Query 022439
Match_columns 297
No_of_seqs 242 out of 1497
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 03:33:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022439.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022439hhsearch_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 4.7E-22 1E-26 181.3 14.2 103 7-171 23-126 (249)
2 PLN03091 hypothetical protein; 99.9 2.6E-21 5.7E-26 188.1 12.0 105 6-172 11-116 (459)
3 KOG0048 Transcription factor, 99.8 8.1E-20 1.8E-24 167.5 10.4 103 8-172 8-111 (238)
4 KOG0049 Transcription factor, 99.6 1.9E-14 4.1E-19 144.9 11.2 105 3-168 354-458 (939)
5 TIGR01557 myb_SHAQKYF myb-like 99.5 2.7E-14 5.8E-19 104.0 5.7 51 121-171 3-57 (57)
6 KOG0049 Transcription factor, 99.5 3.4E-14 7.4E-19 143.1 8.4 119 9-188 305-423 (939)
7 PF00249 Myb_DNA-binding: Myb- 99.5 3.7E-14 8E-19 99.1 4.9 45 123-168 3-48 (48)
8 KOG0724 Zuotin and related mol 99.3 3.5E-12 7.5E-17 121.9 9.4 184 9-193 31-241 (335)
9 PF13921 Myb_DNA-bind_6: Myb-l 99.3 6E-12 1.3E-16 91.3 6.8 43 12-58 1-43 (60)
10 PF00249 Myb_DNA-binding: Myb- 99.3 4.3E-12 9.4E-17 88.6 5.0 47 9-58 1-48 (48)
11 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 6.8E-11 1.5E-15 79.1 5.3 44 123-167 1-44 (45)
12 smart00717 SANT SANT SWI3, AD 99.1 5.8E-11 1.3E-15 80.6 5.1 46 122-168 2-47 (49)
13 PF13921 Myb_DNA-bind_6: Myb-l 99.1 1.9E-10 4.1E-15 83.4 4.6 42 124-167 1-42 (60)
14 KOG0050 mRNA splicing protein 99.1 2.9E-10 6.3E-15 112.7 7.1 102 8-172 6-107 (617)
15 smart00717 SANT SANT SWI3, AD 99.0 4.4E-10 9.6E-15 76.2 5.9 47 9-58 1-47 (49)
16 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 1.6E-09 3.6E-14 72.3 5.7 44 11-57 1-44 (45)
17 PLN03212 Transcription repress 98.9 1.6E-09 3.6E-14 99.5 5.8 49 120-169 24-73 (249)
18 KOG0051 RNA polymerase I termi 98.9 6.2E-09 1.3E-13 105.8 9.0 103 8-171 383-510 (607)
19 COG5147 REB1 Myb superfamily p 98.8 6.3E-09 1.4E-13 104.6 7.2 105 7-173 18-122 (512)
20 PLN03142 Probable chromatin-re 98.7 4.6E-09 1E-13 113.5 3.3 143 10-172 825-988 (1033)
21 PLN03091 hypothetical protein; 98.7 9.2E-09 2E-13 101.1 4.9 49 120-169 13-62 (459)
22 KOG0048 Transcription factor, 98.7 1.6E-08 3.6E-13 92.9 3.9 47 122-169 10-57 (238)
23 KOG0457 Histone acetyltransfer 98.6 6.4E-08 1.4E-12 94.8 5.3 48 123-171 74-121 (438)
24 COG5259 RSC8 RSC chromatin rem 98.0 4.7E-06 1E-10 82.5 4.3 44 122-171 280-323 (531)
25 COG5114 Histone acetyltransfer 98.0 6E-06 1.3E-10 78.5 4.3 48 123-171 65-112 (432)
26 KOG4329 DNA-binding protein [G 97.9 5.1E-05 1.1E-09 73.4 9.9 43 121-164 277-319 (445)
27 TIGR01557 myb_SHAQKYF myb-like 97.9 2.7E-05 5.8E-10 56.8 6.2 48 8-58 2-54 (57)
28 KOG1279 Chromatin remodeling f 97.9 1.5E-05 3.1E-10 80.7 6.4 45 121-171 253-297 (506)
29 KOG0457 Histone acetyltransfer 97.9 2E-05 4.3E-10 77.6 6.4 47 8-57 71-117 (438)
30 COG5259 RSC8 RSC chromatin rem 97.9 1.4E-05 3.1E-10 79.1 4.5 46 8-57 278-323 (531)
31 KOG1279 Chromatin remodeling f 97.6 8.6E-05 1.9E-09 75.2 5.7 49 5-57 249-297 (506)
32 KOG1194 Predicted DNA-binding 97.3 0.0019 4.1E-08 64.3 11.0 51 121-173 369-419 (534)
33 KOG0051 RNA polymerase I termi 97.2 0.00063 1.4E-08 69.9 6.3 48 120-170 383-430 (607)
34 COG5114 Histone acetyltransfer 97.2 0.0005 1.1E-08 65.7 4.8 47 9-58 63-109 (432)
