Query 026855
Match_columns 232
No_of_seqs 234 out of 1535
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 13:40:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026855.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026855hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03212 Transcription repress 99.9 9.2E-25 2E-29 187.3 12.2 103 13-164 23-126 (249)
2 PLN03091 hypothetical protein; 99.9 3.6E-23 7.8E-28 189.3 13.8 102 14-164 13-115 (459)
3 KOG0048 Transcription factor, 99.9 3.2E-22 6.9E-27 173.7 10.8 102 15-165 9-111 (238)
4 KOG0049 Transcription factor, 99.7 3.7E-16 7.9E-21 148.1 10.3 98 11-156 356-453 (939)
5 KOG0049 Transcription factor, 99.6 5.4E-16 1.2E-20 147.0 8.5 104 15-163 305-408 (939)
6 PF00249 Myb_DNA-binding: Myb- 99.6 1.7E-15 3.8E-20 99.9 5.1 46 115-161 2-48 (48)
7 TIGR01557 myb_SHAQKYF myb-like 99.5 1.1E-14 2.4E-19 99.5 6.1 50 114-163 3-56 (57)
8 PF13921 Myb_DNA-bind_6: Myb-l 99.5 1E-13 2.2E-18 95.2 6.9 44 18-65 1-44 (60)
9 PF00249 Myb_DNA-binding: Myb- 99.4 9.5E-13 2.1E-17 86.7 5.2 46 16-64 2-48 (48)
10 KOG0050 mRNA splicing protein 99.3 6.2E-12 1.3E-16 117.2 7.0 101 15-165 7-107 (617)
11 cd00167 SANT 'SWI3, ADA2, N-Co 99.3 9.9E-12 2.1E-16 79.1 5.7 44 116-160 1-44 (45)
12 smart00717 SANT SANT SWI3, AD 99.3 1E-11 2.3E-16 80.2 5.4 46 115-161 2-47 (49)
13 PF13921 Myb_DNA-bind_6: Myb-l 99.2 2.7E-11 5.9E-16 83.1 4.9 43 117-161 1-43 (60)
14 smart00717 SANT SANT SWI3, AD 99.1 1.7E-10 3.6E-15 74.5 6.0 46 16-64 2-47 (49)
15 KOG0051 RNA polymerase I termi 99.1 2.4E-10 5.2E-15 109.3 9.5 102 14-163 383-509 (607)
16 PLN03212 Transcription repress 99.1 8.1E-11 1.8E-15 101.6 5.5 49 112-161 23-72 (249)
17 COG5147 REB1 Myb superfamily p 99.1 1.6E-10 3.6E-15 109.3 7.3 104 14-166 19-122 (512)
18 KOG0724 Zuotin and related mol 99.1 3.6E-10 7.8E-15 102.6 8.1 169 15-183 31-238 (335)
19 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 6.9E-10 1.5E-14 70.4 5.8 44 17-63 1-44 (45)
20 PLN03091 hypothetical protein; 99.0 7E-10 1.5E-14 102.5 5.3 49 112-161 12-61 (459)
21 KOG0048 Transcription factor, 98.9 6.5E-10 1.4E-14 96.7 3.7 47 114-161 9-56 (238)
22 PLN03142 Probable chromatin-re 98.8 3.3E-08 7E-13 101.1 12.3 131 15-166 824-989 (1033)
23 KOG0457 Histone acetyltransfer 98.7 2.4E-08 5.3E-13 92.0 5.7 49 115-164 73-121 (438)
24 COG5114 Histone acetyltransfer 98.1 2.8E-06 6.2E-11 75.8 4.6 47 116-163 65-111 (432)
25 COG5259 RSC8 RSC chromatin rem 98.0 6.2E-06 1.3E-10 76.9 4.7 42 115-158 280-321 (531)
26 TIGR01557 myb_SHAQKYF myb-like 97.9 4.1E-05 9E-10 52.2 6.5 47 15-64 3-54 (57)
27 KOG0457 Histone acetyltransfer 97.9 1.7E-05 3.6E-10 73.5 6.0 48 14-64 71-118 (438)
28 COG5259 RSC8 RSC chromatin rem 97.8 1.9E-05 4.1E-10 73.7 4.4 45 15-63 279-323 (531)
29 KOG1279 Chromatin remodeling f 97.7 4E-05 8.7E-10 73.1 5.3 43 114-158 253-295 (506)
30 KOG0051 RNA polymerase I termi 97.7 0.00029 6.3E-09 68.2 10.3 113 13-163 434-569 (607)
31 KOG1279 Chromatin remodeling f 97.6 9.5E-05 2.1E-09 70.6 5.7 47 13-63 251-297 (506)
32 PF13325 MCRS_N: N-terminal re 97.5 0.001 2.2E-08 56.4 9.4 112 17-160 1-125 (199)
33 KOG0050 mRNA splicing protein 97.4 0.00011 2.4E-09 69.4 3.8 50 112-162 5-54 (617)
34 PF09111 SLIDE: SLIDE; InterP 97.4 0.00035 7.5E-09 54.6 5.8 52 113-164 48-113 (118)
35 KOG1194 Predicted DNA-binding 97.4 0.0014 3.1E-08 61.2 10.7 50 115-166 370-419 (534)
36 KOG4167 Predicted DNA-binding 97.3 0.00035 7.6E-09 68.5 5.8 45 15-63 619-663 (907)
37 COG5147 REB1 Myb superfamily p 97.3 0.00042 9E-09 66.3 5.3 51 13-67 70-120 (512)
38 KOG4329 DNA-binding protein [G 97.1 0.003 6.4E-08 57.8 9.2 43 114-157 277-319 (445)
39 PF13837 Myb_DNA-bind_4: Myb/S 96.8 0.0016 3.5E-08 47.5 3.9 53 16-68 2-68 (90)
40 COG5114 Histone acetyltransfer 96.7 0.0026 5.6E-08 57.2 5.3 48 15-65 63-110 (432)
41 PF13837 Myb_DNA-bind_4: Myb/S 96.6 0.0049 1.1E-07 44.9 5.5 52 116-167 3-70 (90)
42 KOG1878 Nuclear receptor coreg 96.6 0.0025 5.4E-08 66.6 5.0 146 15-166 225-404 (1672)
43 KOG0385 Chromatin remodeling c 96.6 0.0063 1.4E-07 60.6 7.5 137 15-161 795-956 (971)
44 PF13873 Myb_DNA-bind_5: Myb/S 95.9 0.017 3.7E-07 41.1 4.9 54 15-68 2-73 (78)
45 PF09111 SLIDE: SLIDE; InterP 95.5 0.045 9.8E-07 42.8 6.3 56 12-67 46-113 (118)
46 COG5118 BDP1 Transcription ini 95.5 0.027 5.9E-07 51.9 5.6 49 11-63 361-409 (507)
47 PF08914 Myb_DNA-bind_2: Rap1 95.3 0.038 8.3E-07 38.6 4.7 49 115-163 3-59 (65)
48 TIGR02894 DNA_bind_RsfA transc 95.2 0.02 4.4E-07 46.8 3.3 50 15-65 4-56 (161)
49 PF13873 Myb_DNA-bind_5: Myb/S 95.1 0.1 2.2E-06 37.0 6.5 49 116-164 4-72 (78)
50 PLN03162 golden-2 like transcr 94.8 0.33 7.3E-06 44.8 10.5 57 111-167 234-293 (526)
51 COG5118 BDP1 Transcription ini 94.8 0.063 1.4E-06 49.5 5.8 41 113-155 364-404 (507)
52 KOG4167 Predicted DNA-binding 94.7 0.055 1.2E-06 53.6 5.5 43 116-160 621-663 (907)
53 KOG1194 Predicted DNA-binding 94.3 0.2 4.2E-06 47.3 7.9 130 15-156 369-509 (534)
54 KOG4468 Polycomb-group transcr 94.3 0.068 1.5E-06 51.9 5.0 52 114-166 88-148 (782)
55 TIGR02894 DNA_bind_RsfA transc 93.9 0.081 1.8E-06 43.3 4.1 50 115-166 5-60 (161)
56 PRK13923 putative spore coat p 93.9 0.079 1.7E-06 43.9 4.1 50 15-65 5-57 (170)
57 KOG4329 DNA-binding protein [G 93.5 0.12 2.7E-06 47.5 4.9 48 13-64 275-323 (445)
58 PF12776 Myb_DNA-bind_3: Myb/S 92.8 0.41 8.9E-06 35.0 6.2 48 116-163 1-64 (96)
59 PF12776 Myb_DNA-bind_3: Myb/S 92.7 0.32 7E-06 35.6 5.4 52 17-68 1-66 (96)
60 PRK13923 putative spore coat p 91.9 0.2 4.4E-06 41.5 3.7 49 115-165 6-60 (170)
61 PF08914 Myb_DNA-bind_2: Rap1 91.4 0.47 1E-05 33.1 4.6 51 15-65 2-58 (65)
62 KOG3554 Histone deacetylase co 90.9 0.25 5.5E-06 46.8 3.8 43 114-157 285-327 (693)
63 KOG3554 Histone deacetylase co 89.5 0.38 8.2E-06 45.7 3.6 46 14-63 284-330 (693)
64 KOG4282 Transcription factor G 89.4 1.3 2.7E-05 40.4 7.0 53 15-67 54-116 (345)
65 PLN03142 Probable chromatin-re 89.1 0.75 1.6E-05 48.1 5.8 47 116-163 826-872 (1033)
66 KOG3841 TEF-1 and related tran 89.0 3.2 7E-05 38.6 9.1 52 114-166 76-147 (455)
67 KOG4282 Transcription factor G 87.9 1.4 3E-05 40.2 6.2 54 115-168 55-120 (345)
68 PF13404 HTH_AsnC-type: AsnC-t 84.9 2.9 6.3E-05 26.4 4.7 38 22-63 4-41 (42)
69 PF11035 SnAPC_2_like: Small n 83.8 4 8.6E-05 37.1 6.8 53 15-67 21-73 (344)
70 KOG4468 Polycomb-group transcr 83.4 2.2 4.9E-05 41.8 5.3 52 15-70 88-149 (782)
71 smart00595 MADF subfamily of S 82.4 1.5 3.2E-05 31.6 3.0 24 41-65 30-53 (89)
72 KOG2656 DNA methyltransferase 81.8 1.4 3E-05 41.0 3.2 48 16-67 131-184 (445)
73 KOG2009 Transcription initiati 80.9 1.8 3.9E-05 42.3 3.8 50 10-63 404-453 (584)
74 KOG0724 Zuotin and related mol 78.2 0.58 1.3E-05 42.4 -0.5 50 116-167 55-104 (335)
75 PF04504 DUF573: Protein of un 77.3 5.3 0.00012 30.0 4.7 47 116-163 6-64 (98)
76 PF11626 Rap1_C: TRF2-interact 74.5 4 8.8E-05 29.8 3.3 17 10-26 42-58 (87)
77 KOG0384 Chromodomain-helicase 73.4 2.2 4.7E-05 45.1 2.1 28 114-141 1133-1160(1373)
78 PF06461 DUF1086: Domain of Un 73.3 12 0.00026 30.2 5.9 51 116-167 40-92 (145)
79 PF08281 Sigma70_r4_2: Sigma-7 73.2 13 0.00028 24.0 5.2 42 119-163 12-53 (54)
80 PF05263 DUF722: Protein of un 72.5 11 0.00023 30.0 5.4 46 18-67 82-127 (130)
81 PF13404 HTH_AsnC-type: AsnC-t 71.9 9.9 0.00021 23.9 4.2 39 120-160 3-41 (42)
82 PF08074 CHDCT2: CHDCT2 (NUC03 70.4 2.8 6.1E-05 34.6 1.7 27 116-142 5-31 (173)
83 PF11035 SnAPC_2_like: Small n 69.6 25 0.00054 32.1 7.6 48 113-161 20-70 (344)
84 PF09420 Nop16: Ribosome bioge 67.2 14 0.00031 30.1 5.4 46 113-160 113-162 (164)
85 PRK11179 DNA-binding transcrip 67.1 17 0.00037 29.0 5.8 41 21-65 9-49 (153)
86 KOG2656 DNA methyltransferase 67.1 5.9 0.00013 37.0 3.3 44 115-159 131-179 (445)
87 PF07750 GcrA: GcrA cell cycle 66.9 8.8 0.00019 31.5 4.0 42 17-63 2-43 (162)
88 cd00086 homeodomain Homeodomai 64.4 35 0.00076 21.9 6.0 49 14-63 3-51 (59)
89 PF11084 DUF2621: Protein of u 63.2 14 0.0003 29.4 4.2 32 116-148 58-89 (141)
90 PF00046 Homeobox: Homeobox do 61.2 26 0.00055 22.7 4.8 48 14-62 3-50 (57)
91 PRK11169 leucine-responsive tr 60.3 23 0.0005 28.6 5.4 41 21-65 14-54 (164)
92 PF01466 Skp1: Skp1 family, di 60.0 21 0.00046 25.3 4.5 21 41-61 36-56 (78)
93 PF10545 MADF_DNA_bdg: Alcohol 59.9 11 0.00023 26.2 3.0 27 41-67 29-56 (85)
94 KOG3841 TEF-1 and related tran 59.6 19 0.0004 33.7 5.1 50 14-63 75-141 (455)
95 PF01285 TEA: TEA/ATTS domain 58.0 15 0.00032 35.0 4.3 45 115-160 50-112 (431)
96 KOG2009 Transcription initiati 57.8 11 0.00023 37.1 3.4 45 114-163 409-453 (584)
97 smart00501 BRIGHT BRIGHT, ARID 56.5 30 0.00064 25.2 4.9 41 124-165 36-88 (93)
98 PF01388 ARID: ARID/BRIGHT DNA 56.1 28 0.0006 25.1 4.7 39 124-163 40-90 (92)
99 PF04545 Sigma70_r4: Sigma-70, 56.0 49 0.0011 20.9 6.1 43 19-67 6-48 (50)
100 smart00389 HOX Homeodomain. DN 55.9 51 0.0011 21.0 5.7 47 15-62 4-50 (56)
101 PRK11179 DNA-binding transcrip 55.5 31 0.00067 27.5 5.3 39 120-160 9-47 (153)
102 smart00426 TEA TEA domain. 53.8 34 0.00074 24.1 4.5 23 116-138 5-27 (68)
103 PRK11169 leucine-responsive tr 48.8 36 0.00078 27.5 4.7 40 119-160 13-52 (164)
104 smart00344 HTH_ASNC helix_turn 48.2 61 0.0013 23.7 5.6 41 21-65 3-43 (108)
105 KOG0385 Chromatin remodeling c 47.7 30 0.00064 35.5 4.7 51 115-167 796-846 (971)
106 PF00674 DUP: DUP family; Int 46.6 22 0.00048 26.9 3.0 43 23-65 44-100 (108)
107 PF04504 DUF573: Protein of un 43.4 45 0.00098 24.9 4.2 51 15-65 4-63 (98)
108 PF13325 MCRS_N: N-terminal re 43.2 92 0.002 26.5 6.4 52 13-65 71-127 (199)
109 PF04545 Sigma70_r4: Sigma-70, 43.0 74 0.0016 20.0 4.7 42 121-165 8-49 (50)
110 smart00595 MADF subfamily of S 42.1 23 0.0005 25.2 2.4 27 136-164 29-55 (89)
111 PF06461 DUF1086: Domain of Un 41.9 91 0.002 25.2 5.9 48 18-66 41-88 (145)
112 COG5201 SKP1 SCF ubiquitin lig 41.4 26 0.00055 28.1 2.6 21 41-61 115-135 (158)
113 PF10545 MADF_DNA_bdg: Alcohol 39.9 26 0.00056 24.2 2.3 31 136-167 28-59 (85)
114 smart00426 TEA TEA domain. 36.7 71 0.0015 22.5 4.0 23 15-37 3-25 (68)
115 PF12451 VPS11_C: Vacuolar pro 35.8 28 0.00061 22.7 1.7 27 21-52 19-45 (49)
116 smart00344 HTH_ASNC helix_turn 34.9 1.2E+02 0.0025 22.2 5.3 39 120-160 3-41 (108)
117 PF01285 TEA: TEA/ATTS domain 34.8 52 0.0011 31.3 4.0 50 14-63 48-112 (431)
118 PF08281 Sigma70_r4_2: Sigma-7 33.2 1.3E+02 0.0028 19.0 5.8 24 41-65 29-52 (54)
119 PHA00442 host recBCD nuclease 31.7 53 0.0012 22.1 2.5 25 118-142 24-48 (59)
120 COG5352 Uncharacterized protei 30.8 61 0.0013 26.2 3.2 42 17-63 2-43 (169)
121 COG1522 Lrp Transcriptional re 30.8 1.3E+02 0.0029 23.2 5.3 40 22-65 9-48 (154)
122 COG5269 ZUO1 Ribosome-associat 29.5 89 0.0019 28.2 4.3 49 15-63 245-299 (379)
123 PF09420 Nop16: Ribosome bioge 28.2 1.4E+02 0.003 24.3 5.1 46 14-63 113-162 (164)
124 PRK03906 mannonate dehydratase 27.8 96 0.0021 29.1 4.5 48 15-67 37-92 (385)
125 TIGR00695 uxuA mannonate dehyd 27.6 1.2E+02 0.0026 28.6 5.1 49 15-68 37-93 (394)
126 COG1168 MalY Bifunctional PLP- 27.5 60 0.0013 30.4 3.0 23 13-35 170-192 (388)
127 TIGR02937 sigma70-ECF RNA poly 27.3 1.8E+02 0.0039 21.5 5.4 45 117-165 111-155 (158)
128 PF07750 GcrA: GcrA cell cycle 27.0 92 0.002 25.5 3.8 41 116-159 2-42 (162)
129 TIGR02985 Sig70_bacteroi1 RNA 25.8 2E+02 0.0043 21.9 5.5 41 122-165 118-158 (161)
130 cd08311 Death_p75NR Death doma 25.6 59 0.0013 23.3 2.1 23 119-143 2-24 (77)
131 PF02954 HTH_8: Bacterial regu 22.8 1.6E+02 0.0035 18.0 3.5 22 120-142 5-26 (42)
132 PF10440 WIYLD: Ubiquitin-bind 21.3 69 0.0015 22.4 1.7 18 124-142 31-48 (65)
133 KOG4771 Nucleolar protein (NOP 20.8 1.8E+02 0.0039 24.4 4.3 28 115-143 154-181 (210)
134 PRK09413 IS2 repressor TnpA; R 20.5 78 0.0017 24.2 2.1 26 22-50 93-118 (121)
135 KOG2941 Beta-1,4-mannosyltrans 20.2 45 0.00097 31.2 0.7 22 14-35 260-282 (444)
136 PF09197 Rap1-DNA-bind: Rap1, 20.1 4E+02 0.0088 20.3 6.1 49 18-66 2-77 (105)
No 1
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.92 E-value=9.2e-25 Score=187.28 Aligned_cols=103 Identities=19% Similarity=0.308 Sum_probs=91.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhC-CCCCHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCccc
Q 026855 13 STSSSWTREEDKLFERALVTFPEETPGRWERIARQV-PGKSSVDVQRRYDDLVLDLRKIEAGLVELPGYEDEMDSPGRVA 91 (232)
Q Consensus 13 ~~~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~v-pgRt~~qc~~ry~~ll~~~~~ie~g~~~~p~~~~~~~~~~~~~ 91 (232)
-...+||+|||++|.++|++|+.. +|..||..+ ++||.+||++||.++|+ |
T Consensus 23 lKRg~WT~EEDe~L~~lV~kyG~~---nW~~IAk~~g~gRT~KQCReRW~N~L~------------P------------- 74 (249)
T PLN03212 23 MKRGPWTVEEDEILVSFIKKEGEG---RWRSLPKRAGLLRCGKSCRLRWMNYLR------------P------------- 74 (249)
T ss_pred CcCCCCCHHHHHHHHHHHHHhCcc---cHHHHHHhhhcCCCcchHHHHHHHhhc------------h-------------
Confidence 457789999999999999999864 499999998 59999999999999987 3
Q ss_pred ccCCccCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHH
Q 026855 92 ESGASLGNNSNRSRDRETERRKGVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLRM 164 (232)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~~ 164 (232)
..+.++||+|||++|++++..||. +|..||+ +|+|||..||++||..++++.
