654
No 195
>PF07555 NAGidase: beta-N-acetylglucosaminidase ; InterPro: IPR011496 This family consists of both eukaryotic and prokaryotic hyaluronidases. Human Q9HAR0 from SWISSPROT is expressed during meningioma []. Clostridium perfringens, P26831 from SWISSPROT, is involved in pathogenesis and is likely to act on connectivity tissue during gas gangrene []. It catalyses the random hydrolysis of 1->4-linkages between N-acetyl-beta-D-glucosamine and D-glucuronate residues in hyaluronate.; PDB: 2WB5_B 2V5C_B 2VUR_A 2V5D_A 2YDS_A 2CBI_A 2XPK_A 2CBJ_B 2J62_A 2X0Y_A ....
Probab=20.60 E-value=1.4e+02 Score=21.42 Aligned_cols=21 Identities=29% Similarity=0.675 Sum_probs=14.5
Q ss_pred CCCCHHHHHHHHHHHHHhCCC
Q 048610 15 GSWAPEEDRKLIAYIRRYGIW 35 (87)
Q Consensus 15 ~~WT~eED~~L~~~v~~~g~~ 35 (87)
.|||.|+-..|++....++.+
T Consensus 10 ~PWs~e~R~~l~~f~~~~kmN 30 (306)
T PF07555_consen 10 RPWSHEDRLDLIRFLGRYKMN 30 (306)
T ss_dssp S---HHHHHHHHHHHHHTT--
T ss_pred CCCCHHHHHHHHHHHHHcCCc
Confidence 389999999999999988653
No 196
>cd08801 Death_UNC5D Death domain found in Uncoordinated-5D. Death Domain (DD) found in Uncoordinated-5D (UNC5D). UNC5D is part of the UNC-5 homolog family. It is a receptor for the secreted netrin-1 and plays a role in axonal guidance, angiogenesis, and apoptosis. UNC5 proteins are transmembrane proteins with an extracellular domain consisting of two immunoglobulin repeats, two thrombospondin type-I modules and an intracellular region containing a ZU-5 domain, UPA domain and a DD. 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=20.43 E-value=1.1e+02 Score=18.44 Aligned_cols=22 Identities=18% Similarity=0.471 Sum_probs=16.1
Q ss_pred hCCCCccchhHHhCCCCChhhHHHHHHhhcC
Q 048610 32 YGIWNWSEMPKYAGLLRCGKSCRLRWMNYLR 62 (87)
Q Consensus 32 ~g~~~W~~Ia~~~~~~Rt~~qc~~rw~~~l~ 62 (87)
.| ++|...|+.+.- +||.+|+.
T Consensus 19 kg-~DWR~LA~kL~i--------DRyl~yFa 40 (98)
T cd08801 19 KG-KDWQMLAQKNSI--------DRNLSYFA 40 (98)
T ss_pred CC-ccHHHHHHHhcc--------hhHHHHHh
Confidence 45 589999999875 56666664
No 197
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=20.24 E-value=1.8e+02 Score=18.33 Aligned_cols=23 Identities=4% Similarity=-0.208 Sum_probs=16.6
Q ss_pred CCccchhHHhCCCCChhhHHHHHHh
Q 048610 35 WNWSEMPKYAGLLRCGKSCRLRWMN 59 (87)
Q Consensus 35 ~~W~~Ia~~~~~~Rt~~qc~~rw~~ 59 (87)
.+-.+||..++ -+...++.+...
T Consensus 145 ~s~~EIA~~lg--is~~tV~~~l~R 167 (186)
T PRK05602 145 LSNIEAAAVMD--ISVDALESLLAR 167 (186)
T ss_pred CCHHHHHHHhC--cCHHHHHHHHHH
Confidence 37888998888 677676666554
No 198
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=20.18 E-value=2e+02 Score=17.58 Aligned_cols=23 Identities=9% Similarity=0.029 Sum_probs=17.7
Q ss_pred CccchhHHhCCCCChhhHHHHHHhh
Q 048610 36 NWSEMPKYAGLLRCGKSCRLRWMNY 60 (87)
Q Consensus 36 ~W~~Ia~~~~~~Rt~~qc~~rw~~~ 60 (87)
+-..||..++ -+...++.+....
T Consensus 128 s~~eIA~~lg--is~~tV~~~l~ra 150 (162)
T TIGR02983 128 SEAQVAEALG--ISVGTVKSRLSRA 150 (162)
T ss_pred CHHHHHHHhC--CCHHHHHHHHHHH
Confidence 6788998888 6777777776654
No 199
>PF05546 She9_MDM33: She9 / Mdm33 family; InterPro: IPR008839 Members of this family are mitochondrial inner membrane proteins with a role in inner mitochondrial membrane organisation and biogenesis []. The yeast Mdm33 protein assembles into an oligomeric complex in the inner membrane where it performs homotypic protein-protein interactions. It has been suggested that Mdm33 plays a distinct role, possibly involved in fission of the mitochondrial inner membrane [].
Probab=20.09 E-value=1.2e+02 Score=20.82 Aligned_cols=20 Identities=30% Similarity=0.605 Sum_probs=17.3
Q ss_pred CCCCCCHHHHHHHHHHHHHh
Q 048610 13 RKGSWAPEEDRKLIAYIRRY 32 (87)
Q Consensus 13 ~k~~WT~eED~~L~~~v~~~ 32 (87)
+|..||+.+.++...|+..-
T Consensus 82 RK~sWs~~DleRFT~Lyr~d 101 (207)
T PF05546_consen 82 RKHSWSPADLERFTELYRND 101 (207)
T ss_pred cccCCChHHHHHHHHHHHhh
Confidence 57889999999999998754
No 200
>PF05254 UPF0203: Uncharacterised protein family (UPF0203); InterPro: IPR007918 This is a family of small highly conserved proteins. In Saccharomyces cerevisiae (Baker's yeast) the gene YKL053C-A (MDM35) O60200 from SWISSPROT is one of the genes essential for maintenance of normal mitochondrial distribution and morphology (MDM) []; wherease in Homo sapiens (Human), p53CSV, O43715 from SWISSPROT is a direct transcriptional target for p53 and appears to be a cell-survival mediator in response to genotoxic stress including low-levels of DNA damage. It is suggested that p53CSV modulates the apoptotic pathway through interaction with HSP70 and Apaf-1 thereby inhibiting activation of procaspase-3 and procaspase-9 [].
Probab=20.02 E-value=1.5e+02 Score=16.50 Aligned_cols=28 Identities=21% Similarity=0.592 Sum_probs=16.0
Q ss_pred hhHHHHHHh--hcCCCCCCCCCCHHHHHHHHHHHH
Q 048610 51 KSCRLRWMN--YLRPDIRRGNFTQEEDETIIKLHE 83 (87)
Q Consensus 51 ~qc~~rw~~--~l~~~~~~~~wt~eEd~~L~~~v~ 83 (87)
.+|.++|.. +| +|.++..+-..+.+.++
T Consensus 17 D~CFn~WfsekfL-----kG~~~~~~C~~~~~~Y~ 46 (68)
T PF05254_consen 17 DQCFNKWFSEKFL-----KGDSSDNECGELFKEYQ 46 (68)
T ss_pred HHHHHHHHHHhhh-----cCCCCCCcHHHHHHHHH
Confidence 567777762 33 45666655555555443
Done!