35 KOG4167 Predicted DNA-binding 97.1 0.00064 1.4E-08 70.8 5.7 45 9-57 619-663 (907)
36 KOG0050 mRNA splicing protein 97.1 0.00038 8.2E-09 70.0 3.6 49 120-169 6-54 (617)
37 PF09111 SLIDE: SLIDE; InterP 97.1 0.001 2.3E-08 55.3 5.5 51 121-171 49-113 (118)
38 PF13325 MCRS_N: N-terminal re 97.0 0.0023 4.9E-08 57.8 7.7 112 11-166 1-124 (199)
39 PF13837 Myb_DNA-bind_4: Myb/S 96.9 0.0011 2.4E-08 51.0 3.7 55 10-64 2-70 (90)
40 COG5147 REB1 Myb superfamily p 96.8 0.0017 3.6E-08 66.0 5.5 51 7-61 70-120 (512)
41 KOG0385 Chromatin remodeling c 96.7 0.001 2.3E-08 70.0 2.8 137 9-167 795-955 (971)
42 PLN03162 golden-2 like transcr 96.5 0.11 2.3E-06 51.0 14.9 57 118-174 234-293 (526)
43 PF13837 Myb_DNA-bind_4: Myb/S 96.3 0.0089 1.9E-07 45.9 5.5 52 123-175 3-71 (90)
44 KOG1878 Nuclear receptor coreg 96.1 0.0039 8.5E-08 69.1 3.0 44 8-55 224-267 (1672)
45 PF13873 Myb_DNA-bind_5: Myb/S 95.5 0.02 4.4E-07 43.2 4.3 54 9-62 2-73 (78)
46 KOG4167 Predicted DNA-binding 94.8 0.13 2.7E-06 54.3 8.6 45 122-168 620-664 (907)
47 KOG4468 Polycomb-group transcr 94.7 0.041 8.9E-07 56.7 4.9 52 121-173 88-148 (782)
48 COG5118 BDP1 Transcription ini 94.6 0.059 1.3E-06 52.9 5.5 46 7-56 363-408 (507)
49 KOG4329 DNA-binding protein [G 94.6 0.054 1.2E-06 53.0 5.0 46 8-57 276-322 (445)
50 PF08914 Myb_DNA-bind_2: Rap1 94.5 0.067 1.4E-06 40.0 4.3 48 122-169 3-58 (65)
51 KOG4849 mRNA cleavage factor I 94.2 0.82 1.8E-05 44.8 12.2 35 123-161 90-124 (498)
52 PF09111 SLIDE: SLIDE; InterP 94.2 0.095 2.1E-06 43.6 5.1 56 6-61 46-113 (118)
53 COG5118 BDP1 Transcription ini 94.2 0.075 1.6E-06 52.2 5.1 44 118-163 362-405 (507)
54 TIGR02894 DNA_bind_RsfA transc 93.7 0.071 1.5E-06 46.6 3.6 50 122-173 5-60 (161)
55 KOG3554 Histone deacetylase co 93.5 0.095 2.1E-06 52.7 4.6 44 120-164 284-327 (693)
56 PF13873 Myb_DNA-bind_5: Myb/S 93.5 0.31 6.7E-06 36.7 6.5 49 123-171 4-72 (78)
57 PF12776 Myb_DNA-bind_3: Myb/S 93.0 0.18 3.8E-06 39.1 4.6 52 11-62 1-66 (96)
58 KOG3554 Histone deacetylase co 92.9 0.16 3.5E-06 51.2 5.0 44 10-57 286-330 (693)
59 KOG1194 Predicted DNA-binding 92.1 0.3 6.5E-06 49.0 5.8 43 122-166 188-230 (534)
60 TIGR02894 DNA_bind_RsfA transc 91.9 0.13 2.9E-06 44.9 2.8 50 9-59 4-56 (161)
61 KOG2656 DNA methyltransferase 90.4 0.17 3.8E-06 49.8 2.3 48 10-61 131-184 (445)
62 PRK13923 putative spore coat p 90.2 0.31 6.8E-06 43.0 3.5 49 122-172 6-60 (170)
63 KOG3841 TEF-1 and related tran 89.7 1.5 3.2E-05 43.3 7.9 52 122-174 77-148 (455)
64 KOG4282 Transcription factor G 88.8 0.89 1.9E-05 43.8 5.8 54 122-175 55-120 (345)
65 KOG4468 Polycomb-group transcr 88.3 0.69 1.5E-05 48.0 4.8 47 8-58 87-143 (782)
66 PRK13923 putative spore coat p 88.2 0.52 1.1E-05 41.7 3.4 48 9-57 5-55 (170)
67 PF08914 Myb_DNA-bind_2: Rap1 88.0 1.2 2.7E-05 33.2 4.9 50 9-58 2-57 (65)
68 KOG4282 Transcription factor G 88.0 0.86 1.9E-05 43.9 5.2 53 10-62 55-117 (345)
69 PF12776 Myb_DNA-bind_3: Myb/S 87.7 1.7 3.7E-05 33.5 5.8 48 123-170 1-64 (96)
70 PF11035 SnAPC_2_like: Small n 87.0 1.9 4.1E-05 41.7 6.7 55 7-61 19-73 (344)
71 PLN03142 Probable chromatin-re 84.5 1.6 3.5E-05 48.4 5.6 47 123-170 826-872 (1033)
72 KOG1924 RhoA GTPase effector D 83.8 8.3 0.00018 41.7 10.0 16 16-31 348-363 (1102)