T Consensus 75 -------------------~I~kgpWT~EED~lLlel~~~~Gn-KWs~IAk-~LpGRTDnqIKNRWns~LrK~ 126 (249)
T PLN03212 75 -------------------SVKRGGITSDEEDLILRLHRLLGN-RWSLIAG-RIPGRTDNEIKNYWNTHLRKK 126 (249)
T ss_pred -------------------hcccCCCChHHHHHHHHHHHhccc-cHHHHHh-hcCCCCHHHHHHHHHHHHhHH
Confidence 234569999999999999999998 9999999 899999999999998776554
No 2
>PLN03091 hypothetical protein; Provisional
Probab=99.90 E-value=3.6e-23 Score=189.35 Aligned_cols=102 Identities=17% Similarity=0.347 Sum_probs=91.5
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCC-CCCHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCcccc
Q 026855 14 TSSSWTREEDKLFERALVTFPEETPGRWERIARQVP-GKSSVDVQRRYDDLVLDLRKIEAGLVELPGYEDEMDSPGRVAE 92 (232)
Q Consensus 14 ~~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vp-gRt~~qc~~ry~~ll~~~~~ie~g~~~~p~~~~~~~~~~~~~~ 92 (232)
..+.||+|||++|+++|.+||.+ +|..||..++ |||.+||++||.++|+ |
T Consensus 13 rKg~WTpEEDe~L~~~V~kyG~~---nWs~IAk~~g~gRT~KQCRERW~NyLd------------P-------------- 63 (459)
T PLN03091 13 RKGLWSPEEDEKLLRHITKYGHG---CWSSVPKQAGLQRCGKSCRLRWINYLR------------P-------------- 63 (459)
T ss_pred cCCCCCHHHHHHHHHHHHHhCcC---CHHHHhhhhccCcCcchHhHHHHhccC------------C--------------
Confidence 46789999999999999999875 4999999985 8999999999999987 3
Q ss_pred cCCccCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHH
Q 026855 93 SGASLGNNSNRSRDRETERRKGVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLRM 164 (232)
Q Consensus 93 ~~~~~~~~~~~~~~~~~~~~~~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~~ 164 (232)
..++++||.|||++|++++.+||. +|..||+ +|+|||+.||++||...+++.
T Consensus 64 ------------------~IkKgpWT~EED~lLLeL~k~~Gn-KWskIAk-~LPGRTDnqIKNRWnslLKKk 115 (459)
T PLN03091 64 ------------------DLKRGTFSQQEENLIIELHAVLGN-RWSQIAA-QLPGRTDNEIKNLWNSCLKKK 115 (459)
T ss_pred ------------------cccCCCCCHHHHHHHHHHHHHhCc-chHHHHH-hcCCCCHHHHHHHHHHHHHHH
Confidence 234569999999999999999999 9999999 899999999999999876654
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.87 E-value=3.2e-22 Score=173.73 Aligned_cols=102 Identities=20% Similarity=0.309 Sum_probs=93.0
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCC-CCCHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCccccc
Q 026855 15 SSSWTREEDKLFERALVTFPEETPGRWERIARQVP-GKSSVDVQRRYDDLVLDLRKIEAGLVELPGYEDEMDSPGRVAES 93 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vp-gRt~~qc~~ry~~ll~~~~~ie~g~~~~p~~~~~~~~~~~~~~~ 93 (232)
.++||.|||.+|++.|.+||.+ +|..||..++ +|+.++||.||.++|. |
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~---~W~~i~k~~gl~R~GKSCRlRW~NyLr------------P--------------- 58 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKH---NGTALPKLAGLRRCGKSCRLRWTNYLR------------P--------------- 58 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCC---CcchhhhhcCCCccchHHHHHhhcccC------------C---------------
Confidence 5899999999999999999987 4999999999 9999999999999987 3
Q ss_pred CCccCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHc
Q 026855 94 GASLGNNSNRSRDRETERRKGVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLRMN 165 (232)
Q Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~~~ 165 (232)
..+++.||+|||++++++...||. +|..||+ ++||||+.+|++||.-.++|..
T Consensus 59 -----------------~ikrg~fT~eEe~~Ii~lH~~~GN-rWs~IA~-~LPGRTDNeIKN~Wnt~lkkkl 111 (238)
T KOG0048|consen 59 -----------------DLKRGNFSDEEEDLIIKLHALLGN-RWSLIAG-RLPGRTDNEVKNHWNTHLKKKL 111 (238)
T ss_pred -----------------CccCCCCCHHHHHHHHHHHHHHCc-HHHHHHh-hCCCcCHHHHHHHHHHHHHHHH
Confidence 345678999999999999999999 9999999 8999999999999987765543
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.66 E-value=3.7e-16 Score=148.13 Aligned_cols=98 Identities=24% Similarity=0.531 Sum_probs=87.4
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCcc
Q 026855 11 SASTSSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVLDLRKIEAGLVELPGYEDEMDSPGRV 90 (232)
Q Consensus 11 ~~~~~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~~~~~ie~g~~~~p~~~~~~~~~~~~ 90 (232)
+|-+.+.||.+||.+|..||++|++.. |-+|-+.|||||..||++||.+.|+.
T Consensus 356 Psikhg~wt~~ED~~L~~AV~~Yg~kd---w~k~R~~vPnRSdsQcR~RY~nvL~~------------------------ 408 (939)
T KOG0049|consen 356 PSVKHGRWTDQEDVLLVCAVSRYGAKD---WAKVRQAVPNRSDSQCRERYTNVLNR------------------------ 408 (939)
T ss_pred ccccCCCCCCHHHHHHHHHHHHhCccc---hhhHHHhcCCccHHHHHHHHHHHHHH------------------------
Confidence 345678999999999999999999875 99999999999999999999999883
Q ss_pred cccCCccCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHH
Q 026855 91 AESGASLGNNSNRSRDRETERRKGVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASH 156 (232)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~~~~~~~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~ 156 (232)
+.|.+.||-.||+.|+.+|.+||.|+|.+||. ++|.||..|..++
T Consensus 409 --------------------s~K~~rW~l~edeqL~~~V~~YG~g~WakcA~-~Lp~~t~~q~~rr 453 (939)
T KOG0049|consen 409 --------------------SAKVERWTLVEDEQLLYAVKVYGKGNWAKCAM-LLPKKTSRQLRRR 453 (939)
T ss_pred --------------------hhccCceeecchHHHHHHHHHHccchHHHHHH-HccccchhHHHHH
Confidence 12345899999999999999999999999999 8999999775554
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.63 E-value=5.4e-16 Score=146.99 Aligned_cols=104 Identities=22% Similarity=0.490 Sum_probs=93.9
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCcccccC
Q 026855 15 SSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVLDLRKIEAGLVELPGYEDEMDSPGRVAESG 94 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~~~~~ie~g~~~~p~~~~~~~~~~~~~~~~ 94 (232)
..+||+|||..|+.+|..--.|....|.+|-.+||||+..|.+-||...|+ |
T Consensus 305 ekeWsEEed~kL~alV~~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~Ld------------P---------------- 356 (939)
T KOG0049|consen 305 EKEWSEEEDTKLIALVKITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLD------------P---------------- 356 (939)
T ss_pred hhhcchhhhHHHHHHHHHhhccCccchHHHHHhcCCcchhhhhhhheeccC------------c----------------
Confidence 578999999999999999888888999999999999999999999998887 2
Q ss_pred CccCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHH
Q 026855 95 ASLGNNSNRSRDRETERRKGVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLR 163 (232)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~ 163 (232)
..+.++||.+||.+|+.||.+||..+|.+|.. .||+|+..|||.||.+.+.+
T Consensus 357 ----------------sikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~-~vPnRSdsQcR~RY~nvL~~ 408 (939)
T KOG0049|consen 357 ----------------SVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQ-AVPNRSDSQCRERYTNVLNR 408 (939)
T ss_pred ----------------cccCCCCCCHHHHHHHHHHHHhCccchhhHHH-hcCCccHHHHHHHHHHHHHH
Confidence 34567999999999999999999889999998 79999999999976655443
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=99.59 E-value=1.7e-15 Score=99.86 Aligned_cols=46 Identities=37% Similarity=0.703 Sum_probs=41.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcC-CCCHHHHHHHHHHHH
Q 026855 115 VPWTAEEHRLFLIGLEKYGKGDWRSISRNAVV-SRTPTQVASHAQKYF 161 (232)
Q Consensus 115 ~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~-~RT~~q~~~~~~ky~ 161 (232)
++||+|||.+|+++|.+||.++|..||. .|+ +||..||++||++|+
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~-~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYGKDNWKKIAK-RMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp -SS-HHHHHHHHHHHHHSTTTHHHHHHH-HHSSSSTHHHHHHHHHHHT
T ss_pred CCCCHHHHHHHHHHHHHhCCcHHHHHHH-HcCCCCCHHHHHHHHHhhC
Confidence 4799999999999999999966999999 799 999999999999873
No 7
>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=99.54 E-value=1.1e-14 Score=99.50 Aligned_cols=50 Identities=46% Similarity=0.677 Sum_probs=45.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCH---HHHHhhhcCCC-CHHHHHHHHHHHHHH
Q 026855 114 GVPWTAEEHRLFLIGLEKYGKGDW---RSISRNAVVSR-TPTQVASHAQKYFLR 163 (232)
Q Consensus 114 ~~~WT~eEd~~l~~~l~~~G~g~W---~~Ia~~~v~~R-T~~q~~~~~~ky~~~ 163 (232)
+..||+|||.+|++||+.||.|+| +.|++.++.++ |..||++|+||||.+
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~k 56 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLK 56 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHcc
Confidence 357999999999999999999999 99998555577 999999999999876
No 8
>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=99.48 E-value=1e-13 Score=95.24 Aligned_cols=44 Identities=23% Similarity=0.606 Sum_probs=37.6
Q ss_pred CCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHH
Q 026855 18 WTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVL 65 (232)
Q Consensus 18 WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~ 65 (232)
||+|||.+|..++..|+. +|..||++|+.||..+|+.||...+.
T Consensus 1 WT~eEd~~L~~~~~~~g~----~W~~Ia~~l~~Rt~~~~~~r~~~~l~ 44 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN----DWKKIAEHLGNRTPKQCRNRWRNHLR 44 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-----HHHHHHHSTTS-HHHHHHHHHHTTS
T ss_pred CCHHHHHHHHHHHHHHCc----CHHHHHHHHCcCCHHHHHHHHHHHCc
Confidence 999999999999999975 39999999966999999999999543
No 9
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.37 E-value=9.5e-13 Score=86.71 Aligned_cols=46 Identities=30% Similarity=0.801 Sum_probs=41.3
Q ss_pred CCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCC-CCCHHHHHHHHHHHH
Q 026855 16 SSWTREEDKLFERALVTFPEETPGRWERIARQVP-GKSSVDVQRRYDDLV 64 (232)
Q Consensus 16 ~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vp-gRt~~qc~~ry~~ll 64 (232)
..||+||+++|.+||.+||.+ +|..||..|| |||..||+.||..++
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g~~---~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYGKD---NWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp -SS-HHHHHHHHHHHHHSTTT---HHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCHHHHHHHHHHHHHhCCc---HHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 589999999999999999876 6999999999 999999999998864
No 10
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.28 E-value=6.2e-12 Score=117.16 Aligned_cols=101 Identities=21% Similarity=0.417 Sum_probs=90.3
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCcccccC
Q 026855 15 SSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVLDLRKIEAGLVELPGYEDEMDSPGRVAESG 94 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~~~~~ie~g~~~~p~~~~~~~~~~~~~~~~ 94 (232)
++.|+.-||+.|..++.+||.+. |.+||+.++-+|+.||..||.+.++
T Consensus 7 ggvwrntEdeilkaav~kyg~nq---ws~i~sll~~kt~rqC~~rw~e~ld----------------------------- 54 (617)
T KOG0050|consen 7 GGVWRNTEDEVLKAAVMKYGKNQ---WSRIASLLNRKTARQCKARWEEWLD----------------------------- 54 (617)
T ss_pred cceecccHHHHHHHHHHHcchHH---HHHHHHHHhhcchhHHHHHHHHHhC-----------------------------
Confidence 67899999999999999999875 9999999999999999999999887
Q ss_pred CccCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHc
Q 026855 95 ASLGNNSNRSRDRETERRKGVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLRMN 165 (232)
Q Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~~~ 165 (232)
+.++..-|+.|||..||.+...+.. .|..|+. +-+||..||-.||.+.+-...
T Consensus 55 ---------------p~i~~tews~eederlLhlakl~p~-qwrtIa~--i~gr~~~qc~eRy~~ll~~~~ 107 (617)
T KOG0050|consen 55 ---------------PAIKKTEWSREEDERLLHLAKLEPT-QWRTIAD--IMGRTSQQCLERYNNLLDVYV 107 (617)
T ss_pred ---------------HHHhhhhhhhhHHHHHHHHHHhcCC-ccchHHH--HhhhhHHHHHHHHHHHHHHHH
Confidence 2344567999999999999999999 9999997 789999999999987755443
No 11
>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=99.27 E-value=9.9e-12 Score=79.12 Aligned_cols=44 Identities=39% Similarity=0.802 Sum_probs=40.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHH
Q 026855 116 PWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKY 160 (232)
Q Consensus 116 ~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky 160 (232)
+||+||+.+|+.++.+||.++|..||+ ++++||..||++||..+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~-~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAK-ELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHh-HcCCCCHHHHHHHHHHh
Confidence 599999999999999999559999999 89999999999998765
No 12
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.26 E-value=1e-11 Score=80.20 Aligned_cols=46 Identities=30% Similarity=0.596 Sum_probs=42.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHH
Q 026855 115 VPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYF 161 (232)
Q Consensus 115 ~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~ 161 (232)
.+||++|+.+|+.++..||.++|..||. ++++||+.+|+++|..++
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~-~~~~rt~~~~~~~~~~~~ 47 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGKNNWEKIAK-ELPGRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCcCCHHHHHH-HcCCCCHHHHHHHHHHHc
Confidence 4799999999999999999449999999 799999999999988764
No 13
>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=99.19 E-value=2.7e-11 Score=83.07 Aligned_cols=43 Identities=37% Similarity=0.709 Sum_probs=37.0
Q ss_pred CCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHH
Q 026855 117 WTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYF 161 (232)
Q Consensus 117 WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~ 161 (232)
||+|||.+|+.++.+||. +|..||+ ++++||+.||+.||..++
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~-~l~~Rt~~~~~~r~~~~l 43 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAE-HLGNRTPKQCRNRWRNHL 43 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHH-HSTTS-HHHHHHHHHHTT
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHH-HHCcCCHHHHHHHHHHHC
Confidence 999999999999999998 9999999 788899999999888743
No 14
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.12 E-value=1.7e-10 Score=74.47 Aligned_cols=46 Identities=30% Similarity=0.811 Sum_probs=42.0
Q ss_pred CCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHH
Q 026855 16 SSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLV 64 (232)
Q Consensus 16 ~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll 64 (232)
..||++|+.+|..++..||.. +|..||..|++||..||+.+|..++
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~~---~w~~Ia~~~~~rt~~~~~~~~~~~~ 47 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGKN---NWEKIAKELPGRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCcC---CHHHHHHHcCCCCHHHHHHHHHHHc
Confidence 579999999999999999842 3999999999999999999999875
No 15
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.12 E-value=2.4e-10 Score=109.32 Aligned_cols=102 Identities=22% Similarity=0.453 Sum_probs=85.3
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCccccc
Q 026855 14 TSSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVLDLRKIEAGLVELPGYEDEMDSPGRVAES 93 (232)
Q Consensus 14 ~~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~~~~~ie~g~~~~p~~~~~~~~~~~~~~~ 93 (232)
..+.||+||++.|.+++..+|.. |..|+..| ||.+..|+++|..+..- +
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~~----W~~Ig~~l-gr~P~~crd~wr~~~~~------------g-------------- 431 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGND----WKEIGKAL-GRMPMDCRDRWRQYVKC------------G-------------- 431 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhccc----HHHHHHHH-ccCcHHHHHHHHHhhcc------------c--------------
Confidence 57899999999999999998765 99999999 89999999999998651 0
Q ss_pred CCccCCCCCCCCcccccccCCCCCCHHHHHHHHHHHH-------Hh------------CC-----C-CHHHHHhhhcCCC
Q 026855 94 GASLGNNSNRSRDRETERRKGVPWTAEEHRLFLIGLE-------KY------------GK-----G-DWRSISRNAVVSR 148 (232)
Q Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~WT~eEd~~l~~~l~-------~~------------G~-----g-~W~~Ia~~~v~~R 148 (232)
...+.++||.||.++|++.|. +| +. + +|..|++ .++||
T Consensus 432 ----------------~~~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse-~~~TR 494 (607)
T KOG0051|consen 432 ----------------SKRNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSE-MLGTR 494 (607)
T ss_pred ----------------cccccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhH-hhcCC
Confidence 113456899999999999996 33 11 1 7999999 89999
Q ss_pred CHHHHHHHHHHHHHH
Q 026855 149 TPTQVASHAQKYFLR 163 (232)
Q Consensus 149 T~~q~~~~~~ky~~~ 163 (232)
+..||+.+|.+...+
T Consensus 495 ~~~qCr~Kw~kl~~~ 509 (607)
T KOG0051|consen 495 SRIQCRYKWYKLTTS 509 (607)
T ss_pred CcchHHHHHHHHHhh
Confidence 999999988887544
No 16
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.11 E-value=8.1e-11 Score=101.56 Aligned_cols=49 Identities=29% Similarity=0.550 Sum_probs=44.7
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhc-CCCCHHHHHHHHHHHH
Q 026855 112 RKGVPWTAEEHRLFLIGLEKYGKGDWRSISRNAV-VSRTPTQVASHAQKYF 161 (232)
Q Consensus 112 ~~~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v-~~RT~~q~~~~~~ky~ 161 (232)
.++++||+|||++|+.+|++||..+|..||+ .+ ++||+.||+.||.+|+
T Consensus 23 lKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk-~~g~gRT~KQCReRW~N~L 72 (249)
T PLN03212 23 MKRGPWTVEEDEILVSFIKKEGEGRWRSLPK-RAGLLRCGKSCRLRWMNYL 72 (249)
T ss_pred CcCCCCCHHHHHHHHHHHHHhCcccHHHHHH-hhhcCCCcchHHHHHHHhh
Confidence 4456899999999999999999889999999 56 6999999999999996
No 17
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.10 E-value=1.6e-10 Score=109.29 Aligned_cols=104 Identities=19% Similarity=0.377 Sum_probs=91.3
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCccccc
Q 026855 14 TSSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVLDLRKIEAGLVELPGYEDEMDSPGRVAES 93 (232)
Q Consensus 14 ~~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~~~~~ie~g~~~~p~~~~~~~~~~~~~~~ 93 (232)
..+.|+..||..|..++..|+.+. |.+||+.|.-++..||+.||...++ |
T Consensus 19 k~gsw~~~EDe~l~~~vk~l~~nn---ws~vas~~~~~~~kq~~~rw~~~ln------------p--------------- 68 (512)
T COG5147 19 KGGSWKRTEDEDLKALVKKLGPNN---WSKVASLLISSTGKQSSNRWNNHLN------------P--------------- 68 (512)
T ss_pred cCCCCCCcchhHHHHHHhhccccc---HHHHHHHhcccccccccchhhhhhc------------h---------------
Confidence 356899999999999999997654 9999999988899999999977765 2
Q ss_pred CCccCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHcc
Q 026855 94 GASLGNNSNRSRDRETERRKGVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLRMNS 166 (232)
Q Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~~~~ 166 (232)
..+...|+.|||+.|+.+-..+|. .|..||. ++++||..||.++|...+....+
T Consensus 69 -----------------~lk~~~~~~eed~~li~l~~~~~~-~wstia~-~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 69 -----------------QLKKKNWSEEEDEQLIDLDKELGT-QWSTIAD-YKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred -----------------hcccccccHHHHHHHHHHHHhcCc-hhhhhcc-ccCccchHHHHHHHHHHhhhhhc
Confidence 234458999999999999999999 9999999 89999999999988887776655
No 18
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=99.07 E-value=3.6e-10 Score=102.55 Aligned_cols=169 Identities=40% Similarity=0.557 Sum_probs=135.0
Q ss_pred CCCCCHHHHHHHHHHHHHCCCC----CCchHHHHHHhCCC-CCHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCCC-
Q 026855 15 SSSWTREEDKLFERALVTFPEE----TPGRWERIARQVPG-KSSVDVQRRYDDLVLDLRKIEAGLVELPGYEDEMDSPG- 88 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~----~~~rW~~IA~~vpg-Rt~~qc~~ry~~ll~~~~~ie~g~~~~p~~~~~~~~~~- 88 (232)
...|++++.+.+++|+..|... ++++|.+++..||+ .+..+.+.+|..+..++..+.++.+.+|.|........
T Consensus 31 ~~~~~~~~~k~i~ka~~i~~~~~~~~t~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~p~~~~~~~~~~~ 110 (335)
T KOG0724|consen 31 LSLWTEEEFKKIEKALAILDDDEPRRTPDSWDKFAEALPLEKRLEDKIEEYIGLVFDVNIRESGQKPFPKYGKSDTSLAE 110 (335)
T ss_pred hhhhHHHHHHHHHHHHHHHhccccccchhhhhHHHhcCccccccchhHHhhhhhHHHHhhhhccCCCccccCcccccccc
Confidence 3569999999999999999854 78999999999999 99999999999999999999999999998876421000
Q ss_pred -------ccc---ccCCccCC--C----CCC------------CCcccccccCCCCCCHHHHHHHHHHHHHhCCCCHHHH
Q 026855 89 -------RVA---ESGASLGN--N----SNR------------SRDRETERRKGVPWTAEEHRLFLIGLEKYGKGDWRSI 140 (232)
Q Consensus 89 -------~~~---~~~~~~~~--~----~~~------------~~~~~~~~~~~~~WT~eEd~~l~~~l~~~G~g~W~~I 140 (232)
+.. ........ . ... ........+++.+|++.++++++.++.++|++.|..|
T Consensus 111 ~~~~~~~~~~~k~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 190 (335)
T KOG0724|consen 111 VEEFYNFWPKFKSWRQYPQKDEPDEEDSENRSQSRYSGGTQRGKSNAEELRRKGTPVTERERKLVLLALKKDGKIDWRKI 190 (335)
T ss_pred ccccCCccccccccccCCCCCCcccccccchhhhhhcccccccccchhhhhhccchhHHHHHHHHHhhhcccccccceec
Confidence 000 00000000 0 000 0112334456779999999999999999999999999
Q ss_pred HhhhcCCCCHHHHHHHHH-----HHHHHHccccCCCCCCCCCcccccc
Q 026855 141 SRNAVVSRTPTQVASHAQ-----KYFLRMNSVRKDKKRSSIHDITTVD 183 (232)
Q Consensus 141 a~~~v~~RT~~q~~~~~~-----ky~~~~~~~~k~~kr~s~~~~~~~~ 183 (232)
+++++..|++.|+.+|.+ +|+.+.......+++.++++++.+.
T Consensus 191 ~~~~~~~r~~~~~~s~a~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~ 238 (335)
T KOG0724|consen 191 SQNVEKERTPEQVASHAQEKAFEKALARQKSGEEEKRRKSIEDITTAS 238 (335)
T ss_pred hhhhhhhhcchhhhhhhhhhhhHHHHHHHhhhccccccchhhhhhccc
Confidence 999999999999999998 9999999988999999999998876
No 19
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.03 E-value=6.9e-10 Score=70.45 Aligned_cols=44 Identities=34% Similarity=0.836 Sum_probs=40.3
Q ss_pred CCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHH
Q 026855 17 SWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDL 63 (232)
Q Consensus 17 ~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~l 63 (232)
+||++|+.+|..++..||.. +|..||..|++||..||+.+|..+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~---~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKN---NWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcC---CHHHHHhHcCCCCHHHHHHHHHHh
Confidence 59999999999999999842 399999999999999999999875
No 20
>PLN03091 hypothetical protein; Provisional
Probab=98.96 E-value=7e-10 Score=102.49 Aligned_cols=49 Identities=24% Similarity=0.493 Sum_probs=44.0
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhc-CCCCHHHHHHHHHHHH
Q 026855 112 RKGVPWTAEEHRLFLIGLEKYGKGDWRSISRNAV-VSRTPTQVASHAQKYF 161 (232)
Q Consensus 112 ~~~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v-~~RT~~q~~~~~~ky~ 161 (232)
.++++||+|||++|+.+|.+||.++|..||+ .+ ++||+.|||.||.+|+
T Consensus 12 lrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk-~~g~gRT~KQCRERW~NyL 61 (459)
T PLN03091 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPK-QAGLQRCGKSCRLRWINYL 61 (459)
T ss_pred CcCCCCCHHHHHHHHHHHHHhCcCCHHHHhh-hhccCcCcchHhHHHHhcc
Confidence 3446899999999999999999989999998 56 5999999999999885
No 21
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.93 E-value=6.5e-10 Score=96.65 Aligned_cols=47 Identities=19% Similarity=0.340 Sum_probs=44.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcC-CCCHHHHHHHHHHHH
Q 026855 114 GVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVV-SRTPTQVASHAQKYF 161 (232)
Q Consensus 114 ~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~-~RT~~q~~~~~~ky~ 161 (232)
.+|||.|||.+|+..|++||.|+|..|++ ..+ +|++.+||-||..|+
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~~W~~i~k-~~gl~R~GKSCRlRW~NyL 56 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKHNGTALPK-LAGLRRCGKSCRLRWTNYL 56 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCCCcchhhh-hcCCCccchHHHHHhhccc
Confidence 47999999999999999999999999999 799 999999999999995
No 22
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=98.82 E-value=3.3e-08 Score=101.12 Aligned_cols=131 Identities=24% Similarity=0.376 Sum_probs=95.5
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHH----------HHHHHhhcCCCCC------
Q 026855 15 SSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVL----------DLRKIEAGLVELP------ 78 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~----------~~~~ie~g~~~~p------ 78 (232)
=..||+.|-..|++|+.+||.+. .+.||..|.|||..+|+.+++.+.. -+..||.|...+.
T Consensus 824 f~~w~~~~f~~f~~~~~~~gr~~---~~~i~~~~~~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~ 900 (1033)
T PLN03142 824 FSTWSRRDFNAFIRACEKYGRND---IKSIASEMEGKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIM 900 (1033)
T ss_pred cCcccHHHHHHHHHHHHHhCHhH---HHHHHHHhcCCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHH
Confidence 34699999999999999999875 9999999999999999987665432 1345555543321
Q ss_pred --------CCCCCCCCCCcccccCCccCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhh-------
Q 026855 79 --------GYEDEMDSPGRVAESGASLGNNSNRSRDRETERRKGVPWTAEEHRLFLIGLEKYGKGDWRSISRN------- 143 (232)
Q Consensus 79 --------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~------- 143 (232)
.|..+...+.+ .++ ..++..+|+|||+.||..+.+||.|+|..|..+
T Consensus 901 ~~~~~k~~~~~~p~~~l~~----------------~~~--~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f 962 (1033)
T PLN03142 901 KAIGKKLDRYKNPWLELKI----------------QYG--QNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLF 962 (1033)
T ss_pred HHHHHHHHHccCcHHHcee----------------ecC--CCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCce
Confidence 22222111111 011 123447999999999999999999999999654
Q ss_pred ----hcCCCCHHHHHHHHHHHHHHHcc
Q 026855 144 ----AVVSRTPTQVASHAQKYFLRMNS 166 (232)
Q Consensus 144 ----~v~~RT~~q~~~~~~ky~~~~~~ 166 (232)
|+.+||+.++..|+.-++.-+.+
T Consensus 963 ~fd~~~~srt~~~~~~r~~~l~~~~~~ 989 (1033)
T PLN03142 963 RFDWFVKSRTPQELARRCDTLIRLIEK 989 (1033)
T ss_pred eeehhhccCCHHHHHHHHHHHHHHHHH
Confidence 79999999999999866655543
No 23
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.68 E-value=2.4e-08 Score=91.96 Aligned_cols=49 Identities=33% Similarity=0.617 Sum_probs=46.0
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHH
Q 026855 115 VPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLRM 164 (232)
Q Consensus 115 ~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~~ 164 (232)
..||.+|+-+||+|+.+||-|+|..||. +|++||..+|+.||.|+|..-
T Consensus 73 ~~WtadEEilLLea~~t~G~GNW~dIA~-hIGtKtkeeck~hy~k~fv~s 121 (438)
T KOG0457|consen 73 PSWTADEEILLLEAAETYGFGNWQDIAD-HIGTKTKEECKEHYLKHFVNS 121 (438)
T ss_pred CCCChHHHHHHHHHHHHhCCCcHHHHHH-HHcccchHHHHHHHHHHHhcC
Confidence 3699999999999999999999999999 899999999999999998653
No 24
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.12 E-value=2.8e-06 Score=75.81 Aligned_cols=47 Identities=30% Similarity=0.569 Sum_probs=44.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHH
Q 026855 116 PWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLR 163 (232)
Q Consensus 116 ~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~ 163 (232)
.|+.+|+-+|+++++..|-|+|..||. +|+.|+..+|++||-||+..
T Consensus 65 ~WgadEEllli~~~~TlGlGNW~dIad-yiGsr~kee~k~HylK~y~e 111 (432)
T COG5114 65 GWGADEELLLIECLDTLGLGNWEDIAD-YIGSRAKEEIKSHYLKMYDE 111 (432)
T ss_pred CcCchHHHHHHHHHHhcCCCcHHHHHH-HHhhhhhHHHHHHHHHHHhh
Confidence 699999999999999999999999999 89999999999999998763
No 25
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=98.01 E-value=6.2e-06 Score=76.87 Aligned_cols=42 Identities=36% Similarity=0.654 Sum_probs=39.5
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHH
Q 026855 115 VPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQ 158 (232)
Q Consensus 115 ~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ 158 (232)
..||.+|-.+||+||+.||. +|.+||+ +|++||..||.-|+-
T Consensus 280 k~WS~qE~~LLLEGIe~ygD-dW~kVA~-HVgtKt~EqCIl~FL 321 (531)
T COG5259 280 KNWSRQELLLLLEGIEMYGD-DWDKVAR-HVGTKTKEQCILHFL 321 (531)
T ss_pred ccccHHHHHHHHHHHHHhhh-hHHHHHH-HhCCCCHHHHHHHHH
Confidence 48999999999999999998 9999999 799999999999754
No 26
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.93 E-value=4.1e-05 Score=52.25 Aligned_cols=47 Identities=17% Similarity=0.313 Sum_probs=40.9
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCchH---HHHHHhCC-CC-CHHHHHHHHHHHH
Q 026855 15 SSSWTREEDKLFERALVTFPEETPGRW---ERIARQVP-GK-SSVDVQRRYDDLV 64 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~~rW---~~IA~~vp-gR-t~~qc~~ry~~ll 64 (232)
.-.||+||..+|.+||..||.+. | ..|++.+. .+ |..||+.|++.+.
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~---~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPD---WATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCc---ccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 45799999999999999999754 9 99999886 45 9999999998764
No 27
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.93 E-value=1.7e-05 Score=73.51 Aligned_cols=48 Identities=25% Similarity=0.441 Sum_probs=44.2
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHH
Q 026855 14 TSSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLV 64 (232)
Q Consensus 14 ~~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll 64 (232)
-...||.+|.-+|.+|+..||-|+ |..||.+|+.||.++|++||.+..
T Consensus 71 ~~~~WtadEEilLLea~~t~G~GN---W~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 71 LDPSWTADEEILLLEAAETYGFGN---WQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCChHHHHHHHHHHHHhCCCc---HHHHHHHHcccchHHHHHHHHHHH
Confidence 367899999999999999999885 999999999999999999998764
No 28
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.82 E-value=1.9e-05 Score=73.66 Aligned_cols=45 Identities=22% Similarity=0.537 Sum_probs=42.0
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHH
Q 026855 15 SSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDL 63 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~l 63 (232)
...||.+|.-+|.++|..|+.+ |.+||.+|++||++||+.|+..+
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDd----W~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDD----WDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhh----HHHHHHHhCCCCHHHHHHHHHcC
Confidence 4589999999999999999876 99999999999999999999876
No 29
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.74 E-value=4e-05 Score=73.13 Aligned_cols=43 Identities=28% Similarity=0.527 Sum_probs=39.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHH
Q 026855 114 GVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQ 158 (232)
Q Consensus 114 ~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ 158 (232)
+..||++|.-+||++|..||. +|.+||. +|++||..||..|+-
T Consensus 253 ~~~WT~qE~lLLLE~ie~y~d-dW~kVa~-hVg~ks~eqCI~kFL 295 (506)
T KOG1279|consen 253 RPNWTEQETLLLLEAIEMYGD-DWNKVAD-HVGTKSQEQCILKFL 295 (506)
T ss_pred CCCccHHHHHHHHHHHHHhcc-cHHHHHh-ccCCCCHHHHHHHHH
Confidence 347999999999999999999 9999999 899999999999543
No 30
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=97.68 E-value=0.00029 Score=68.18 Aligned_cols=113 Identities=12% Similarity=0.281 Sum_probs=76.2
Q ss_pred CCCCCCCHHHHHHHHHHHH-------HC------------CCC---CCchHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Q 026855 13 STSSSWTREEDKLFERALV-------TF------------PEE---TPGRWERIARQVPGKSSVDVQRRYDDLVLDLRKI 70 (232)
Q Consensus 13 ~~~~~WT~eEd~~L~~av~-------~~------------p~~---~~~rW~~IA~~vpgRt~~qc~~ry~~ll~~~~~i 70 (232)
...+.||.||-+.|.++|. +| |++ ....|..|++.+.+|+..||+.+|.+++..-
T Consensus 434 ~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~--- 510 (607)
T KOG0051|consen 434 RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSP--- 510 (607)
T ss_pred cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhH---
Confidence 3688999999999999995 33 222 3567999999999999999999999987631
Q ss_pred hhcCCCCCCCCCCCCCCCcccccCCccCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCC-
Q 026855 71 EAGLVELPGYEDEMDSPGRVAESGASLGNNSNRSRDRETERRKGVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRT- 149 (232)
Q Consensus 71 e~g~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT- 149 (232)
.... .++ ......-|..|+=..|.. ...+.=+|..|+. +.|+..
T Consensus 511 --------s~n~----~~~--------------------~~~~~~v~l~ErL~dl~~--~e~~~IDW~~l~~-~~~g~~~ 555 (607)
T KOG0051|consen 511 --------SFNK----RQE--------------------SKGSDMVWLLERLSDLDL--TEESPIDWKSLAE-YAPGEST 555 (607)
T ss_pred --------Hhhc----ccc--------------------cccchhHHHHHHHHhccc--ccCCccCHHHHHH-hCCCCCc
Confidence 1000 000 000011365554333322 2444449999999 799998
Q ss_pred HHHHHHHHHHHHHH
Q 026855 150 PTQVASHAQKYFLR 163 (232)
Q Consensus 150 ~~q~~~~~~ky~~~ 163 (232)
+.+|+.+|-+....
T Consensus 556 ~~e~r~q~~~lk~~ 569 (607)
T KOG0051|consen 556 GEELRLQFERLKKK 569 (607)
T ss_pred HHHHHHHHHhHhhc
Confidence 99999977665444
No 31
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.60 E-value=9.5e-05 Score=70.61 Aligned_cols=47 Identities=26% Similarity=0.514 Sum_probs=43.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHH
Q 026855 13 STSSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDL 63 (232)
Q Consensus 13 ~~~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~l 63 (232)
+....||++|+-+|.++|.+|+.+ |.+||.+|.+||..||+.++..+
T Consensus 251 ~~~~~WT~qE~lLLLE~ie~y~dd----W~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 251 SARPNWTEQETLLLLEAIEMYGDD----WNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred cCCCCccHHHHHHHHHHHHHhccc----HHHHHhccCCCCHHHHHHHHHhc
Confidence 346789999999999999999877 99999999999999999999766
No 32
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.46 E-value=0.001 Score=56.41 Aligned_cols=112 Identities=18% Similarity=0.224 Sum_probs=76.3
Q ss_pred CCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCC---CCCHHHHHHHHHHHHHHH--HHHhhcC-CCC-CCCCCCCCCCCc
Q 026855 17 SWTREEDKLFERALVTFPEETPGRWERIARQVP---GKSSVDVQRRYDDLVLDL--RKIEAGL-VEL-PGYEDEMDSPGR 89 (232)
Q Consensus 17 ~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vp---gRt~~qc~~ry~~ll~~~--~~ie~g~-~~~-p~~~~~~~~~~~ 89 (232)
.|++.||-+|+.||..- . .-+.|+.-|+ .-|..++.+||..++-|- ..+.... ..+ |....
T Consensus 1 rW~~~DDl~Li~av~~~----~-~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~------- 68 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQT----N-DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIA------- 68 (199)
T ss_pred CCCchhhHHHHHHHHHh----c-CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhh-------
Confidence 49999999999999872 1 2788888876 459999999999997642 1111100 000 00000
Q ss_pred ccccCCccCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCC--CHHHHHhh----hcCCCCHHHHHHHHHHH
Q 026855 90 VAESGASLGNNSNRSRDRETERRKGVPWTAEEHRLFLIGLEKYGKG--DWRSISRN----AVVSRTPTQVASHAQKY 160 (232)
Q Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~WT~eEd~~l~~~l~~~G~g--~W~~Ia~~----~v~~RT~~q~~~~~~ky 160 (232)
......+||.+|+++|.........+ .+..|=.. |-++||+.+...||+..