73 PF13404 HTH_AsnC-type: AsnC-t 82.4 3.4 7.4E-05 28.0 4.6 39 15-57 3-41 (42)
74 KOG0724 Zuotin and related mol 82.2 0.34 7.5E-06 46.4 -0.6 49 123-173 55-103 (335)
75 KOG3841 TEF-1 and related tran 78.9 3.5 7.6E-05 40.8 5.0 52 7-58 74-142 (455)
76 KOG0132 RNA polymerase II C-te 77.9 9.6 0.00021 41.0 8.2 41 241-285 595-635 (894)
77 PF04504 DUF573: Protein of un 77.8 4.2 9.2E-05 32.6 4.5 47 123-170 6-64 (98)
78 smart00595 MADF subfamily of S 77.3 2.3 5E-05 32.4 2.7 25 34-59 29-53 (89)
79 KOG2009 Transcription initiati 75.7 2.8 6E-05 43.6 3.6 47 6-56 406-452 (584)
80 smart00426 TEA TEA domain. 73.8 4.3 9.3E-05 30.7 3.2 24 123-146 5-28 (68)
81 PF11035 SnAPC_2_like: Small n 72.0 10 0.00023 36.7 6.2 50 121-171 21-73 (344)
82 PF06461 DUF1086: Domain of Un 71.0 14 0.0003 31.9 6.2 51 123-174 40-92 (145)
83 KOG2893 Zn finger protein [Gen 70.5 18 0.00039 34.0 7.2 26 134-161 53-78 (341)
84 PF09420 Nop16: Ribosome bioge 70.5 8.9 0.00019 33.3 5.0 48 119-167 112-162 (164)
85 PRK11179 DNA-binding transcrip 69.5 11 0.00024 31.9 5.4 42 15-60 9-50 (153)
86 PF05263 DUF722: Protein of un 69.3 9.9 0.00022 32.2 4.9 47 12-62 82-128 (130)
87 cd00086 homeodomain Homeodomai 66.5 28 0.0006 23.8 6.1 48 8-56 3-50 (59)
88 PF08281 Sigma70_r4_2: Sigma-7 64.7 19 0.0004 24.7 4.8 39 127-168 13-51 (54)
89 KOG2009 Transcription initiati 63.6 7.4 0.00016 40.6 3.6 43 119-163 407-449 (584)
90 PRK11169 leucine-responsive tr 63.2 15 0.00033 31.6 5.0 43 14-60 13-55 (164)
91 PF11626 Rap1_C: TRF2-interact 61.4 4.1 8.9E-05 31.7 1.0 17 7-23 45-61 (87)
92 PF13325 MCRS_N: N-terminal re 60.0 23 0.0005 32.1 5.7 53 6-59 70-127 (199)
93 PF13404 HTH_AsnC-type: AsnC-t 60.0 22 0.00048 24.0 4.3 39 127-167 3-41 (42)
94 KOG0384 Chromodomain-helicase 59.7 5.8 0.00013 44.6 2.1 28 120-147 1132-1159(1373)
95 PF01285 TEA: TEA/ATTS domain 59.5 12 0.00027 37.7 4.3 46 121-167 49-112 (431)
96 KOG2656 DNA methyltransferase 59.4 12 0.00026 37.3 4.1 46 121-167 130-180 (445)
97 PF00046 Homeobox: Homeobox do 57.8 28 0.00061 24.0 4.8 47 8-55 3-49 (57)
98 PF10545 MADF_DNA_bdg: Alcohol 57.5 11 0.00023 27.8 2.7 28 33-60 27-55 (85)
99 smart00389 HOX Homeodomain. DN 56.9 50 0.0011 22.4 6.0 46 9-55 4-49 (56)
100 PF04504 DUF573: Protein of un 56.2 20 0.00044 28.6 4.2 52 8-59 3-63 (98)
101 KOG4672 Uncharacterized conser 56.0 1E+02 0.0022 31.2 9.8 11 249-259 358-368 (487)
102 PRK11179 DNA-binding transcrip 53.5 22 0.00047 30.2 4.3 40 126-167 8-47 (153)
103 COG5269 ZUO1 Ribosome-associat 52.9 15 0.00032 35.3 3.4 52 8-59 244-301 (379)
104 PF00674 DUP: DUP family; Int 51.0 26 0.00057 28.2 4.2 43 17-59 44-100 (108)
105 KOG0385 Chromatin remodeling c 50.8 22 0.00048 38.6 4.6 50 123-174 797-846 (971)
106 smart00426 TEA TEA domain. 49.4 24 0.00053 26.7 3.4 22 9-30 3-24 (68)
107 PRK11169 leucine-responsive tr 48.9 29 0.00063 29.8 4.4 40 126-167 13-52 (164)
108 PF08074 CHDCT2: CHDCT2 (NUC03 48.7 10 0.00022 33.5 1.5 26 123-148 5-30 (173)
109 smart00344 HTH_ASNC helix_turn 48.6 46 0.001 25.9 5.2 42 15-60 3-44 (108)
110 PF04545 Sigma70_r4: Sigma-70, 48.3 65 0.0014 21.7 5.3 43 13-61 6-48 (50)
111 KOG3753 Circadian clock protei 45.9 1.3E+02 0.0028 33.4 9.3 17 124-140 709-725 (1114)