T Consensus 69 --------------------~iq~kalfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lm 125 (199)
T PF13325_consen 69 --------------------AIQSKALFSKEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLM 125 (199)
T ss_pred --------------------cccccCCCCHHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHH
Confidence 01123589999999999977666443 56666221 88999999999999954
No 33
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.44 E-value=0.00011 Score=69.38 Aligned_cols=50 Identities=24% Similarity=0.476 Sum_probs=46.2
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHH
Q 026855 112 RKGVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFL 162 (232)
Q Consensus 112 ~~~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~ 162 (232)
++++-|+-.||+.|-.++.+||+..|+.|+. .+.-+|+.||+.+|..|+.
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~s-ll~~kt~rqC~~rw~e~ld 54 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIAS-LLNRKTARQCKARWEEWLD 54 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHH-HHhhcchhHHHHHHHHHhC
Confidence 4567899999999999999999999999999 8999999999999998863
No 34
>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=97.42 E-value=0.00035 Score=54.63 Aligned_cols=52 Identities=31% Similarity=0.539 Sum_probs=42.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC---CCHHHHHhh-----------hcCCCCHHHHHHHHHHHHHHH
Q 026855 113 KGVPWTAEEHRLFLIGLEKYGK---GDWRSISRN-----------AVVSRTPTQVASHAQKYFLRM 164 (232)
Q Consensus 113 ~~~~WT~eEd~~l~~~l~~~G~---g~W~~Ia~~-----------~v~~RT~~q~~~~~~ky~~~~ 164 (232)
++..||+|||+.||..+.+||- |.|..|..+ |+.+||+.++..|..-.+.-+
T Consensus 48 ~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i 113 (118)
T PF09111_consen 48 KKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLI 113 (118)
T ss_dssp S-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHH
T ss_pred CCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHH
Confidence 3458999999999999999999 899999775 899999999999998655444
No 35
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=97.42 E-value=0.0014 Score=61.21 Aligned_cols=50 Identities=4% Similarity=-0.121 Sum_probs=43.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHcc
Q 026855 115 VPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLRMNS 166 (232)
Q Consensus 115 ~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~~~~ 166 (232)
..||.++.-+++++|++||. ....|+- -|+.++--|+.+....|.+|+.-
T Consensus 370 ~~~~T~~~la~v~~I~~~~~-~~~pl~w-rik~t~cmee~e~l~~~~Rr~mf 419 (534)
T KOG1194|consen 370 RCFDTPAALALIDNIKRKHH-MCVPLVW-RVKQTKCMEENEILNEEARRQMF 419 (534)
T ss_pred cccCcHHHHHHHHHHHHhcc-Ccchhhh-HhcCcchhhHHHHHHHHHHHHHH
Confidence 57999999999999999999 7888887 69999999999988888776653
No 36
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=97.33 E-value=0.00035 Score=68.47 Aligned_cols=45 Identities=29% Similarity=0.488 Sum_probs=41.7
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHH
Q 026855 15 SSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDL 63 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~l 63 (232)
+..||..|.++|.+||..|.++ +.+|+.+|++||++||.++|..-
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KD----F~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKD----FIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred cccccHHHHHHHHHHHHHhccc----HHHHHHHhccccHHHHHHHHHHH
Confidence 6789999999999999999876 99999999999999999998644
No 37
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=97.25 E-value=0.00042 Score=66.27 Aligned_cols=51 Identities=22% Similarity=0.378 Sum_probs=45.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 026855 13 STSSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVLDL 67 (232)
Q Consensus 13 ~~~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~~~ 67 (232)
-+...|+.+||+.|..+-..+|-. |..||..++|||..+|.++|...+.+.
T Consensus 70 lk~~~~~~eed~~li~l~~~~~~~----wstia~~~d~rt~~~~~ery~~~~~~~ 120 (512)
T COG5147 70 LKKKNWSEEEDEQLIDLDKELGTQ----WSTIADYKDRRTAQQCVERYVNTLEDL 120 (512)
T ss_pred cccccccHHHHHHHHHHHHhcCch----hhhhccccCccchHHHHHHHHHHhhhh
Confidence 457789999999999999998653 999999999999999999999988753
No 38
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=97.13 E-value=0.003 Score=57.77 Aligned_cols=43 Identities=37% Similarity=0.516 Sum_probs=39.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHH
Q 026855 114 GVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHA 157 (232)
Q Consensus 114 ~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~ 157 (232)
...|+++|=+.|.++|+.||| ++..|.++-|++|+..+|-.+|
T Consensus 277 l~~wsEeEcr~FEegl~~yGK-DF~lIr~nkvrtRsvgElVeyY 319 (445)
T KOG4329|consen 277 LSGWSEEECRNFEEGLELYGK-DFHLIRANKVRTRSVGELVEYY 319 (445)
T ss_pred cccCCHHHHHHHHHHHHHhcc-cHHHHHhcccccchHHHHHHHH
Confidence 347999999999999999999 9999999899999999999853
No 39
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.82 E-value=0.0016 Score=47.45 Aligned_cols=53 Identities=21% Similarity=0.475 Sum_probs=37.8
Q ss_pred CCCCHHHHHHHHHHHHH------CC--CCC-C-chHHHHHHhCC----CCCHHHHHHHHHHHHHHHH
Q 026855 16 SSWTREEDKLFERALVT------FP--EET-P-GRWERIARQVP----GKSSVDVQRRYDDLVLDLR 68 (232)
Q Consensus 16 ~~WT~eEd~~L~~av~~------~p--~~~-~-~rW~~IA~~vp----gRt~~qc~~ry~~ll~~~~ 68 (232)
..||.+|..+|+.++.. |. ... . .-|..||..|. .||+.||+.+|+.|.....
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk 68 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYK 68 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence 47999999999999877 21 111 2 25999999986 5899999999999987654
No 40
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=96.74 E-value=0.0026 Score=57.22 Aligned_cols=48 Identities=21% Similarity=0.423 Sum_probs=43.5
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHH
Q 026855 15 SSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVL 65 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~ 65 (232)
..-|+..|.-+|++++...|-|+ |+-||.+++.|+.++|+.||.++..
T Consensus 63 ~e~WgadEEllli~~~~TlGlGN---W~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGN---WEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCc---HHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 44699999999999999999875 9999999998999999999987754
No 41
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.64 E-value=0.0049 Score=44.85 Aligned_cols=52 Identities=21% Similarity=0.433 Sum_probs=36.9
Q ss_pred CCCHHHHHHHHHHHHH------hCC--C-----CHHHHHhhh---cCCCCHHHHHHHHHHHHHHHccc
Q 026855 116 PWTAEEHRLFLIGLEK------YGK--G-----DWRSISRNA---VVSRTPTQVASHAQKYFLRMNSV 167 (232)
Q Consensus 116 ~WT~eEd~~l~~~l~~------~G~--g-----~W~~Ia~~~---v~~RT~~q~~~~~~ky~~~~~~~ 167 (232)
.||.+|-..||.++.. |+. . -|..||.++ =-.||+.||+.+|.....+.+..
T Consensus 3 ~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~ 70 (90)
T PF13837_consen 3 NWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKI 70 (90)
T ss_dssp SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCS
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 6999999999999887 321 1 499999852 13799999999999877776655
No 42
>KOG1878 consensus Nuclear receptor coregulator SMRT/SMRTER, contains Myb-like domains [Transcription]
Probab=96.62 E-value=0.0025 Score=66.64 Aligned_cols=146 Identities=21% Similarity=0.165 Sum_probs=82.4
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHHH-HHHHhhcC--CCCCCCCC---------
Q 026855 15 SSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVLD-LRKIEAGL--VELPGYED--------- 82 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~~-~~~ie~g~--~~~p~~~~--------- 82 (232)
+..|+.+|-+.|+.-+..++++ +..||++|..+|+.||.-.|..-... ......++ ...+.+..
T Consensus 225 ~n~Ws~~Ek~~fk~rf~~H~kn----f~~~as~~erkSv~d~vlfyy~nkkte~yk~~~~r~~~r~~s~~~~~~~~~~~E 300 (1672)
T KOG1878|consen 225 MNEWSPEEKELFKSRFAQHVKN----FGLIASFFERKSVSDCVLFYYLNKKTENYKKLVRRPKKRSQSYKVGAFPSPEEE 300 (1672)
T ss_pred hhhccccccccccchhhhcCcc----hhhhhhhhcccchhhceeeeeecccchhHHhhhccccccchhccccccCChHhh
Confidence 5689999999999999998776 99999999999999998777422110 00001110 00010000
Q ss_pred ---CCCCCCcccc--------cCCc-cCCCC--CCCC--cccccccCCCCCCH------HHHHHHHHHHHHhCCCCHHHH
Q 026855 83 ---EMDSPGRVAE--------SGAS-LGNNS--NRSR--DRETERRKGVPWTA------EEHRLFLIGLEKYGKGDWRSI 140 (232)
Q Consensus 83 ---~~~~~~~~~~--------~~~~-~~~~~--~~~~--~~~~~~~~~~~WT~------eEd~~l~~~l~~~G~g~W~~I 140 (232)
..+...+... ...+ ...+. .+.. ....+.-......- ||-+.--.|+..+|+ +|.+|
T Consensus 301 le~~ee~~~ledpkes~~~~~~~d~~~~~~~~resv~~e~~~~Ple~~ei~a~e~de~see~ev~k~Glveh~R-~~aai 379 (1672)
T KOG1878|consen 301 LEKEEEKPELEDPKESFPKNKLIDYFGERTVERESVNGEEPFMPLEPYEIFAIEPDELSEEMEVAKSGLVEHGR-EWAAI 379 (1672)
T ss_pred hhhhhhcccccCccccccccccccccccccccccccccCCCCCCCCCccccccCccccchhhhhhhccchhhhh-hHHHh
Confidence 0000000000 0000 00000 0000 00001100112222 334466677888889 99999
Q ss_pred HhhhcCCCCHHHHHHHHHHHHHHHcc
Q 026855 141 SRNAVVSRTPTQVASHAQKYFLRMNS 166 (232)
Q Consensus 141 a~~~v~~RT~~q~~~~~~ky~~~~~~ 166 (232)
+. .|.++|..||.+.|.+|-.|.+.
T Consensus 380 ~p-~vvt~tes~c~na~a~~~~r~N~ 404 (1672)
T KOG1878|consen 380 LP-KVVTKTESQCKNAYAKYKNRHNL 404 (1672)
T ss_pred cC-ccceecccchhhHHHhhhhhhcc
Confidence 99 89999999999999899877775
No 43
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=96.61 E-value=0.0063 Score=60.61 Aligned_cols=137 Identities=19% Similarity=0.247 Sum_probs=82.8
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHHH----------HHHHhhcCCCCCCCCCCC
Q 026855 15 SSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVLD----------LRKIEAGLVELPGYEDEM 84 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~~----------~~~ie~g~~~~p~~~~~~ 84 (232)
-..||+-|-..|+++..+|+.++ -+.||+.+.+ |++++..+.+-+-.. +..|+.|...+..-....
T Consensus 795 ft~w~k~df~~fi~a~eKygr~d---i~~ia~~~e~-~~eev~~y~rvfwer~~el~d~ek~~~~ie~~e~~i~r~~~~~ 870 (971)
T KOG0385|consen 795 FTNWTKRDFNQFIKANEKYGRDD---IENIAAEVEG-TPEEVGEYARVFWERLEELSDIEKIIYQIERGEKRIQRGDSIK 870 (971)
T ss_pred ccchhhhhHHHHHHHhhccCcch---hhhhHHhhcC-CHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhHhhhhHHHHHH
Confidence 34699999999999999999876 8899999988 999998765533221 123444433321000000
Q ss_pred CCCCcccccCCccCCCCCCCC-cccccccCCCCCCHHHHHHHHHHHHHhCCCC---HHHHHhh-----------hcCCCC
Q 026855 85 DSPGRVAESGASLGNNSNRSR-DRETERRKGVPWTAEEHRLFLIGLEKYGKGD---WRSISRN-----------AVVSRT 149 (232)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~WT~eEd~~l~~~l~~~G~g~---W~~Ia~~-----------~v~~RT 149 (232)
..++... ....+..... .++. .++...|++||+.|+.+|.++|-++ |..+-.. |+..||
T Consensus 871 --~~ld~k~--~~~k~p~~l~i~~~~--nk~~~ys~~edrfL~~~l~K~g~~~~~~~e~lr~~~~~~~~frfdw~~~sRt 944 (971)
T KOG0385|consen 871 --KALDDKI--ARYKAPHQLRIQYGT--NKGKNYSEEEDRFLECMLHKLGFDAENVYEELRQPIRNSPQFRFDWFIKSRT 944 (971)
T ss_pred --HHHhhhH--hhhcCchheeeeecc--ccCCCCchhhHHHHHHHHHHhccCchhHHHHHHHHHhcCcccccceeeehhh
Confidence 0000000 0000000000 1112 2456899999999999999999864 5555332 788899
Q ss_pred HHHHHHHHHHHH
Q 026855 150 PTQVASHAQKYF 161 (232)
Q Consensus 150 ~~q~~~~~~ky~ 161 (232)
..+...|+.-|+
T Consensus 945 ~~el~Rr~ntli 956 (971)
T KOG0385|consen 945 AMELQRRCNTLI 956 (971)
T ss_pred HHHHHhcCCeeE
Confidence 888777766553
No 44
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.93 E-value=0.017 Score=41.12 Aligned_cols=54 Identities=15% Similarity=0.401 Sum_probs=43.5
Q ss_pred CCCCCHHHHHHHHHHHHHCCC---C--C--------CchHHHHHHhCC-----CCCHHHHHHHHHHHHHHHH
Q 026855 15 SSSWTREEDKLFERALVTFPE---E--T--------PGRWERIARQVP-----GKSSVDVQRRYDDLVLDLR 68 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~---~--~--------~~rW~~IA~~vp-----gRt~~qc~~ry~~ll~~~~ 68 (232)
...||.+|..+|+++|.+|+. + . ..-|+.||..|. .||..||+..|.++...++
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~K 73 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAK 73 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHH
Confidence 357999999999999999843 1 1 234999999885 5999999999999977654
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=95.55 E-value=0.045 Score=42.76 Aligned_cols=56 Identities=21% Similarity=0.521 Sum_probs=46.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCC------------CCCHHHHHHHHHHHHHHH
Q 026855 12 ASTSSSWTREEDKLFERALVTFPEETPGRWERIARQVP------------GKSSVDVQRRYDDLVLDL 67 (232)
Q Consensus 12 ~~~~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vp------------gRt~~qc~~ry~~ll~~~ 67 (232)
.+....||++||.-|...+.+||-++++.|+.|-..+- .||+.++..|-..|+.-+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i 113 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLI 113 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHH
Confidence 56688999999999999999999988888999988754 899999999999887654
No 46
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=95.52 E-value=0.027 Score=51.86 Aligned_cols=49 Identities=14% Similarity=0.362 Sum_probs=43.6
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHH
Q 026855 11 SASTSSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDL 63 (232)
Q Consensus 11 ~~~~~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~l 63 (232)
.+...-+||.+|.+.|-+||.++|-+ +..|++.+|.|+.+|+.-.|.+-
T Consensus 361 ~~~~~~~Ws~~e~ekFYKALs~wGtd----F~LIs~lfP~R~RkqIKaKfi~E 409 (507)
T COG5118 361 KKKGALRWSKKEIEKFYKALSIWGTD----FSLISSLFPNRERKQIKAKFIKE 409 (507)
T ss_pred CCCCCCcccHHHHHHHHHHHHHhcch----HHHHHHhcCchhHHHHHHHHHHH
Confidence 33456689999999999999999876 99999999999999999999754
No 47
>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=95.32 E-value=0.038 Score=38.63 Aligned_cols=49 Identities=16% Similarity=0.222 Sum_probs=31.3
Q ss_pred CCCCHHHHHHHHHHHHHhC------CC--CHHHHHhhhcCCCCHHHHHHHHHHHHHH
Q 026855 115 VPWTAEEHRLFLIGLEKYG------KG--DWRSISRNAVVSRTPTQVASHAQKYFLR 163 (232)
Q Consensus 115 ~~WT~eEd~~l~~~l~~~G------~g--~W~~Ia~~~v~~RT~~q~~~~~~ky~~~ 163 (232)
.++|+|||..|+..|..+. .| =|+.+++..+...|-..-++||.|.+..
T Consensus 3 ~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~ 59 (65)
T PF08914_consen 3 TPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRG 59 (65)
T ss_dssp ----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT--
T ss_pred CCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Confidence 4799999999999997653 22 3999999544488888899977665443
No 48
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=95.18 E-value=0.02 Score=46.85 Aligned_cols=50 Identities=24% Similarity=0.476 Sum_probs=41.9
Q ss_pred CCCCCHHHHHHHHHHHHHCCCC--C-CchHHHHHHhCCCCCHHHHHHHHHHHHH
Q 026855 15 SSSWTREEDKLFERALVTFPEE--T-PGRWERIARQVPGKSSVDVQRRYDDLVL 65 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~--~-~~rW~~IA~~vpgRt~~qc~~ry~~ll~ 65 (232)
...||.|||.+|...|..|=.. | -.-++.|+..| +||..-|--||...+.
T Consensus 4 QDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VR 56 (161)
T TIGR02894 4 QDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVR 56 (161)
T ss_pred ccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHH
Confidence 4579999999999999998432 2 34489999999 8999999999988776
No 49
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.10 E-value=0.1 Score=37.03 Aligned_cols=49 Identities=18% Similarity=0.225 Sum_probs=39.9
Q ss_pred CCCHHHHHHHHHHHHHh-----CCC-----------CHHHHHhhh----cCCCCHHHHHHHHHHHHHHH
Q 026855 116 PWTAEEHRLFLIGLEKY-----GKG-----------DWRSISRNA----VVSRTPTQVASHAQKYFLRM 164 (232)
Q Consensus 116 ~WT~eEd~~l~~~l~~~-----G~g-----------~W~~Ia~~~----v~~RT~~q~~~~~~ky~~~~ 164 (232)
.||.+|-..|++.|.+| |+. -|..|+..| .+.||..||+..|.++....
T Consensus 4 ~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~ 72 (78)
T PF13873_consen 4 NFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKA 72 (78)
T ss_pred CCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHH
Confidence 69999999999999998 422 599998852 34799999999999886554
No 50
>PLN03162 golden-2 like transcription factor; Provisional
Probab=94.84 E-value=0.33 Score=44.78 Aligned_cols=57 Identities=32% Similarity=0.378 Sum_probs=43.4
Q ss_pred ccCCCCCCHHHHHHHHHHHHHhCCC--CHHHHHhh-hcCCCCHHHHHHHHHHHHHHHccc
Q 026855 111 RRKGVPWTAEEHRLFLIGLEKYGKG--DWRSISRN-AVVSRTPTQVASHAQKYFLRMNSV 167 (232)
Q Consensus 111 ~~~~~~WT~eEd~~l~~~l~~~G~g--~W~~Ia~~-~v~~RT~~q~~~~~~ky~~~~~~~ 167 (232)
++.+-.||+|=|++|+++|.+.|.. -=+.|-+- -|++=|..+|++|-|||...+++.
T Consensus 234 KKpRLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~rk~l 293 (526)
T PLN03162 234 KKAKVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRSHRRHL 293 (526)
T ss_pred CCCcccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHHhcccc
Confidence 3445689999999999999999942 23444431 278899999999999997766543
No 51
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=94.82 E-value=0.063 Score=49.54 Aligned_cols=41 Identities=24% Similarity=0.449 Sum_probs=38.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHH
Q 026855 113 KGVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVAS 155 (232)
Q Consensus 113 ~~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~ 155 (232)
...+||.+|-.+|-.||..+|. ++..||. ++|+|...||+-
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGt-dF~LIs~-lfP~R~RkqIKa 404 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGT-DFSLISS-LFPNRERKQIKA 404 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcc-hHHHHHH-hcCchhHHHHHH
Confidence 3458999999999999999999 9999998 999999999999
No 52
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=94.73 E-value=0.055 Score=53.61 Aligned_cols=43 Identities=30% Similarity=0.444 Sum_probs=39.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHH
Q 026855 116 PWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKY 160 (232)
Q Consensus 116 ~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky 160 (232)
-||..|-++|-.||-.|-+ ++..|++ +|++||..||-.+|-.+
T Consensus 621 ~WTp~E~~lF~kA~y~~~K-DF~~v~k-m~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 621 KWTPLERKLFNKALYTYSK-DFIFVQK-MVKSKTVAQCVEYYYTW 663 (907)
T ss_pred cccHHHHHHHHHHHHHhcc-cHHHHHH-HhccccHHHHHHHHHHH
Confidence 5999999999999999999 9999999 89999999999986544
No 53
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=94.34 E-value=0.2 Score=47.34 Aligned_cols=130 Identities=14% Similarity=0.187 Sum_probs=77.5
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhh----cCC---CCCCCCCCCCCC
Q 026855 15 SSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVLDLRKIEA----GLV---ELPGYEDEMDSP 87 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~~~~~ie~----g~~---~~p~~~~~~~~~ 87 (232)
...||-++--+++..|.+|+++ ..-|+-.+..++.-|+.+-..+..... .++. .++ ...+...+..+.
T Consensus 369 n~~~~T~~~la~v~~I~~~~~~----~~pl~wrik~t~cmee~e~l~~~~Rr~-mfea~~~~s~v~~ge~anwk~dm~~l 443 (534)
T KOG1194|consen 369 NRCFDTPAALALIDNIKRKHHM----CVPLVWRVKQTKCMEENEILNEEARRQ-MFEATMTYSRVPKGEIANWKKDMMAL 443 (534)
T ss_pred ccccCcHHHHHHHHHHHHhccC----cchhhhHhcCcchhhHHHHHHHHHHHH-HHHHHHHhcccccchhccCcchhhhc
Confidence 4579999999999999999987 677888887777777766554332210 0111 000 111111111110
Q ss_pred Cc--ccc--cCCccCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHH
Q 026855 88 GR--VAE--SGASLGNNSNRSRDRETERRKGVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASH 156 (232)
Q Consensus 88 ~~--~~~--~~~~~~~~~~~~~~~~~~~~~~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~ 156 (232)
.. ... ........+.+ + ......-.||++|-. ++....-||. ....||. ++.++|+.|+.-+
T Consensus 444 ~~r~e~~~p~~d~~~t~~~~--~--~~v~~~~~wSp~e~s-~ircf~~y~~-~fe~ia~-l~~tktp~Q~~~f 509 (534)
T KOG1194|consen 444 KGRFERFTPELDTTATNGNR--S--GKVRINYGWSPEEKS-AIRCFHWYKD-NFELIAE-LMATKTPEQIKKF 509 (534)
T ss_pred cccccccCCCCCCChhhcCc--C--CceeecCCCCCcccc-cccCchhhcc-chHHHHH-HhcCCCHHHHHHH
Confidence 00 000 00001111111 1 111123469999988 8888999998 9999998 9999999999883
No 54
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=94.30 E-value=0.068 Score=51.89 Aligned_cols=52 Identities=31% Similarity=0.459 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCHHHHHh---------hhcCCCCHHHHHHHHHHHHHHHcc
Q 026855 114 GVPWTAEEHRLFLIGLEKYGKGDWRSISR---------NAVVSRTPTQVASHAQKYFLRMNS 166 (232)
Q Consensus 114 ~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~---------~~v~~RT~~q~~~~~~ky~~~~~~ 166 (232)
+..||..|...|..||+.||+ ++.+|-. --+..+|..|++-||-+...++++
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k 148 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNK 148 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHh
Confidence 348999999999999999999 9999921 026678889999988777666654
No 55
>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=93.93 E-value=0.081 Score=43.35 Aligned_cols=50 Identities=20% Similarity=0.321 Sum_probs=40.8
Q ss_pred CCCCHHHHHHHHHHHHHhCC-C-----CHHHHHhhhcCCCCHHHHHHHHHHHHHHHcc
Q 026855 115 VPWTAEEHRLFLIGLEKYGK-G-----DWRSISRNAVVSRTPTQVASHAQKYFLRMNS 166 (232)
Q Consensus 115 ~~WT~eEd~~l~~~l~~~G~-g-----~W~~Ia~~~v~~RT~~q~~~~~~ky~~~~~~ 166 (232)
..||+|||.+|-+.|-+|=+ | .+..+++ -=+||+..|.-||+.|.++...
T Consensus 5 DAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~--~L~RTsAACGFRWNs~VRkqY~ 60 (161)
T TIGR02894 5 DAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGR--ALNRTAAACGFRWNAYVRKQYE 60 (161)
T ss_pred cccccHHHHHHHHHHHHHHhcchHHHHHHHHHHH--HHcccHHHhcchHHHHHHHHHH
Confidence 47999999999999988832 2 4677776 4689999999999999886654
No 56
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=93.92 E-value=0.079 Score=43.91 Aligned_cols=50 Identities=18% Similarity=0.409 Sum_probs=40.6
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCC---chHHHHHHhCCCCCHHHHHHHHHHHHH
Q 026855 15 SSSWTREEDKLFERALVTFPEETP---GRWERIARQVPGKSSVDVQRRYDDLVL 65 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~---~rW~~IA~~vpgRt~~qc~~ry~~ll~ 65 (232)
...||.|||.+|.+.|..|..... .-++.++..| +||...|..||...+.
T Consensus 5 qdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vr 57 (170)
T PRK13923 5 QDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVR 57 (170)
T ss_pred hhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHH
Confidence 457999999999999999876442 3378888888 7999999999965544
No 57
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=93.51 E-value=0.12 Score=47.47 Aligned_cols=48 Identities=25% Similarity=0.367 Sum_probs=41.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCCchHHHH-HHhCCCCCHHHHHHHHHHHH
Q 026855 13 STSSSWTREEDKLFERALVTFPEETPGRWERI-ARQVPGKSSVDVQRRYDDLV 64 (232)
Q Consensus 13 ~~~~~WT~eEd~~L~~av~~~p~~~~~rW~~I-A~~vpgRt~~qc~~ry~~ll 64 (232)
.....||++|=..|+..|..||++ +..| |..|+.|++-+|..+|..-.
T Consensus 275 d~l~~wsEeEcr~FEegl~~yGKD----F~lIr~nkvrtRsvgElVeyYYlWK 323 (445)
T KOG4329|consen 275 DDLSGWSEEECRNFEEGLELYGKD----FHLIRANKVRTRSVGELVEYYYLWK 323 (445)
T ss_pred cccccCCHHHHHHHHHHHHHhccc----HHHHHhcccccchHHHHHHHHHHhh
Confidence 446779999999999999999987 7777 56899999999999997553
No 58
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=92.85 E-value=0.41 Score=35.00 Aligned_cols=48 Identities=25% Similarity=0.384 Sum_probs=34.8
Q ss_pred CCCHHHHHHHHHHHHHh---C----CC-----CHHHHHhhh----cCCCCHHHHHHHHHHHHHH
Q 026855 116 PWTAEEHRLFLIGLEKY---G----KG-----DWRSISRNA----VVSRTPTQVASHAQKYFLR 163 (232)
Q Consensus 116 ~WT~eEd~~l~~~l~~~---G----~g-----~W~~Ia~~~----v~~RT~~q~~~~~~ky~~~ 163 (232)
.||+++++.||+++... | .+ .|..|+.+| -...|..||++||+.+-+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~ 64 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKD 64 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHH
Confidence 39999999999998664 1 12 588898752 3345789999998765333
No 59
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=92.71 E-value=0.32 Score=35.57 Aligned_cols=52 Identities=23% Similarity=0.471 Sum_probs=39.6
Q ss_pred CCCHHHHHHHHHHHHHC------C-CCC--CchHHHHHHhCC-----CCCHHHHHHHHHHHHHHHH
Q 026855 17 SWTREEDKLFERALVTF------P-EET--PGRWERIARQVP-----GKSSVDVQRRYDDLVLDLR 68 (232)
Q Consensus 17 ~WT~eEd~~L~~av~~~------p-~~~--~~rW~~IA~~vp-----gRt~~qc~~ry~~ll~~~~ 68 (232)
.||+++++.|.+++... + .+. +.-|..|+..|. ..|..||..||..+...-.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~y~ 66 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKDYR 66 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHHH
Confidence 59999999999998653 1 221 445999999887 3578999999998876543
No 60
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=91.90 E-value=0.2 Score=41.49 Aligned_cols=49 Identities=12% Similarity=0.159 Sum_probs=37.5
Q ss_pred CCCCHHHHHHHHHHHHHhCCCC------HHHHHhhhcCCCCHHHHHHHHHHHHHHHc
Q 026855 115 VPWTAEEHRLFLIGLEKYGKGD------WRSISRNAVVSRTPTQVASHAQKYFLRMN 165 (232)
Q Consensus 115 ~~WT~eEd~~l~~~l~~~G~g~------W~~Ia~~~v~~RT~~q~~~~~~ky~~~~~ 165 (232)
..||.|+|.+|-+.|-.|++.. ...++. .=+||..+|.-||+.+.+++.
T Consensus 6 dawt~e~d~llae~vl~~i~eg~tql~afe~~g~--~L~rt~aac~fRwNs~vrk~Y 60 (170)
T PRK13923 6 DAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGD--ALKRTAAACGFRWNSVVRKQY 60 (170)
T ss_pred hhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHH--HHhhhHHHHHhHHHHHHHHHH
Confidence 4799999999999999997642 333343 457999999999987765443
No 61
>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=91.37 E-value=0.47 Score=33.14 Aligned_cols=51 Identities=14% Similarity=0.224 Sum_probs=33.9
Q ss_pred CCCCCHHHHHHHHHHHHHCCC-----CCCchHHHHHHhCC-CCCHHHHHHHHHHHHH
Q 026855 15 SSSWTREEDKLFERALVTFPE-----ETPGRWERIARQVP-GKSSVDVQRRYDDLVL 65 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~-----~~~~rW~~IA~~vp-gRt~~qc~~ry~~ll~ 65 (232)
..++|.+||++|.+-|+.+.. ....-|..+|+.-+ ..|-+.-++||...+.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~ 58 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLR 58 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence 357899999999999976532 22455999999988 7899999999987765
No 62
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=90.93 E-value=0.25 Score=46.81 Aligned_cols=43 Identities=33% Similarity=0.501 Sum_probs=39.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHH
Q 026855 114 GVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHA 157 (232)
Q Consensus 114 ~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~ 157 (232)
...|+.-|-.+|.++|++||+ ++..|..+|+|=++-..+-..|
T Consensus 285 mEEWSasEanLFEeALeKyGK-DFndIrqdfLPWKSl~sIveyY 327 (693)
T KOG3554|consen 285 MEEWSASEANLFEEALEKYGK-DFNDIRQDFLPWKSLTSIVEYY 327 (693)
T ss_pred hhhccchhhHHHHHHHHHhcc-cHHHHHHhhcchHHHHHHHHHH
Confidence 346999999999999999999 9999999999999999988864
No 63
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=89.52 E-value=0.38 Score=45.69 Aligned_cols=46 Identities=26% Similarity=0.444 Sum_probs=39.5
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCCchHHHH-HHhCCCCCHHHHHHHHHHH
Q 026855 14 TSSSWTREEDKLFERALVTFPEETPGRWERI-ARQVPGKSSVDVQRRYDDL 63 (232)
Q Consensus 14 ~~~~WT~eEd~~L~~av~~~p~~~~~rW~~I-A~~vpgRt~~qc~~ry~~l 63 (232)
.+-+|+..|-.+|++|+.+||++ +..| +.+||=||...+.++|...
T Consensus 284 emEEWSasEanLFEeALeKyGKD----FndIrqdfLPWKSl~sIveyYYmw 330 (693)
T KOG3554|consen 284 EMEEWSASEANLFEEALEKYGKD----FNDIRQDFLPWKSLTSIVEYYYMW 330 (693)
T ss_pred hhhhccchhhHHHHHHHHHhccc----HHHHHHhhcchHHHHHHHHHHHHH
Confidence 36789999999999999999987 6555 6788999999999988654
No 64
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=89.44 E-value=1.3 Score=40.45 Aligned_cols=53 Identities=17% Similarity=0.330 Sum_probs=39.4
Q ss_pred CCCCCHHHHHHHHHHHHH----CCCCC--CchHHHHHHhCC----CCCHHHHHHHHHHHHHHH
Q 026855 15 SSSWTREEDKLFERALVT----FPEET--PGRWERIARQVP----GKSSVDVQRRYDDLVLDL 67 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~----~p~~~--~~rW~~IA~~vp----gRt~~qc~~ry~~ll~~~ 67 (232)
...|+.+|-..|+.+... |..++ ..-|+.||..+. -||..||+.+|+++....
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Y 116 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKY 116 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence 589999999999988543 22221 344999999554 499999999998886544
No 65
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=89.07 E-value=0.75 Score=48.10 Aligned_cols=47 Identities=28% Similarity=0.574 Sum_probs=41.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHH
Q 026855 116 PWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLR 163 (232)
Q Consensus 116 ~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~ 163 (232)
.||.-+=..|+.|+.+||+.+...||. .|.++|..+|+.+++.|..|
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~-~~~~k~~~ev~~y~~~f~~~ 872 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIAS-EMEGKTEEEVERYAKVFWER 872 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHH-HhcCCCHHHHHHHHHHHHHh
Confidence 599999999999999999999999999 69999999999775555444
No 66
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=89.01 E-value=3.2 Score=38.56 Aligned_cols=52 Identities=29% Similarity=0.320 Sum_probs=40.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCC---------------CCHHHHHhhhc-----CCCCHHHHHHHHHHHHHHHcc
Q 026855 114 GVPWTAEEHRLFLIGLEKYGK---------------GDWRSISRNAV-----VSRTPTQVASHAQKYFLRMNS 166 (232)
Q Consensus 114 ~~~WT~eEd~~l~~~l~~~G~---------------g~W~~Ia~~~v-----~~RT~~q~~~~~~ky~~~~~~ 166 (232)
-+-|+++=++.|.+||..|.+ |+=..||+ |+ ++||.+||.+|-|-+-+|..+
T Consensus 76 egvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIar-YIKlrtgktRTrKQVSSHIQVlarrk~r 147 (455)
T KOG3841|consen 76 EGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIAR-YIKLRTGKTRTRKQVSSHIQVLARRKLR 147 (455)
T ss_pred ccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHH-HHHHhcCCchhHHHHHHHHHHHHHHHHH
Confidence 457999999999999999843 46678888 66 467889999998876555443
No 67
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=87.90 E-value=1.4 Score=40.22 Aligned_cols=54 Identities=17% Similarity=0.335 Sum_probs=41.8
Q ss_pred CCCCHHHHHHHHHHHHHh----CCC-----CHHHHHhh---hcCCCCHHHHHHHHHHHHHHHcccc
Q 026855 115 VPWTAEEHRLFLIGLEKY----GKG-----DWRSISRN---AVVSRTPTQVASHAQKYFLRMNSVR 168 (232)
Q Consensus 115 ~~WT~eEd~~l~~~l~~~----G~g-----~W~~Ia~~---~v~~RT~~q~~~~~~ky~~~~~~~~ 168 (232)
..|+.+|=..||.+..+. ..| -|..||+. .---||+.||+.+|.+..++.++.+
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~k 120 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKEK 120 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 479999999999987653 333 49999984 2345999999999988777766653
No 68
>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=84.86 E-value=2.9 Score=26.40 Aligned_cols=38 Identities=26% Similarity=0.346 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHH
Q 026855 22 EDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDL 63 (232)
Q Consensus 22 Ed~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~l 63 (232)
=|..+..+++.-+.-+ |..||+.+ |-|...|..|.+.+
T Consensus 4 ~D~~Il~~Lq~d~r~s---~~~la~~l-glS~~~v~~Ri~rL 41 (42)
T PF13404_consen 4 LDRKILRLLQEDGRRS---YAELAEEL-GLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHHHH-TTS----HHHHHHHH-TS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCcc---HHHHHHHH-CcCHHHHHHHHHHh
Confidence 3667777888765443 99999999 89999999999875
No 69
>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=83.76 E-value=4 Score=37.10 Aligned_cols=53 Identities=17% Similarity=0.355 Sum_probs=41.2
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 026855 15 SSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVLDL 67 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~~~ 67 (232)
...||..|...|.++++..-......-..||..|+||+..|+++.-..|...|
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rv 73 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRV 73 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHH
Confidence 46899999999999998753222233667999999999999998877765544
No 70
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=83.41 E-value=2.2 Score=41.78 Aligned_cols=52 Identities=27% Similarity=0.516 Sum_probs=42.4
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCchHHHH----------HHhCCCCCHHHHHHHHHHHHHHHHHH
Q 026855 15 SSSWTREEDKLFERALVTFPEETPGRWERI----------ARQVPGKSSVDVQRRYDDLVLDLRKI 70 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~~rW~~I----------A~~vpgRt~~qc~~ry~~ll~~~~~i 70 (232)
...||-.|..-|-.||..||++ +++| -..+--||..|++.+|..++..+...
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKd----Fe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~ 149 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKD----FEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKL 149 (782)
T ss_pred ccccchhhHHHHHHHHHHhccc----HHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhh
Confidence 5589999999999999999987 9888 33333589999999999887766443
No 71
>smart00595 MADF subfamily of SANT domain.
Probab=82.35 E-value=1.5 Score=31.57 Aligned_cols=24 Identities=33% Similarity=0.677 Sum_probs=21.6
Q ss_pred HHHHHHhCCCCCHHHHHHHHHHHHH
Q 026855 41 WERIARQVPGKSSVDVQRRYDDLVL 65 (232)
Q Consensus 41 W~~IA~~vpgRt~~qc~~ry~~ll~ 65 (232)
|..||..| |.|+.+|+.+|+.|-.