112 smart00501 BRIGHT BRIGHT, ARID 43.6 56 0.0012 25.3 4.9 44 17-60 34-86 (93)
113 KOG1924 RhoA GTPase effector D 42.0 1.4E+02 0.003 32.8 8.8 8 283-290 599-606 (1102)
114 PF01285 TEA: TEA/ATTS domain 41.5 29 0.00064 35.0 3.7 51 7-57 47-112 (431)
115 PF06461 DUF1086: Domain of Un 40.9 66 0.0014 27.9 5.2 50 11-61 40-89 (145)
116 PF11084 DUF2621: Protein of u 37.7 49 0.0011 28.2 3.9 32 123-155 58-89 (141)
117 PF09420 Nop16: Ribosome bioge 36.8 76 0.0016 27.5 5.1 47 7-57 112-162 (164)
118 PF01388 ARID: ARID/BRIGHT DNA 36.4 34 0.00074 26.2 2.6 41 19-59 40-89 (92)
119 PF07750 GcrA: GcrA cell cycle 33.8 64 0.0014 28.1 4.2 42 11-57 2-43 (162)
120 PF07750 GcrA: GcrA cell cycle 33.4 53 0.0011 28.7 3.6 40 123-165 2-41 (162)
121 COG1522 Lrp Transcriptional re 32.4 1.1E+02 0.0024 25.2 5.3 42 15-60 8-49 (154)
122 smart00344 HTH_ASNC helix_turn 32.1 82 0.0018 24.5 4.3 39 127-167 3-41 (108)
123 PF01466 Skp1: Skp1 family, di 31.5 35 0.00076 25.8 1.9 21 35-55 36-56 (78)
124 PF09197 Rap1-DNA-bind: Rap1, 29.6 1.3E+02 0.0029 24.6 5.1 50 11-60 1-77 (105)
125 KOG4274 Positive cofactor 2 (P 28.6 1.7E+02 0.0036 31.0 6.7 29 151-179 42-70 (742)
126 KOG4672 Uncharacterized conser 28.6 6.5E+02 0.014 25.7 11.3 8 278-285 371-378 (487)
127 PLN03162 golden-2 like transcr 28.3 2E+02 0.0043 28.9 6.9 53 7-60 235-289 (526)
128 PF04545 Sigma70_r4: Sigma-70, 26.9 1.7E+02 0.0037 19.6 4.6 43 125-171 6-48 (50)
129 COG5201 SKP1 SCF ubiquitin lig 26.3 69 0.0015 27.5 2.9 21 35-55 115-135 (158)
130 KOG4849 mRNA cleavage factor I 25.3 5.4E+02 0.012 25.8 9.2 9 229-237 264-272 (498)
131 KOG4771 Nucleolar protein (NOP 23.4 1.3E+02 0.0028 27.1 4.2 29 120-149 152-180 (210)
132 PF02954 HTH_8: Bacterial regu 23.3 1.3E+02 0.0027 19.9 3.3 32 127-161 5-36 (42)
133 KOG2941 Beta-1,4-mannosyltrans 22.8 40 0.00087 33.6 1.0 48 120-170 260-314 (444)
134 PRK03906 mannonate dehydratase 22.8 93 0.002 31.0 3.6 51 8-62 36-93 (385)
135 TIGR00695 uxuA mannonate dehyd 22.2 1.1E+02 0.0024 30.6 4.1 52 7-62 35-93 (394)
136 COG4281 ACB Acyl-CoA-binding p 21.6 92 0.002 24.3 2.6 29 34-63 55-83 (87)
137 TIGR02937 sigma70-ECF RNA poly 21.5 2.3E+02 0.0051 22.0 5.2 45 123-171 110-154 (158)
138 COG3623 SgaU Putative L-xylulo 21.5 70 0.0015 30.2 2.3 30 1-30 37-69 (287)
139 PF00191 Annexin: Annexin; In 21.2 1E+02 0.0022 21.8 2.7 40 130-171 4-43 (66)
140 cd08307 Death_Pelle Death doma 20.6 1.3E+02 0.0027 24.2 3.4 29 21-51 12-40 (97)
141 TIGR02985 Sig70_bacteroi1 RNA 20.4 2.5E+02 0.0055 22.5 5.3 41 128-171 117-157 (161)
142 PHA00442 host recBCD nuclease 20.1 1E+02 0.0022 22.5 2.4 24 125-148 24-47 (59)
143 KOG2251 Homeobox transcription 20.0 1.1E+02 0.0025 28.3 3.3 34 8-43 40-75 (228)
No 1
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.88 E-value=4.7e-22 Score=181.34 Aligned_cols=103 Identities=17% Similarity=0.209 Sum_probs=89.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhC-CCCCHHHHHHHHHHhhhhhhhcccCCCCCCCCCCCCCCCCCCC
Q 022439 7 GSSSVWTKEQDKAFENALVSYPEDASDRWEKIAADV-PGKSLEEIKQHYELLVDDVNRIESGCVPLPSYNSSSDGSMSHA 85 (297)
Q Consensus 7 ~~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~V-pGRT~~Qcr~rY~~l~~dv~~IesG~v~lp~y~~~~~~~~~~~ 85 (297)
..++.||+|||++|.++|++|+.. +|..||+.+ ++||.+||++||..++..