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~ 53 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRD 53 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 99999999 5699999999998854
No 72
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=81.82 E-value=1.4 Score=41.04 Aligned_cols=48 Identities=25% Similarity=0.398 Sum_probs=41.0
Q ss_pred CCCCHHHHHHHHHHHHHCCCCCCchHHHHHHh-----CCC-CCHHHHHHHHHHHHHHH
Q 026855 16 SSWTREEDKLFERALVTFPEETPGRWERIARQ-----VPG-KSSVDVQRRYDDLVLDL 67 (232)
Q Consensus 16 ~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~-----vpg-Rt~~qc~~ry~~ll~~~ 67 (232)
..||.+|..-|=+++..|.- ||-.||.. ++. ||+++..+||..+...+
T Consensus 131 n~WskeETD~LF~lck~fDL----Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l 184 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDL----RFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKL 184 (445)
T ss_pred ccccHHHHHHHHHHHHhcCe----eEEEEeeccchhhccccccHHHHHHHHHHHHHHH
Confidence 56999999999999999964 58888877 665 99999999998886654
No 73
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=80.87 E-value=1.8 Score=42.30 Aligned_cols=50 Identities=16% Similarity=0.345 Sum_probs=44.0
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHH
Q 026855 10 YSASTSSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDL 63 (232)
Q Consensus 10 ~~~~~~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~l 63 (232)
+.+.....||.+|-++|.+++..++-+ ...|++.+|+|+.+|++..|..-
T Consensus 404 sk~~~~~~w~~se~e~fyka~~~~gs~----~slis~l~p~R~rk~iK~K~~~e 453 (584)
T KOG2009|consen 404 SKKLETDKWDASETELFYKALSERGSD----FSLISNLFPLRDRKQIKAKFKKE 453 (584)
T ss_pred cCccccCcccchhhHHhhhHHhhhccc----ccccccccccccHHHHHHHHhhh
Confidence 444567899999999999999999876 89999999999999999999754
No 74
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=78.22 E-value=0.58 Score=42.43 Aligned_cols=50 Identities=14% Similarity=0.028 Sum_probs=45.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHccc
Q 026855 116 PWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLRMNSV 167 (232)
Q Consensus 116 ~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~~~~~ 167 (232)
.||++++..|..+|..|+. .|..|-. ++..++..+.+.|+++||-.+...
T Consensus 55 ~~t~~~~~~~~~~l~~~~~-~~~~~~~-~~~~~~~v~~~~~~~~~~p~~~~~ 104 (335)
T KOG0724|consen 55 RRTPDSWDKFAEALPLEKR-LEDKIEE-YIGLVFDVNIRESGQKPFPKYGKS 104 (335)
T ss_pred ccchhhhhHHHhcCccccc-cchhHHh-hhhhHHHHhhhhccCCCccccCcc
Confidence 4999999999999999965 9999998 899999999999999998887653
No 75
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=77.30 E-value=5.3 Score=29.97 Aligned_cols=47 Identities=21% Similarity=0.393 Sum_probs=32.9
Q ss_pred CCCHHHHHHHHHHHHHh----CCC---CHHHHHhhhcCCC-----CHHHHHHHHHHHHHH
Q 026855 116 PWTAEEHRLFLIGLEKY----GKG---DWRSISRNAVVSR-----TPTQVASHAQKYFLR 163 (232)
Q Consensus 116 ~WT~eEd~~l~~~l~~~----G~g---~W~~Ia~~~v~~R-----T~~q~~~~~~ky~~~ 163 (232)
-||+|++-.||+|+-.| |.. +|...-. +|.+. |..|+...-.++-+|
T Consensus 6 ~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~-~vk~~l~~~~s~~Ql~~KirrLK~K 64 (98)
T PF04504_consen 6 LWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYD-FVKGSLSFDVSKNQLYDKIRRLKKK 64 (98)
T ss_pred CCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHH-HHHHHccCCCCHHHHHHHHHHHHHH
Confidence 59999999999999998 643 6666655 45443 677877754444333
No 76
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=74.50 E-value=4 Score=29.78 Aligned_cols=17 Identities=24% Similarity=0.618 Sum_probs=9.7
Q ss_pred CCCCCCCCCCHHHHHHH
Q 026855 10 YSASTSSSWTREEDKLF 26 (232)
Q Consensus 10 ~~~~~~~~WT~eEd~~L 26 (232)
.+....+-||++||+.|
T Consensus 42 ~P~n~~GiWT~eDD~~L 58 (87)
T PF11626_consen 42 IPDNMPGIWTPEDDEML 58 (87)
T ss_dssp S-TT-TT---HHHHHHH
T ss_pred CCCCCCCCcCHHHHHHH
Confidence 34455778999999999
No 77
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=73.35 E-value=2.2 Score=45.13 Aligned_cols=28 Identities=36% Similarity=0.839 Sum_probs=25.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCHHHHH
Q 026855 114 GVPWTAEEHRLFLIGLEKYGKGDWRSIS 141 (232)
Q Consensus 114 ~~~WT~eEd~~l~~~l~~~G~g~W~~Ia 141 (232)
...|..++|..||.||-+||.|+|..|-
T Consensus 1133 ~~~W~~e~Ds~LLiGI~khGygswe~Ir 1160 (1373)
T KOG0384|consen 1133 DCDWGSEDDSMLLIGIFKHGYGSWEAIR 1160 (1373)
T ss_pred ccCCCchhhhhHhhhhhhcccccHHHhc
Confidence 4579999999999999999999999994
No 78
>PF06461 DUF1086: Domain of Unknown Function (DUF1086); InterPro: IPR009462 This entry represents several eukaryotic domains of unknown function, which are present in chromodomain helicase DNA binding proteins. This domain is often found in conjunction with IPR000330 from INTERPRO, IPR001650 from INTERPRO, IPR009463 from INTERPRO, IPR000953 from INTERPRO and IPR001965 from INTERPRO.
Probab=73.28 E-value=12 Score=30.24 Aligned_cols=51 Identities=14% Similarity=0.425 Sum_probs=43.5
Q ss_pred CCCHHHHHHHHHHHHHhCCC--CHHHHHhhhcCCCCHHHHHHHHHHHHHHHccc
Q 026855 116 PWTAEEHRLFLIGLEKYGKG--DWRSISRNAVVSRTPTQVASHAQKYFLRMNSV 167 (232)
Q Consensus 116 ~WT~eEd~~l~~~l~~~G~g--~W~~Ia~~~v~~RT~~q~~~~~~ky~~~~~~~ 167 (232)
.++..+.+.|+.+|.+||-| +|+-+-. -+.++|..+++.+..=|+..++..
T Consensus 40 GFn~rQR~~Fln~vMR~G~~~f~~~w~~~-~Lr~Ks~~ei~aY~~LFm~HL~E~ 92 (145)
T PF06461_consen 40 GFNPRQRKAFLNAVMRYGMGAFDWKWFVP-RLRGKSEKEIRAYGSLFMRHLCEP 92 (145)
T ss_pred ccCHHHHHHHHHHHHHHCcCcccchHHhh-hhccccHHHHHHHHHHHHHHhcCC
Confidence 59999999999999999998 7888888 699999999999776666666543
No 79
>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=73.18 E-value=13 Score=23.95 Aligned_cols=42 Identities=12% Similarity=0.167 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHH
Q 026855 119 AEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLR 163 (232)
Q Consensus 119 ~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~ 163 (232)
+++++.++....-.|. .|..||+ .-+.|...|+.+.++-..+
T Consensus 12 ~~~~r~i~~l~~~~g~-s~~eIa~--~l~~s~~~v~~~l~ra~~~ 53 (54)
T PF08281_consen 12 PERQREIFLLRYFQGM-SYAEIAE--ILGISESTVKRRLRRARKK 53 (54)
T ss_dssp -HHHHHHHHHHHTS----HHHHHH--HCTS-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCc-CHHHHHH--HHCcCHHHHHHHHHHHHhh
Confidence 3567777777778888 9999998 4579999999977655443
No 80
>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=72.47 E-value=11 Score=30.00 Aligned_cols=46 Identities=20% Similarity=0.355 Sum_probs=31.0
Q ss_pred CCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 026855 18 WTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVLDL 67 (232)
Q Consensus 18 WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~~~ 67 (232)
+++++.++|.-- |......-|..||..+ ..+..+|+..+..+.+++
T Consensus 82 l~de~k~Ii~lr---y~~r~~~TW~~IA~~l-~i~erta~r~~~~fK~~i 127 (130)
T PF05263_consen 82 LIDEEKRIIKLR---YDRRSRRTWYQIAQKL-HISERTARRWRDRFKNDI 127 (130)
T ss_pred hCHHHHHHHHHH---HcccccchHHHHHHHh-CccHHHHHHHHHHHHHHh
Confidence 344444444333 3333233499999999 699999999998887754
No 81
>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=71.92 E-value=9.9 Score=23.92 Aligned_cols=39 Identities=15% Similarity=0.259 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHH
Q 026855 120 EEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKY 160 (232)
Q Consensus 120 eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky 160 (232)
+=|..|+..|+.-|+-.|..||+ .-|=|...|..|.+++
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~--~lglS~~~v~~Ri~rL 41 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAE--ELGLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHH--HHTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHH--HHCcCHHHHHHHHHHh
Confidence 45889999999999888999998 4577889999987753
No 82
>PF08074 CHDCT2: CHDCT2 (NUC038) domain; InterPro: IPR012957 The CHDCT2 C-terminal domain is found in PHD/RING fingers and chromo domain-associated CHD-like helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=70.42 E-value=2.8 Score=34.56 Aligned_cols=27 Identities=30% Similarity=0.674 Sum_probs=25.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCCHHHHHh
Q 026855 116 PWTAEEHRLFLIGLEKYGKGDWRSISR 142 (232)
Q Consensus 116 ~WT~eEd~~l~~~l~~~G~g~W~~Ia~ 142 (232)
-|-..-|-.||.|+..||.|+|..|..
T Consensus 5 iw~r~hdywll~gi~~hgy~rwqdi~n 31 (173)
T PF08074_consen 5 IWHRRHDYWLLAGIVKHGYGRWQDIQN 31 (173)
T ss_pred hhhhhhhHHHHhHHhhccchhHHHHhc
Confidence 599999999999999999999999964
No 83
>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=69.61 E-value=25 Score=32.12 Aligned_cols=48 Identities=21% Similarity=0.355 Sum_probs=37.8
Q ss_pred CCCCCCHHHHHHHHHHHHHh-CCC--CHHHHHhhhcCCCCHHHHHHHHHHHH
Q 026855 113 KGVPWTAEEHRLFLIGLEKY-GKG--DWRSISRNAVVSRTPTQVASHAQKYF 161 (232)
Q Consensus 113 ~~~~WT~eEd~~l~~~l~~~-G~g--~W~~Ia~~~v~~RT~~q~~~~~~ky~ 161 (232)
....||.-|-+.||.+|+-- |.- +-..|++ .+++|+..+|++.-|.+-
T Consensus 20 gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~-~l~~Rs~aEI~~fl~~LK 70 (344)
T PF11035_consen 20 GPAAWSAREKRQLLRLLQARRGQPEPDAAELAK-ELPGRSEAEIRDFLQQLK 70 (344)
T ss_pred CcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHh-hccCcCHHHHHHHHHHHH
Confidence 34579999999999999875 321 5678898 699999999999655543
No 84
>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=67.15 E-value=14 Score=30.08 Aligned_cols=46 Identities=26% Similarity=0.396 Sum_probs=38.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcC----CCCHHHHHHHHHHH
Q 026855 113 KGVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVV----SRTPTQVASHAQKY 160 (232)
Q Consensus 113 ~~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~----~RT~~q~~~~~~ky 160 (232)
...+=|+.|...+..+|.+||. ++..+++. .. =.|+.||+....+|
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGd-Dy~aMarD-~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGD-DYKAMARD-RKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCc-cHHHHhcc-CCCCcccCCHHHHHHHHHHh
Confidence 3457899999999999999998 99999984 33 26999999987776
No 85
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=67.12 E-value=17 Score=29.00 Aligned_cols=41 Identities=20% Similarity=0.272 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHH
Q 026855 21 EEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVL 65 (232)
Q Consensus 21 eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~ 65 (232)
+-|..+..+++.-+.-+ |..||+.+ |-|...|..|++.|.+
T Consensus 9 ~~D~~Il~~Lq~d~R~s---~~eiA~~l-glS~~tV~~Ri~rL~~ 49 (153)
T PRK11179 9 NLDRGILEALMENARTP---YAELAKQF-GVSPGTIHVRVEKMKQ 49 (153)
T ss_pred HHHHHHHHHHHHcCCCC---HHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 45777888888866544 99999999 8999999999999966
No 86
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=67.11 E-value=5.9 Score=37.02 Aligned_cols=44 Identities=14% Similarity=0.194 Sum_probs=37.5
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCHHHHHhhh----cCC-CCHHHHHHHHHH
Q 026855 115 VPWTAEEHRLFLIGLEKYGKGDWRSISRNA----VVS-RTPTQVASHAQK 159 (232)
Q Consensus 115 ~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~----v~~-RT~~q~~~~~~k 159 (232)
..||.||-.-|..+.++|-- +|-.||..| ++. ||....+.+|-.
T Consensus 131 n~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~ 179 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYS 179 (445)
T ss_pred ccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHH
Confidence 36999999999999999999 999998763 455 999999887643
No 87
>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=66.93 E-value=8.8 Score=31.51 Aligned_cols=42 Identities=29% Similarity=0.328 Sum_probs=33.9
Q ss_pred CCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHH
Q 026855 17 SWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDL 63 (232)
Q Consensus 17 ~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~l 63 (232)
.||+|++++|.++... |. --..||..|+|.|.--|+-+...|
T Consensus 2 ~Wtde~~~~L~~lw~~---G~--SasqIA~~lg~vsRnAViGk~hRl 43 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE---GL--SASQIARQLGGVSRNAVIGKAHRL 43 (162)
T ss_pred CCCHHHHHHHHHHHHc---CC--CHHHHHHHhCCcchhhhhhhhhcc
Confidence 6999999999999865 21 278999999778888888777665
No 88
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=64.40 E-value=35 Score=21.87 Aligned_cols=49 Identities=16% Similarity=0.287 Sum_probs=39.2
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHH
Q 026855 14 TSSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDL 63 (232)
Q Consensus 14 ~~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~l 63 (232)
....+|.+....|++.+...+.-+...=..||..+ |-+..+|..-+...
T Consensus 3 ~r~~~~~~~~~~Le~~f~~~~~P~~~~~~~la~~~-~l~~~qV~~WF~nr 51 (59)
T cd00086 3 KRTRFTPEQLEELEKEFEKNPYPSREEREELAKEL-GLTERQVKIWFQNR 51 (59)
T ss_pred CCCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHH-CcCHHHHHHHHHHH
Confidence 35679999999999999997754555578999999 79999888765543
No 89
>PF11084 DUF2621: Protein of unknown function (DUF2621); InterPro: IPR020203 This entry represents a group of uncharacterised proteins.
Probab=63.18 E-value=14 Score=29.41 Aligned_cols=32 Identities=16% Similarity=0.358 Sum_probs=26.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCC
Q 026855 116 PWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSR 148 (232)
Q Consensus 116 ~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~R 148 (232)
-||+|+-.+|.+++.-.+. -.+.||++-+.+|
T Consensus 58 lW~de~K~lL~eLV~PVPe-lFRdvAk~kIAgk 89 (141)
T PF11084_consen 58 LWTDEQKALLEELVSPVPE-LFRDVAKHKIAGK 89 (141)
T ss_pred hcCHHHHHHHHHHhhcCcH-HHHHHHHHHHHHH
Confidence 5999999999999999987 7888877644444
No 90
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=61.21 E-value=26 Score=22.73 Aligned_cols=48 Identities=19% Similarity=0.369 Sum_probs=38.9
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHH
Q 026855 14 TSSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDD 62 (232)
Q Consensus 14 ~~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ 62 (232)
....+|.++...|+..+...+.-+...-+.||..+ |-+..+|..=+.+
T Consensus 3 ~r~~~t~~q~~~L~~~f~~~~~p~~~~~~~la~~l-~l~~~~V~~WF~n 50 (57)
T PF00046_consen 3 KRTRFTKEQLKVLEEYFQENPYPSKEEREELAKEL-GLTERQVKNWFQN 50 (57)
T ss_dssp SSSSSSHHHHHHHHHHHHHSSSCHHHHHHHHHHHH-TSSHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHHHHhccccccccccccccc-cccccccccCHHH
Confidence 35679999999999999986654556689999999 8999988765544
No 91
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=60.27 E-value=23 Score=28.65 Aligned_cols=41 Identities=17% Similarity=0.090 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHH
Q 026855 21 EEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVL 65 (232)
Q Consensus 21 eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~ 65 (232)
+-|..+..+++.-+.-+ |..||+.+ |-|..-|..|++.|.+
T Consensus 14 ~~D~~IL~~Lq~d~R~s---~~eiA~~l-glS~~tv~~Ri~rL~~ 54 (164)
T PRK11169 14 RIDRNILNELQKDGRIS---NVELSKRV-GLSPTPCLERVRRLER 54 (164)
T ss_pred HHHHHHHHHhccCCCCC---HHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 44666677787765544 99999999 8999999999999976
No 92
>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=59.96 E-value=21 Score=25.30 Aligned_cols=21 Identities=24% Similarity=0.485 Sum_probs=17.7
Q ss_pred HHHHHHhCCCCCHHHHHHHHH
Q 026855 41 WERIARQVPGKSSVDVQRRYD 61 (232)
Q Consensus 41 W~~IA~~vpgRt~~qc~~ry~ 61 (232)
...||..+.|||++|+++.+.
T Consensus 36 ~~~iA~~i~gks~eeir~~fg 56 (78)
T PF01466_consen 36 CKYIANMIKGKSPEEIRKYFG 56 (78)
T ss_dssp HHHHHHHHTTS-HHHHHHHHT
T ss_pred HHHHHHHhcCCCHHHHHHHcC
Confidence 578999999999999999884
No 93
>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=59.85 E-value=11 Score=26.24 Aligned_cols=27 Identities=30% Similarity=0.511 Sum_probs=22.7
Q ss_pred HHHHHHhCCC-CCHHHHHHHHHHHHHHH
Q 026855 41 WERIARQVPG-KSSVDVQRRYDDLVLDL 67 (232)
Q Consensus 41 W~~IA~~vpg-Rt~~qc~~ry~~ll~~~ 67 (232)
|..||..|+. -++.+|+.+|..+....
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~~y 56 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRDRY 56 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHHHH
Confidence 9999999963 58899999999886543
No 94
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=59.64 E-value=19 Score=33.69 Aligned_cols=50 Identities=26% Similarity=0.438 Sum_probs=40.0
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCC------------CchHHHHHHhCC-----CCCHHHHHHHHHHH
Q 026855 14 TSSSWTREEDKLFERALVTFPEET------------PGRWERIARQVP-----GKSSVDVQRRYDDL 63 (232)
Q Consensus 14 ~~~~WT~eEd~~L~~av~~~p~~~------------~~rW~~IA~~vp-----gRt~~qc~~ry~~l 63 (232)
..+.|+++=++.|.+||+.||... =.|=+.||.++. .||.+||..|-+-+
T Consensus 75 aegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVl 141 (455)
T KOG3841|consen 75 AEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVL 141 (455)
T ss_pred cccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHH
Confidence 356899999999999999998743 134599999998 57889998876544
No 95
>PF01285 TEA: TEA/ATTS domain family; InterPro: IPR000818 Transcriptional enhancer activators are nuclear proteins that contain a TEA/ATTSdomain, a DNA-binding region of 66-68 amino acids. The TEA/ATTS domain is found in the N-termini of certain gene regulatory proteins, such as the Simian virus 40 (SV40) enhancer factor TEF-1, yeast trans-acting factor TEC-1 (which is required for TY1 enhancer activity), and the Aspergillus abaA regulatory gene product. SV40 and retroviral enhancers, and those to which TEF-1, TEC-1 and abaA proteins bind, contain GT-IIC sites: the TEA/ATTS domain may therefore recognise and bind such sites. Secondary structure predictions suggest the presence of 3 helices, but have not confirmed the presence of the helix-turn-helix motif characteristic of many DNA-binding proteins: DNA-binding may therefore be effected by a different mechanism [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3L15_B 2HZD_A 3KYS_A 3JUA_C 4EAZ_B.