T Consensus 23 lKRg~WT~EEDe~L~~lV~kyG~~---nW~~IAk~~g~gRT~KQCReRW~N~L~P------------------------- 74 (249)
T PLN03212 23 MKRGPWTVEEDEILVSFIKKEGEG---RWRSLPKRAGLLRCGKSCRLRWMNYLRP------------------------- 74 (249)
T ss_pred CcCCCCCHHHHHHHHHHHHHhCcc---cHHHHHHhhhcCCCcchHHHHHHHhhch-------------------------
Confidence 456789999999999999999975 499999998 599999999999977753
Q ss_pred CCCCCCCCCCCCCCCccCCCCCCCCCCcchhhhccCCCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHH
Q 022439 86 GDEGTSNGKKGGHYGHFNSESNGNKSSRSDQERRKGIAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQ 165 (297)
Q Consensus 86 ~~~~~~~~~~gg~~~~~~~~~~~~~~~~~~~~~kk~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~q 165 (297)
..+.++||+|||++|++++.+||. +|..||+ +|++||+.||+|||.
T Consensus 75 --------------------------------~I~kgpWT~EED~lLlel~~~~Gn-KWs~IAk-~LpGRTDnqIKNRWn 120 (249)
T PLN03212 75 --------------------------------SVKRGGITSDEEDLILRLHRLLGN-RWSLIAG-RIPGRTDNEIKNYWN 120 (249)
T ss_pred --------------------------------hcccCCCChHHHHHHHHHHHhccc-cHHHHHh-hcCCCCHHHHHHHHH
Confidence 012238999999999999999998 9999996 999999999999998
Q ss_pred HHHHHH
Q 022439 166 KYFIRL 171 (297)
Q Consensus 166 ky~~r~ 171 (297)
.++++.
T Consensus 121 s~LrK~ 126 (249)
T PLN03212 121 THLRKK 126 (249)
T ss_pred HHHhHH
Confidence 777654
No 2
>PLN03091 hypothetical protein; Provisional
Probab=99.85 E-value=2.6e-21 Score=188.09 Aligned_cols=105 Identities=12% Similarity=0.247 Sum_probs=90.9
Q ss_pred CCCCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCC-CCCHHHHHHHHHHhhhhhhhcccCCCCCCCCCCCCCCCCCC
Q 022439 6 VGSSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVP-GKSLEEIKQHYELLVDDVNRIESGCVPLPSYNSSSDGSMSH 84 (297)
Q Consensus 6 ~~~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~Vp-GRT~~Qcr~rY~~l~~dv~~IesG~v~lp~y~~~~~~~~~~ 84 (297)
...++.||.|||++|+++|.+|+... |.+||+.++ +||.+||++||..+++.
T Consensus 11 klrKg~WTpEEDe~L~~~V~kyG~~n---Ws~IAk~~g~gRT~KQCRERW~NyLdP------------------------ 63 (459)
T PLN03091 11 KLRKGLWSPEEDEKLLRHITKYGHGC---WSSVPKQAGLQRCGKSCRLRWINYLRP------------------------ 63 (459)
T ss_pred CCcCCCCCHHHHHHHHHHHHHhCcCC---HHHHhhhhccCcCcchHhHHHHhccCC------------------------
Confidence 34567899999999999999999854 999999885 89999999999976642
Q ss_pred CCCCCCCCCCCCCCCCccCCCCCCCCCCcchhhhccCCCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHH
Q 022439 85 AGDEGTSNGKKGGHYGHFNSESNGNKSSRSDQERRKGIAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHA 164 (297)
Q Consensus 85 ~~~~~~~~~~~gg~~~~~~~~~~~~~~~~~~~~~kk~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~ 164 (297)
..++++||.|||++||+++++||. +|..||+ +|++||+.||++||
T Consensus 64 ---------------------------------~IkKgpWT~EED~lLLeL~k~~Gn-KWskIAk-~LPGRTDnqIKNRW 108 (459)
T PLN03091 64 ---------------------------------DLKRGTFSQQEENLIIELHAVLGN-RWSQIAA-QLPGRTDNEIKNLW 108 (459)
T ss_pred ---------------------------------cccCCCCCHHHHHHHHHHHHHhCc-chHHHHH-hcCCCCHHHHHHHH
Confidence 012238999999999999999999 9999996 99999999999999
Q ss_pred HHHHHHHh
Q 022439 165 QKYFIRLN 172 (297)
Q Consensus 165 qky~~r~~ 172 (297)
...+++..