Probab=58.02 E-value=15 Score=34.99 Aligned_cols=45 Identities=29% Similarity=0.330 Sum_probs=29.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCH-------------HHHHhhhc-----CCCCHHHHHHHHHHH
Q 026855 115 VPWTAEEHRLFLIGLEKYGKGDW-------------RSISRNAV-----VSRTPTQVASHAQKY 160 (232)
Q Consensus 115 ~~WT~eEd~~l~~~l~~~G~g~W-------------~~Ia~~~v-----~~RT~~q~~~~~~ky 160 (232)
+-|+++=+..|++||..|.+--+ ..|++ || ..||.+||.+|-|-+
T Consensus 50 ~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~~-yi~~~tg~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 50 GVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELISD-YIKLKTGKTRTRKQVSSHIQVL 112 (431)
T ss_dssp --S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHHH-HHHHHHS----SHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHHH-HHHHHhCcccchhHHHHHHHHH
Confidence 46999999999999999965322 44555 43 458999999998876
No 96
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=57.85 E-value=11 Score=37.14 Aligned_cols=45 Identities=29% Similarity=0.422 Sum_probs=40.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHH
Q 026855 114 GVPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLR 163 (232)
Q Consensus 114 ~~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~ 163 (232)
...||.+|=.+|-.++..+|. +...|+. .+++|+..|++- ||.+.
T Consensus 409 ~~~w~~se~e~fyka~~~~gs-~~slis~-l~p~R~rk~iK~---K~~~e 453 (584)
T KOG2009|consen 409 TDKWDASETELFYKALSERGS-DFSLISN-LFPLRDRKQIKA---KFKKE 453 (584)
T ss_pred cCcccchhhHHhhhHHhhhcc-ccccccc-ccccccHHHHHH---HHhhh
Confidence 458999999999999999999 9999998 999999999999 55433
No 97
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=56.45 E-value=30 Score=25.20 Aligned_cols=41 Identities=17% Similarity=0.436 Sum_probs=27.2
Q ss_pred HHHHHHHHhC-------CCCHHHHHhhhcCCC-----CHHHHHHHHHHHHHHHc
Q 026855 124 LFLIGLEKYG-------KGDWRSISRNAVVSR-----TPTQVASHAQKYFLRMN 165 (232)
Q Consensus 124 ~l~~~l~~~G-------~g~W~~Ia~~~v~~R-----T~~q~~~~~~ky~~~~~ 165 (232)
.|-.+|.+.| ...|..||+. ++-. ...+++.+|.+|+....
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~-lg~~~~~~~~~~~lk~~Y~k~L~~yE 88 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARE-LGIPDTSTSAASSLRKHYERYLLPFE 88 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHH-hCCCcccchHHHHHHHHHHHHhHHHH
Confidence 3444566655 1279999994 4433 35789999999976543
No 98
>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=56.09 E-value=28 Score=25.09 Aligned_cols=39 Identities=28% Similarity=0.500 Sum_probs=25.8
Q ss_pred HHHHHHHHhC-------CCCHHHHHhhhcCCC---C--HHHHHHHHHHHHHH
Q 026855 124 LFLIGLEKYG-------KGDWRSISRNAVVSR---T--PTQVASHAQKYFLR 163 (232)
Q Consensus 124 ~l~~~l~~~G-------~g~W~~Ia~~~v~~R---T--~~q~~~~~~ky~~~ 163 (232)
.|-.+|.++| .+.|..||+. ++-- + ..+++.+|.+|+..
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~-lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARK-LGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHH-TTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHH-hCCCCCCCcHHHHHHHHHHHHhHh
Confidence 4555666665 1279999995 4322 2 36899999998754
No 99
>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=56.00 E-value=49 Score=20.87 Aligned_cols=43 Identities=26% Similarity=0.305 Sum_probs=30.0
Q ss_pred CHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHHHH
Q 026855 19 TREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVLDL 67 (232)
Q Consensus 19 T~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~~~ 67 (232)
+++|.+.|...+ |..-+ +..||..+ |-|...|+.+....+..+
T Consensus 6 ~~~er~vi~~~y--~~~~t---~~eIa~~l-g~s~~~V~~~~~~al~kL 48 (50)
T PF04545_consen 6 PPREREVIRLRY--FEGLT---LEEIAERL-GISRSTVRRILKRALKKL 48 (50)
T ss_dssp -HHHHHHHHHHH--TST-S---HHHHHHHH-TSCHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHh--cCCCC---HHHHHHHH-CCcHHHHHHHHHHHHHHh
Confidence 455666665555 33333 99999999 899999998888776644
No 100
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=55.87 E-value=51 Score=20.97 Aligned_cols=47 Identities=21% Similarity=0.317 Sum_probs=36.6
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHH
Q 026855 15 SSSWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDD 62 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ 62 (232)
...+|.++..+|+..+...+.-+...-..||..+ |-+..+|..-+.+
T Consensus 4 r~~~~~~~~~~L~~~f~~~~~P~~~~~~~la~~~-~l~~~qV~~WF~n 50 (56)
T smart00389 4 RTSFTPEQLEELEKEFQKNPYPSREEREELAAKL-GLSERQVKVWFQN 50 (56)
T ss_pred CCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHH-CcCHHHHHHhHHH
Confidence 3459999999999999987644445578899999 7888888765544
No 101
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=55.55 E-value=31 Score=27.50 Aligned_cols=39 Identities=13% Similarity=0.231 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHH
Q 026855 120 EEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKY 160 (232)
Q Consensus 120 eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky 160 (232)
+-|+.||.+|++-|+-.|..||+ .-|-|...|+.|+++.
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~--~lglS~~tV~~Ri~rL 47 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAK--QFGVSPGTIHVRVEKM 47 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHH--HHCcCHHHHHHHHHHH
Confidence 57999999999999989999998 4588999999987765
No 102
>smart00426 TEA TEA domain.
Probab=53.85 E-value=34 Score=24.11 Aligned_cols=23 Identities=22% Similarity=0.390 Sum_probs=19.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCHH
Q 026855 116 PWTAEEHRLFLIGLEKYGKGDWR 138 (232)
Q Consensus 116 ~WT~eEd~~l~~~l~~~G~g~W~ 138 (232)
-|.++=+..|++||..|.+-...
T Consensus 5 vWp~~lE~Af~~aL~~~~~~g~~ 27 (68)
T smart00426 5 VWSPDIEQAFQEALAIYPPCGRR 27 (68)
T ss_pred cCcHHHHHHHHHHHHHcCccCcc
Confidence 59999999999999999764334
No 103
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=48.82 E-value=36 Score=27.48 Aligned_cols=40 Identities=23% Similarity=0.248 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHH
Q 026855 119 AEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKY 160 (232)
Q Consensus 119 ~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky 160 (232)
.+-|.++|.+|++-|+=.|..||+ .-|=+...|+.|.+++
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~--~lglS~~tv~~Ri~rL 52 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSK--RVGLSPTPCLERVRRL 52 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHH--HHCcCHHHHHHHHHHH
Confidence 567999999999999889999998 4588999999988765
No 104
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=48.18 E-value=61 Score=23.74 Aligned_cols=41 Identities=24% Similarity=0.238 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHH
Q 026855 21 EEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVL 65 (232)
Q Consensus 21 eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~ 65 (232)
+.|..+..++...+.-+ +..||+.+ |-+...|+++...+.+
T Consensus 3 ~~D~~il~~L~~~~~~~---~~~la~~l-~~s~~tv~~~l~~L~~ 43 (108)
T smart00344 3 EIDRKILEELQKDARIS---LAELAKKV-GLSPSTVHNRVKRLEE 43 (108)
T ss_pred HHHHHHHHHHHHhCCCC---HHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 35667777787766443 99999999 8999999999999866
No 105
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=47.65 E-value=30 Score=35.49 Aligned_cols=51 Identities=29% Similarity=0.582 Sum_probs=44.7
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHccc
Q 026855 115 VPWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLRMNSV 167 (232)
Q Consensus 115 ~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~~~~~ 167 (232)
..||.-+=..|+.+..+||+++=..||+ -+.+ |+.++...+.-++.+++..
T Consensus 796 t~w~k~df~~fi~a~eKygr~di~~ia~-~~e~-~~eev~~y~rvfwer~~el 846 (971)
T KOG0385|consen 796 TNWTKRDFNQFIKANEKYGRDDIENIAA-EVEG-TPEEVGEYARVFWERLEEL 846 (971)
T ss_pred cchhhhhHHHHHHHhhccCcchhhhhHH-hhcC-CHHHHHHHHHHHHHHHHHh
Confidence 3699999999999999999999999999 4777 9999999888887777653
No 106
>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=46.58 E-value=22 Score=26.86 Aligned_cols=43 Identities=26% Similarity=0.440 Sum_probs=30.2
Q ss_pred HHHHHHHHHHCCCCCCchHHHHHHhCC------C--C------CHHHHHHHHHHHHH
Q 026855 23 DKLFERALVTFPEETPGRWERIARQVP------G--K------SSVDVQRRYDDLVL 65 (232)
Q Consensus 23 d~~L~~av~~~p~~~~~rW~~IA~~vp------g--R------t~~qc~~ry~~ll~ 65 (232)
.+.|.+.++.-|......|+.||..|. | + ..++|...++.++.
T Consensus 44 ~kfl~eIi~~~P~~d~~~Wd~IA~~mN~yly~~~~w~t~~~FyDG~~C~~~Fr~~v~ 100 (108)
T PF00674_consen 44 MKFLKEIIEVKPGVDMKKWDIIASRMNQYLYEEGLWNTPYFFYDGKDCYRFFRRLVL 100 (108)
T ss_pred HHHHHHHHhcCCCCCcccHHHHHHHHHHHHHhCCCCCCcCcccCcHHHHHHHHHHhc
Confidence 567777777777767788999999986 1 2 23667776666543
No 107
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=43.37 E-value=45 Score=24.89 Aligned_cols=51 Identities=16% Similarity=0.264 Sum_probs=32.9
Q ss_pred CCCCCHHHHHHHHHHHHHC----CCCCCchHHHHHHhCCC-----CCHHHHHHHHHHHHH
Q 026855 15 SSSWTREEDKLFERALVTF----PEETPGRWERIARQVPG-----KSSVDVQRRYDDLVL 65 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~----p~~~~~rW~~IA~~vpg-----Rt~~qc~~ry~~ll~ 65 (232)
...||++|.-.|.+++..| |......|..+..+|.+ -|..|+.+....|..
T Consensus 4 qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~ 63 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKK 63 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHH
Confidence 3569999999888998888 32222346555554432 366777777666644
No 108
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=43.24 E-value=92 Score=26.55 Aligned_cols=52 Identities=10% Similarity=0.268 Sum_probs=38.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhC-----CCCCHHHHHHHHHHHHH
Q 026855 13 STSSSWTREEDKLFERALVTFPEETPGRWERIARQV-----PGKSSVDVQRRYDDLVL 65 (232)
Q Consensus 13 ~~~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~v-----pgRt~~qc~~ry~~ll~ 65 (232)
-....||.+|+.+|......... +...|.+|=..= ++||+++-..||..+..
T Consensus 71 q~kalfS~~EE~lL~~v~s~~~p-~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkq 127 (199)
T PF13325_consen 71 QSKALFSKEEEQLLGTVASSSQP-SLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQ 127 (199)
T ss_pred cccCCCCHHHHHHHHhhhhccCC-cHHHHHHHHHhChhhhccccCHHHHHHHHHHHHH
Confidence 35789999999999996655422 345677775543 38999999999997644
No 109
>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=42.99 E-value=74 Score=20.03 Aligned_cols=42 Identities=10% Similarity=0.039 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHc
Q 026855 121 EHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLRMN 165 (232)
Q Consensus 121 Ed~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~~~ 165 (232)
+++.++...--.|. .+..||+ .-|-|...|+.+..+-+.+++
T Consensus 8 ~er~vi~~~y~~~~-t~~eIa~--~lg~s~~~V~~~~~~al~kLR 49 (50)
T PF04545_consen 8 REREVIRLRYFEGL-TLEEIAE--RLGISRSTVRRILKRALKKLR 49 (50)
T ss_dssp HHHHHHHHHHTST--SHHHHHH--HHTSCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhcCCC-CHHHHHH--HHCCcHHHHHHHHHHHHHHhc
Confidence 44444444444455 8999998 456688888887777666654
No 110
>smart00595 MADF subfamily of SANT domain.
Probab=42.08 E-value=23 Score=25.16 Aligned_cols=27 Identities=11% Similarity=0.175 Sum_probs=21.4
Q ss_pred CHHHHHhhhcCCCCHHHHHHHHHHHHHHH
Q 026855 136 DWRSISRNAVVSRTPTQVASHAQKYFLRM 164 (232)
Q Consensus 136 ~W~~Ia~~~v~~RT~~q~~~~~~ky~~~~ 164 (232)
.|..||. .++. |..+|+.+|+......
T Consensus 29 aW~~Ia~-~l~~-~~~~~~~kw~~LR~~y 55 (89)
T smart00595 29 AWEEIAE-ELGL-SVEECKKRWKNLRDRY 55 (89)
T ss_pred HHHHHHH-HHCc-CHHHHHHHHHHHHHHH
Confidence 6999999 4766 9999999998764333
No 111
>PF06461 DUF1086: Domain of Unknown Function (DUF1086); InterPro: IPR009462 This entry represents several eukaryotic domains of unknown function, which are present in chromodomain helicase DNA binding proteins. This domain is often found in conjunction with IPR000330 from INTERPRO, IPR001650 from INTERPRO, IPR009463 from INTERPRO, IPR000953 from INTERPRO and IPR001965 from INTERPRO.
Probab=41.92 E-value=91 Score=25.23 Aligned_cols=48 Identities=15% Similarity=0.282 Sum_probs=40.7
Q ss_pred CCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 026855 18 WTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVLD 66 (232)
Q Consensus 18 WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~~ 66 (232)
++..+-+.|..+|..||-+.- .|.-+...|.+||.++++.+-.-++.-
T Consensus 41 Fn~rQR~~Fln~vMR~G~~~f-~~~w~~~~Lr~Ks~~ei~aY~~LFm~H 88 (145)
T PF06461_consen 41 FNPRQRKAFLNAVMRYGMGAF-DWKWFVPRLRGKSEKEIRAYGSLFMRH 88 (145)
T ss_pred cCHHHHHHHHHHHHHHCcCcc-cchHHhhhhccccHHHHHHHHHHHHHH
Confidence 789999999999999998643 488889999999999998887666553
No 112
>COG5201 SKP1 SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, chaperones]
Probab=41.38 E-value=26 Score=28.06 Aligned_cols=21 Identities=19% Similarity=0.480 Sum_probs=17.9
Q ss_pred HHHHHHhCCCCCHHHHHHHHH
Q 026855 41 WERIARQVPGKSSVDVQRRYD 61 (232)
Q Consensus 41 W~~IA~~vpgRt~~qc~~ry~ 61 (232)
...||+.+.|||+.++++-+.
T Consensus 115 CKivaemirgkSpeeir~tfn 135 (158)
T COG5201 115 CKIVAEMIRGKSPEEIRETFN 135 (158)
T ss_pred HHHHHHHHccCCHHHHHHHhC
Confidence 588999999999999887663
No 113
>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=39.93 E-value=26 Score=24.20 Aligned_cols=31 Identities=13% Similarity=0.183 Sum_probs=23.3
Q ss_pred CHHHHHhhhcCC-CCHHHHHHHHHHHHHHHccc
Q 026855 136 DWRSISRNAVVS-RTPTQVASHAQKYFLRMNSV 167 (232)
Q Consensus 136 ~W~~Ia~~~v~~-RT~~q~~~~~~ky~~~~~~~ 167 (232)
-|..||.+ ++. -+..+|+.+|+.+.......
T Consensus 28 aw~~Ia~~-l~~~~~~~~~~~~w~~Lr~~y~~~ 59 (85)
T PF10545_consen 28 AWQEIARE-LGKEFSVDDCKKRWKNLRDRYRRE 59 (85)
T ss_pred HHHHHHHH-HccchhHHHHHHHHHHHHHHHHHH
Confidence 69999995 653 57789999998876555544
No 114
>smart00426 TEA TEA domain.
Probab=36.70 E-value=71 Score=22.50 Aligned_cols=23 Identities=22% Similarity=0.588 Sum_probs=19.2
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCC
Q 026855 15 SSSWTREEDKLFERALVTFPEET 37 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~ 37 (232)
...|.++=...|.+||..|+...
T Consensus 3 ~~vWp~~lE~Af~~aL~~~~~~g 25 (68)
T smart00426 3 EGVWSPDIEQAFQEALAIYPPCG 25 (68)
T ss_pred CCcCcHHHHHHHHHHHHHcCccC
Confidence 46799888889999999998643
No 115
>PF12451 VPS11_C: Vacuolar protein sorting protein 11 C terminal; InterPro: IPR024763 Vps 11 is one of the evolutionarily conserved class C vacuolar protein sorting genes (c-vps: vps11, vps16, vps18, and vps33), whose products physically associate to form the c-vps protein complex required for vesicle docking and fusion. This entry represents the C-terminal domain of vps11.
Probab=35.82 E-value=28 Score=22.70 Aligned_cols=27 Identities=33% Similarity=0.601 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHCCCCCCchHHHHHHhCCCCC
Q 026855 21 EEDKLFERALVTFPEETPGRWERIARQVPGKS 52 (232)
Q Consensus 21 eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt 52 (232)
+.-++|..+| .+..+++..||.++ ||-
T Consensus 19 ~~~d~F~~~L----~~s~D~F~vIaeyf-GrG 45 (49)
T PF12451_consen 19 DQHDLFFKQL----EESEDRFSVIAEYF-GRG 45 (49)
T ss_pred hcHHHHHHHH----HhCCCCchhHHHHH-ccc
Confidence 3456777777 34567899999999 664
No 116
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=34.92 E-value=1.2e+02 Score=22.21 Aligned_cols=39 Identities=21% Similarity=0.302 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHH
Q 026855 120 EEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKY 160 (232)
Q Consensus 120 eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky 160 (232)
+.|+.++..|...|.-.+..||+ .-+-+...|+.+.+++
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~--~l~~s~~tv~~~l~~L 41 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAK--KVGLSPSTVHNRVKRL 41 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHH--HHCcCHHHHHHHHHHH
Confidence 57899999999998779999998 3488889999976654
No 117
>PF01285 TEA: TEA/ATTS domain family; InterPro: IPR000818 Transcriptional enhancer activators are nuclear proteins that contain a TEA/ATTSdomain, a DNA-binding region of 66-68 amino acids. The TEA/ATTS domain is found in the N-termini of certain gene regulatory proteins, such as the Simian virus 40 (SV40) enhancer factor TEF-1, yeast trans-acting factor TEC-1 (which is required for TY1 enhancer activity), and the Aspergillus abaA regulatory gene product. SV40 and retroviral enhancers, and those to which TEF-1, TEC-1 and abaA proteins bind, contain GT-IIC sites: the TEA/ATTS domain may therefore recognise and bind such sites. Secondary structure predictions suggest the presence of 3 helices, but have not confirmed the presence of the helix-turn-helix motif characteristic of many DNA-binding proteins: DNA-binding may therefore be effected by a different mechanism [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3L15_B 2HZD_A 3KYS_A 3JUA_C 4EAZ_B.