T Consensus 109 nslLKKkl 116 (459)
T PLN03091 109 NSCLKKKL 116 (459)
T ss_pred HHHHHHHH
Confidence 98776643
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.81 E-value=8.1e-20 Score=167.49 Aligned_cols=103 Identities=15% Similarity=0.191 Sum_probs=90.7
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCC-CCCHHHHHHHHHHhhhhhhhcccCCCCCCCCCCCCCCCCCCCC
Q 022439 8 SSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVP-GKSLEEIKQHYELLVDDVNRIESGCVPLPSYNSSSDGSMSHAG 86 (297)
Q Consensus 8 ~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~Vp-GRT~~Qcr~rY~~l~~dv~~IesG~v~lp~y~~~~~~~~~~~~ 86 (297)
..+.||.|||.+|++.|.+|+.+. |..||..++ +|+.++||.||..++..
T Consensus 8 ~kGpWt~EED~~L~~~V~~~G~~~---W~~i~k~~gl~R~GKSCRlRW~NyLrP-------------------------- 58 (238)
T KOG0048|consen 8 VKGPWTQEEDLTQIRSIKSFGKHN---GTALPKLAGLRRCGKSCRLRWTNYLRP-------------------------- 58 (238)
T ss_pred cCCCCChHHHHHHHHHHHHhCCCC---cchhhhhcCCCccchHHHHHhhcccCC--------------------------
Confidence 368999999999999999999985 999999999 99999999999865542
Q ss_pred CCCCCCCCCCCCCCccCCCCCCCCCCcchhhhccCCCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHH
Q 022439 87 DEGTSNGKKGGHYGHFNSESNGNKSSRSDQERRKGIAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQK 166 (297)
Q Consensus 87 ~~~~~~~~~gg~~~~~~~~~~~~~~~~~~~~~kk~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qk 166 (297)
..|++.||+|||++|+++..+||. +|..||+ +++|||+++|+|||.-
T Consensus 59 -------------------------------~ikrg~fT~eEe~~Ii~lH~~~GN-rWs~IA~-~LPGRTDNeIKN~Wnt 105 (238)
T KOG0048|consen 59 -------------------------------DLKRGNFSDEEEDLIIKLHALLGN-RWSLIAG-RLPGRTDNEVKNHWNT 105 (238)
T ss_pred -------------------------------CccCCCCCHHHHHHHHHHHHHHCc-HHHHHHh-hCCCcCHHHHHHHHHH
Confidence 113348999999999999999999 9999996 9999999999999977
Q ss_pred HHHHHh
Q 022439 167 YFIRLN 172 (297)
Q Consensus 167 y~~r~~ 172 (297)
.++|..
T Consensus 106 ~lkkkl 111 (238)
T KOG0048|consen 106 HLKKKL 111 (238)
T ss_pred HHHHHH
Confidence 665543
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.55 E-value=1.9e-14 Score=144.91 Aligned_cols=105 Identities=23% Similarity=0.465 Sum_probs=90.1
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhhhhhhhcccCCCCCCCCCCCCCCCC
Q 022439 3 VDEVGSSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLVDDVNRIESGCVPLPSYNSSSDGSM 82 (297)
Q Consensus 3 ~~e~~~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~~dv~~IesG~v~lp~y~~~~~~~~ 82 (297)
.+.+.+.+.||.+||.+|..||++|++.. |-+|-+.|||||..||++||...+..
T Consensus 354 LdPsikhg~wt~~ED~~L~~AV~~Yg~kd---w~k~R~~vPnRSdsQcR~RY~nvL~~---------------------- 408 (939)
T KOG0049|consen 354 LDPSVKHGRWTDQEDVLLVCAVSRYGAKD---WAKVRQAVPNRSDSQCRERYTNVLNR---------------------- 408 (939)
T ss_pred cCccccCCCCCCHHHHHHHHHHHHhCccc---hhhHHHhcCCccHHHHHHHHHHHHHH----------------------
Confidence 35667788999999999999999999964 99999999999999999999977753
Q ss_pred CCCCCCCCCCCCCCCCCCccCCCCCCCCCCcchhhhccCCCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHH
Q 022439 83 SHAGDEGTSNGKKGGHYGHFNSESNGNKSSRSDQERRKGIAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVAS 162 (297)
Q Consensus 83 ~~~~~~~~~~~~~gg~~~~~~~~~~~~~~~~~~~~~kk~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~s 162 (297)
+.|.+.||-.||+.|+.+|++||.|+|.+||. +++.||..|..+
T Consensus 409 -----------------------------------s~K~~rW~l~edeqL~~~V~~YG~g~WakcA~-~Lp~~t~~q~~r 452 (939)
T KOG0049|consen 409 -----------------------------------SAKVERWTLVEDEQLLYAVKVYGKGNWAKCAM-LLPKKTSRQLRR 452 (939)
T ss_pred -----------------------------------hhccCceeecchHHHHHHHHHHccchHHHHHH-HccccchhHHHH
Confidence 11334899999999999999999999999995 999999977766
Q ss_pred HHHHHH
Q 022439 163 HAQKYF 168 (297)
Q Consensus 163 h~qky~ 168 (297)
+-.++.
T Consensus 453 rR~R~~ 458 (939)
T KOG0049|consen 453 RRLRLI 458 (939)
T ss_pred HHHHHH
Confidence 544433
No 5
>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=99.51 E-value=2.7e-14 Score=104.02 Aligned_cols=51 Identities=45% Similarity=0.701 Sum_probs=45.7
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCch---hhhhhhhcCCC-CHHHHHHHHHHHHHHH
Q 022439 121 GIAWTEDEHRLFLLGLDKYGKGDW---RSISRNFVVTR-TPTQVASHAQKYFIRL 171 (297)
Q Consensus 121 ~~~WT~eEd~~ll~~l~k~G~g~W---~~Iar~~v~tR-T~~Q~~sh~qky~~r~ 171 (297)
+..||+|||++||+||+.||.|+| +.|++.++.+| |..||+||+||||.++
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~k~ 57 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLKQ 57 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHccC
Confidence 458999999999999999999999 99996555677 9999999999999863
No 6
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.50 E-value=3.4e-14 Score=143.09 Aligned_cols=119 Identities=22% Similarity=0.438 Sum_probs=101.3
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhhhhhhhcccCCCCCCCCCCCCCCCCCCCCCC
Q 022439 9 SSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLVDDVNRIESGCVPLPSYNSSSDGSMSHAGDE 88 (297)
Q Consensus 9 ~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~~dv~~IesG~v~lp~y~~~~~~~~~~~~~~ 88 (297)
..+||+|||.+|..+|...-.+....|.+|-.++||||..|.+-||...++.
T Consensus 305 ekeWsEEed~kL~alV~~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdP---------------------------- 356 (939)
T KOG0049|consen 305 EKEWSEEEDTKLIALVKITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDP---------------------------- 356 (939)
T ss_pred hhhcchhhhHHHHHHHHHhhccCccchHHHHHhcCCcchhhhhhhheeccCc----------------------------
Confidence 3689999999999999999888888999999999999999999999754432
Q ss_pred CCCCCCCCCCCCccCCCCCCCCCCcchhhhccCCCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHH
Q 022439 89 GTSNGKKGGHYGHFNSESNGNKSSRSDQERRKGIAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYF 168 (297)
Q Consensus 89 ~~~~~~~gg~~~~~~~~~~~~~~~~~~~~~kk~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~ 168 (297)
+ .|.++||.+||.+|+.++.+||..+|-+|- ..|++|++.|||.| |.
T Consensus 357 ---s--------------------------ikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R-~~vPnRSdsQcR~R---Y~ 403 (939)
T KOG0049|consen 357 ---S--------------------------VKHGRWTDQEDVLLVCAVSRYGAKDWAKVR-QAVPNRSDSQCRER---YT 403 (939)
T ss_pred ---c--------------------------ccCCCCCCHHHHHHHHHHHHhCccchhhHH-HhcCCccHHHHHHH---HH
Confidence 1 133489999999999999999988999999 49999999999998 56
Q ss_pred HHHhccCCCCCCCCcccccc
Q 022439 169 IRLNSMNKDRRRSSIHDITS 188 (297)
Q Consensus 169 ~r~~~~~k~~rr~si~d~t~ 188 (297)
++++...|..++.-.+|..+
T Consensus 404 nvL~~s~K~~rW~l~edeqL 423 (939)
T KOG0049|consen 404 NVLNRSAKVERWTLVEDEQL 423 (939)
T ss_pred HHHHHhhccCceeecchHHH
Confidence 77777777777777666544
No 7
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.48 E-value=3.7e-14 Score=99.09 Aligned_cols=45 Identities=36% Similarity=0.673 Sum_probs=40.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhhhhcC-CCCHHHHHHHHHHHH
Q 022439 123 AWTEDEHRLFLLGLDKYGKGDWRSISRNFVV-TRTPTQVASHAQKYF 168 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~-tRT~~Q~~sh~qky~ 168 (297)
+||+|||++|+++|.+||.++|..||+ +|+ +||..||++||++|.