Probab=34.79 E-value=52 Score=31.34 Aligned_cols=50 Identities=22% Similarity=0.396 Sum_probs=33.7
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCC----------chHHHHHHhCC-----CCCHHHHHHHHHHH
Q 026855 14 TSSSWTREEDKLFERALVTFPEETP----------GRWERIARQVP-----GKSSVDVQRRYDDL 63 (232)
Q Consensus 14 ~~~~WT~eEd~~L~~av~~~p~~~~----------~rW~~IA~~vp-----gRt~~qc~~ry~~l 63 (232)
....|+++=...|.+||+.||...- .|=+.||.+|- .||.+||--|-..|
T Consensus 48 ~~~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~~yi~~~tg~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 48 GEGVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELISDYIKLKTGKTRTRKQVSSHIQVL 112 (431)
T ss_dssp GS--S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHHHHHHHHHS----SHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHHHHHHHHhCcccchhHHHHHHHHH
Confidence 3668999999999999999987542 22378888876 37888998888777
No 118
>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=33.20 E-value=1.3e+02 Score=19.03 Aligned_cols=24 Identities=29% Similarity=0.356 Sum_probs=19.4
Q ss_pred HHHHHHhCCCCCHHHHHHHHHHHHH
Q 026855 41 WERIARQVPGKSSVDVQRRYDDLVL 65 (232)
Q Consensus 41 W~~IA~~vpgRt~~qc~~ry~~ll~ 65 (232)
|..||+.+ |.|...|..++...+.
T Consensus 29 ~~eIa~~l-~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 29 YAEIAEIL-GISESTVKRRLRRARK 52 (54)
T ss_dssp HHHHHHHC-TS-HHHHHHHHHHHHH
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHh
Confidence 99999999 8999999988876543
No 119
>PHA00442 host recBCD nuclease inhibitor
Probab=31.68 E-value=53 Score=22.14 Aligned_cols=25 Identities=24% Similarity=0.468 Sum_probs=21.7
Q ss_pred CHHHHHHHHHHHHHhCCCCHHHHHh
Q 026855 118 TAEEHRLFLIGLEKYGKGDWRSISR 142 (232)
Q Consensus 118 T~eEd~~l~~~l~~~G~g~W~~Ia~ 142 (232)
+-|-+..||.+|+..|..+|..+..
T Consensus 24 sLek~~~~L~~Lea~GVDNW~Gy~e 48 (59)
T PHA00442 24 SLEKDNEFLKALRACGVDNWDGYMD 48 (59)
T ss_pred HHHHhhHHHHHHHHcCCcchhhHHH
Confidence 4577888999999999999998865
No 120
>COG5352 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.83 E-value=61 Score=26.24 Aligned_cols=42 Identities=24% Similarity=0.290 Sum_probs=30.3
Q ss_pred CCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHH
Q 026855 17 SWTREEDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDL 63 (232)
Q Consensus 17 ~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~l 63 (232)
.||+|-.+.|+++-.. |. .=..||.+|+|-|..-|+-.-..|
T Consensus 2 nWtdERve~LkKLWse---GL--SASQIAaQLGGVsRnAVIGKVHRL 43 (169)
T COG5352 2 NWTDERVETLKKLWSE---GL--SASQIAAQLGGVSRNAVIGKVHRL 43 (169)
T ss_pred CchHHHHHHHHHHHHc---cc--CHHHHHHHhcCcchhhhheeeeec
Confidence 5999999999998543 21 147899999998876666544433
No 121
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=30.76 E-value=1.3e+02 Score=23.23 Aligned_cols=40 Identities=28% Similarity=0.181 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHCCCCCCchHHHHHHhCCCCCHHHHHHHHHHHHH
Q 026855 22 EDKLFERALVTFPEETPGRWERIARQVPGKSSVDVQRRYDDLVL 65 (232)
Q Consensus 22 Ed~~L~~av~~~p~~~~~rW~~IA~~vpgRt~~qc~~ry~~ll~ 65 (232)
-|..+.++++.-+. ..+..||+.+ |-|...|..|-+.|.+
T Consensus 9 ~D~~IL~~L~~d~r---~~~~eia~~l-glS~~~v~~Ri~~L~~ 48 (154)
T COG1522 9 IDRRILRLLQEDAR---ISNAELAERV-GLSPSTVLRRIKRLEE 48 (154)
T ss_pred HHHHHHHHHHHhCC---CCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 35566666666443 3499999999 8999999999999866
No 122
>COG5269 ZUO1 Ribosome-associated chaperone zuotin [Translation, ribosomal structure and biogenesis / Posttranslational modification, protein turnover, chaperones]
Probab=29.49 E-value=89 Score=28.18 Aligned_cols=49 Identities=14% Similarity=0.179 Sum_probs=37.5
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCC-CchHHHHHHhCCC-----CCHHHHHHHHHHH
Q 026855 15 SSSWTREEDKLFERALVTFPEET-PGRWERIARQVPG-----KSSVDVQRRYDDL 63 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~-~~rW~~IA~~vpg-----Rt~~qc~~ry~~l 63 (232)
...|++++-..+..+.+.+++.- ..+|+.+|+.+-+ |..+++.+....+
T Consensus 245 ~rkWereagar~~a~aa~k~kae~k~kae~ea~a~asa~a~kkkaKE~~kka~k~ 299 (379)
T COG5269 245 IRKWEREAGARLKALAALKGKAEAKNKAEIEAEALASATAVKKKAKEVMKKALKM 299 (379)
T ss_pred HhccchhhhhhHHHHHHHhhhhHHHhHHHHHHHHhhhhHHHHHhHHHHHHHHHHH
Confidence 45799999999999999998754 6789999998853 4555666555544
No 123
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=28.20 E-value=1.4e+02 Score=24.25 Aligned_cols=46 Identities=11% Similarity=0.226 Sum_probs=36.0
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCC----CCCHHHHHHHHHHH
Q 026855 14 TSSSWTREEDKLFERALVTFPEETPGRWERIARQVP----GKSSVDVQRRYDDL 63 (232)
Q Consensus 14 ~~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vp----gRt~~qc~~ry~~l 63 (232)
....=|..|..-+..+|.+||.+ ++..|.-.. ..|..||+.+...+
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdD----y~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDD----YKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCcc----HHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 34567889999999999999976 888876543 46999998887654
No 124
>PRK03906 mannonate dehydratase; Provisional
Probab=27.80 E-value=96 Score=29.07 Aligned_cols=48 Identities=19% Similarity=0.288 Sum_probs=37.1
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCC--------CCCHHHHHHHHHHHHHHH
Q 026855 15 SSSWTREEDKLFERALVTFPEETPGRWERIARQVP--------GKSSVDVQRRYDDLVLDL 67 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vp--------gRt~~qc~~ry~~ll~~~ 67 (232)
...||.+|+..+++.+..+|-. |+.|.+ +| +-+..+-++.|++.+..+
T Consensus 37 g~~W~~~~i~~~~~~ie~~Gl~----~~vvEs-~pv~~~Ik~g~~~rd~~ie~y~~sirnl 92 (385)
T PRK03906 37 GEVWPVEEILARKAEIEAAGLE----WSVVES-VPVHEDIKTGTPNRDRYIENYKQTLRNL 92 (385)
T ss_pred CCCCCHHHHHHHHHHHHHcCCe----EEEEeC-CCccHHHHcCCCCHHHHHHHHHHHHHHH
Confidence 5789999999999999999864 877744 33 345577788888877755
No 125
>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=27.56 E-value=1.2e+02 Score=28.60 Aligned_cols=49 Identities=16% Similarity=0.284 Sum_probs=38.0
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCchHHHHHHhCC--------CCCHHHHHHHHHHHHHHHH
Q 026855 15 SSSWTREEDKLFERALVTFPEETPGRWERIARQVP--------GKSSVDVQRRYDDLVLDLR 68 (232)
Q Consensus 15 ~~~WT~eEd~~L~~av~~~p~~~~~rW~~IA~~vp--------gRt~~qc~~ry~~ll~~~~ 68 (232)
...||.+|+..+++.+..+|-. |+.|.+ +| +-...+=++.|++.+..+.
T Consensus 37 gevW~~~~i~~~k~~ie~~GL~----~~vvEs-~pv~e~Ik~g~~~rd~~Ienyk~~irNla 93 (394)
T TIGR00695 37 GEVWEKEEIRKRKEYIESAGLH----WSVVES-VPVHEAIKTGTGNYGRWIENYKQTLRNLA 93 (394)
T ss_pred CCCCCHHHHHHHHHHHHHcCCe----EEEEeC-CCccHHHHcCCCcHHHHHHHHHHHHHHHH
Confidence 5689999999999999998764 887744 33 3355677888888887664
No 126
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=27.50 E-value=60 Score=30.45 Aligned_cols=23 Identities=22% Similarity=0.320 Sum_probs=20.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCC
Q 026855 13 STSSSWTREEDKLFERALVTFPE 35 (232)
Q Consensus 13 ~~~~~WT~eEd~~L~~av~~~p~ 35 (232)
+.+.-||+||+..+.+++.+|+-
T Consensus 170 P~Grvwt~eeL~~i~elc~kh~v 192 (388)
T COG1168 170 PTGRVWTKEELRKIAELCLRHGV 192 (388)
T ss_pred CCCccccHHHHHHHHHHHHHcCC
Confidence 34788999999999999999874
No 127
>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=27.32 E-value=1.8e+02 Score=21.47 Aligned_cols=45 Identities=9% Similarity=0.096 Sum_probs=28.8
Q ss_pred CCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHc
Q 026855 117 WTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLRMN 165 (232)
Q Consensus 117 WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~~~ 165 (232)
.++.|...|. ..-..|. .+..||+ .++- |...|+++.++-+.++.
T Consensus 111 L~~~~~~ii~-~~~~~g~-s~~eIA~-~l~~-s~~~v~~~~~~~~~kl~ 155 (158)
T TIGR02937 111 LPEREREVLV-LRYLEGL-SYKEIAE-ILGI-SVGTVKRRLKRARKKLR 155 (158)
T ss_pred CCHHHHHHHh-hHHhcCC-CHHHHHH-HHCC-CHHHHHHHHHHHHHHHH
Confidence 5555555543 3323466 8999998 4554 88888887776665553
No 128
>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=26.99 E-value=92 Score=25.47 Aligned_cols=41 Identities=20% Similarity=0.207 Sum_probs=33.1
Q ss_pred CCCHHHHHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHH
Q 026855 116 PWTAEEHRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQK 159 (232)
Q Consensus 116 ~WT~eEd~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~k 159 (232)
.||+|+.+.|-++. .=|. .-..||+ -+++.|...|.-++++
T Consensus 2 ~Wtde~~~~L~~lw-~~G~-SasqIA~-~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGL-SASQIAR-QLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHH-HcCC-CHHHHHH-HhCCcchhhhhhhhhc
Confidence 59999999777766 4576 7899999 5888999999886554
No 129
>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=25.85 E-value=2e+02 Score=21.89 Aligned_cols=41 Identities=20% Similarity=0.229 Sum_probs=27.5
Q ss_pred HHHHHHHHHHhCCCCHHHHHhhhcCCCCHHHHHHHHHHHHHHHc
Q 026855 122 HRLFLIGLEKYGKGDWRSISRNAVVSRTPTQVASHAQKYFLRMN 165 (232)
Q Consensus 122 d~~l~~~l~~~G~g~W~~Ia~~~v~~RT~~q~~~~~~ky~~~~~ 165 (232)
++.++.+.--.|. .+..||+ +-|.|...|+++.++-..+++
T Consensus 118 ~r~il~l~~~~~~-~~~eIA~--~lgis~~tv~~~~~ra~~~Lr 158 (161)
T TIGR02985 118 CRKIFILSRFEGK-SYKEIAE--ELGISVKTVEYHISKALKELR 158 (161)
T ss_pred HHHHHHHHHHcCC-CHHHHHH--HHCCCHHHHHHHHHHHHHHHH
Confidence 3334444334566 8999997 567799999997776655553
No 130
>cd08311 Death_p75NR Death domain of p75 Neurotophin Receptor. Death Domain (DD) found in p75 neurotrophin receptor (p75NTR, NGFR, TNFRSF16). p75NTR binds members of the neurotrophin (NT) family including nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT3, among others. It contains an NT-binding extracellular region that bears four cysteine-rich repeats, a transmembrane domain, and an intracellular DD. p75NTR plays roles in the immune, vascular, and nervous systems, and has been shown to promote cell death or survival, and to induce neurite outgrowth or collapse depending on its ligands and co-receptors. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptor
Probab=25.60 E-value=59 Score=23.25 Aligned_cols=23 Identities=35% Similarity=0.596 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHhCCCCHHHHHhh
Q 026855 119 AEEHRLFLIGLEKYGKGDWRSISRN 143 (232)
Q Consensus 119 ~eEd~~l~~~l~~~G~g~W~~Ia~~ 143 (232)
.||-++||..= ..|+ +|...|++
T Consensus 2 ~~~v~~ll~~~-nlG~-dW~~LA~~ 24 (77)
T cd08311 2 QEEVEKLLESG-RPGR-DWRSLAGE 24 (77)
T ss_pred hHHHHHHHhCC-CCcc-CHHHHHHH
Confidence 57777777421 5677 99999984
No 131
>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=22.80 E-value=1.6e+02 Score=18.02 Aligned_cols=22 Identities=27% Similarity=0.350 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHhCCCCHHHHHh
Q 026855 120 EEHRLFLIGLEKYGKGDWRSISR 142 (232)
Q Consensus 120 eEd~~l~~~l~~~G~g~W~~Ia~ 142 (232)
=|...|.++|..+|- +....|+
T Consensus 5 ~E~~~i~~aL~~~~g-n~~~aA~ 26 (42)
T PF02954_consen 5 FEKQLIRQALERCGG-NVSKAAR 26 (42)
T ss_dssp HHHHHHHHHHHHTTT--HHHHHH
T ss_pred HHHHHHHHHHHHhCC-CHHHHHH
Confidence 377889999999995 9999998
No 132
>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=21.34 E-value=69 Score=22.35 Aligned_cols=18 Identities=22% Similarity=0.440 Sum_probs=15.0
Q ss_pred HHHHHHHHhCCCCHHHHHh
Q 026855 124 LFLIGLEKYGKGDWRSISR 142 (232)
Q Consensus 124 ~l~~~l~~~G~g~W~~Ia~ 142 (232)
.|..+|+.||. +|..|-.
T Consensus 31 vl~~LL~lY~~-nW~lIEe 48 (65)
T PF10440_consen 31 VLKNLLKLYDG-NWELIEE 48 (65)
T ss_pred HHHHHHHHHcC-Cchhhhc
Confidence 56778899997 8999975
No 133
>KOG4771 consensus Nucleolar protein (NOP16) involved in 60S ribosomal subunit biogenesis [Translation, ribosomal structure and biogenesis]
Probab=20.79 E-value=1.8e+02 Score=24.44 Aligned_cols=28 Identities=25% Similarity=0.312 Sum_probs=24.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCHHHHHhh
Q 026855 115 VPWTAEEHRLFLIGLEKYGKGDWRSISRN 143 (232)
Q Consensus 115 ~~WT~eEd~~l~~~l~~~G~g~W~~Ia~~ 143 (232)
-+=++-||+.|..++++||. +...+.+.
T Consensus 154 l~~s~rehewi~rL~~KhGd-D~e~M~~D 181 (210)
T KOG4771|consen 154 LTTSQREHEWIRRLVEKHGD-DIEGMYRD 181 (210)
T ss_pred cchHHHHHHHHHHHHHHhch-hHHHHHHh
Confidence 46788999999999999996 88888773
No 134
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=20.49 E-value=78 Score=24.22 Aligned_cols=26 Identities=27% Similarity=0.480 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHCCCCCCchHHHHHHhCCC
Q 026855 22 EDKLFERALVTFPEETPGRWERIARQVPG 50 (232)
Q Consensus 22 Ed~~L~~av~~~p~~~~~rW~~IA~~vpg 50 (232)
|.+.|++++..|... .|..++.++||
T Consensus 93 E~diLKKa~~~~~~~---~~~~~~~~~~~ 118 (121)
T PRK09413 93 ENELLKEAVEYGRAK---KWIAHAPLLPG 118 (121)
T ss_pred HHHHHHHHHHHhchh---hhhhcCCCCCC
Confidence 556677777777544 38888887775
No 135
>KOG2941 consensus Beta-1,4-mannosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=20.21 E-value=45 Score=31.23 Aligned_cols=22 Identities=45% Similarity=0.768 Sum_probs=17.5
Q ss_pred CCCCCCHHHHH-HHHHHHHHCCC
Q 026855 14 TSSSWTREEDK-LFERALVTFPE 35 (232)
Q Consensus 14 ~~~~WT~eEd~-~L~~av~~~p~ 35 (232)
+++.||++||- +|.+|++.|.+
T Consensus 260 sSTswTpDEdf~ILL~AL~~y~~ 282 (444)
T KOG2941|consen 260 SSTSWTPDEDFGILLEALVIYEE 282 (444)
T ss_pred ecCCCCCcccHHHHHHHHHhhhh
Confidence 47899998764 88999998753
No 136
>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=20.09 E-value=4e+02 Score=20.31 Aligned_cols=49 Identities=20% Similarity=0.384 Sum_probs=34.2
Q ss_pred CCHHHHHHHHHHHHHC---------C---CCC---------------CchHHHHHHhCCCCCHHHHHHHHHHHHHH
Q 026855 18 WTREEDKLFERALVTF---------P---EET---------------PGRWERIARQVPGKSSVDVQRRYDDLVLD 66 (232)
Q Consensus 18 WT~eEd~~L~~av~~~---------p---~~~---------------~~rW~~IA~~vpgRt~~qc~~ry~~ll~~ 66 (232)
.|++||..|..+|.+| + ... -.-+...+...|..|...=++||.+.+..
T Consensus 2 fTA~dDY~Lc~~i~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~fF~~~~~~~p~HT~~sWRDR~RKfv~~ 77 (105)
T PF09197_consen 2 FTADDDYALCKAIKKQFYRDIYQKDPDTGSSLISDGDSKEFIPKRDMRSFFKDLARKNPRHTENSWRDRYRKFVSE 77 (105)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHSB-TTSS-B----------------TTHHHHHHHHTTTS-HHHHHHHHHHTHHH
T ss_pred CChHHHHHHHHHHHHHHHHHHHhhCcccccccccCCCccccccchhhHHHHHHHHHcCCccchhHHHHHHHHHHHH
Confidence 6899999999998664 1 100 12367788999999999999999887653
Done!