T Consensus 3 ~Wt~eE~~~l~~~v~~~g~~~W~~Ia~-~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 3 PWTEEEDEKLLEAVKKYGKDNWKKIAK-RMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp SS-HHHHHHHHHHHHHSTTTHHHHHHH-HHSSSSTHHHHHHHHHHHT
T ss_pred CCCHHHHHHHHHHHHHhCCcHHHHHHH-HcCCCCCHHHHHHHHHhhC
Confidence 899999999999999999956999995 888 999999999999873
No 8
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=3.5e-12 Score=121.87 Aligned_cols=184 Identities=40% Similarity=0.512 Sum_probs=140.9
Q ss_pred CCCCCHHHHHHHHHHHHHCCCC----CChhHHHHhhhCCC-CCHHHHHHHHHHhhhhhhhcccCCCCCCCCCCCCCCCC-
Q 022439 9 SSVWTKEQDKAFENALVSYPED----ASDRWEKIAADVPG-KSLEEIKQHYELLVDDVNRIESGCVPLPSYNSSSDGSM- 82 (297)
Q Consensus 9 ~~~WT~EEdk~Le~Ala~~p~~----~~~rWekIA~~VpG-RT~~Qcr~rY~~l~~dv~~IesG~v~lp~y~~~~~~~~- 82 (297)
...|++++++.|++|++.|... +.++|+++++.|++ ++..+.+++|..+..++..++++.+++|.|.....+..
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 3569999999999999999864 78899999999999 99999999999999999999999999999987421111
Q ss_pred --CCCCCCCCCCCCCCCCCCcc------------CCCCCC--CCCCcchhhhccCCCCCHHHHHHHHHHHHHhCCCchhh
Q 022439 83 --SHAGDEGTSNGKKGGHYGHF------------NSESNG--NKSSRSDQERRKGIAWTEDEHRLFLLGLDKYGKGDWRS 146 (297)
Q Consensus 83 --~~~~~~~~~~~~~gg~~~~~------------~~~~~~--~~~~~~~~~~kk~~~WT~eEd~~ll~~l~k~G~g~W~~ 146 (297)
.....|....... .+.... .....+ .........++++..|++.++++++.++.++|+++|..
T Consensus 111 ~~~~~~~~~~~k~~~-~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 189 (335)
T KOG0724|consen 111 VEEFYNFWPKFKSWR-QYPQKDEPDEEDSENRSQSRYSGGTQRGKSNAEELRRKGTPVTERERKLVLLALKKDGKIDWRK 189 (335)
T ss_pred ccccCCccccccccc-cCCCCCCcccccccchhhhhhcccccccccchhhhhhccchhHHHHHHHHHhhhccccccccee
Confidence 0111111000000 011100 000000 01123345667888999999999999999999999999
Q ss_pred hhhhhcCCCCHHHHHHHHH-----HHHHHHhccCCCCCCCCcccccccCCCC
Q 022439 147 ISRNFVVTRTPTQVASHAQ-----KYFIRLNSMNKDRRRSSIHDITSVNNGD 193 (297)
Q Consensus 147 Iar~~v~tRT~~Q~~sh~q-----ky~~r~~~~~k~~rr~si~d~t~~~~~~ 193 (297)
|.++++..|++.|+.+|++ +|+.+.....+++++.++||++......
T Consensus 190 ~~~~~~~~r~~~~~~s~a~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~ 241 (335)
T KOG0724|consen 190 ISQNVEKERTPEQVASHAQEKAFEKALARQKSGEEEKRRKSIEDITTASEAE 241 (335)
T ss_pred chhhhhhhhcchhhhhhhhhhhhHHHHHHHhhhccccccchhhhhhccchhh
Confidence 9999999999999999998 9999999999999999999999866443
No 9
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.30 E-value=6e-12 Score=91.30 Aligned_cols=43 Identities=23% Similarity=0.550 Sum_probs=36.8
Q ss_pred CCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhh
Q 022439 12 WTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLV 58 (297)
Q Consensus 12 WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~ 58 (297)
||.|||.+|..++..|+. +|.+||.+|+.||..+|+.||...+
T Consensus 1 WT~eEd~~L~~~~~~~g~----~W~~Ia~~l~~Rt~~~~~~r~~~~l 43 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN----DWKKIAEHLGNRTPKQCRNRWRNHL 43 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-----HHHHHHHSTTS-HHHHHHHHHHTT
T ss_pred CCHHHHHHHHHHHHHHCc----CHHHHHHHHCcCCHHHHHHHHHHHC
Confidence 999999999999999975 3999999996699999999999733
No 10
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.29 E-value=4.3e-12 Score=88.58 Aligned_cols=47 Identities=32% Similarity=0.730 Sum_probs=41.9
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCC-CCCHHHHHHHHHHhh
Q 022439 9 SSVWTKEQDKAFENALVSYPEDASDRWEKIAADVP-GKSLEEIKQHYELLV 58 (297)
Q Consensus 9 ~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~Vp-GRT~~Qcr~rY~~l~ 58 (297)
++.||.|||++|++||.+|+.+ +|.+||..|+ +||..||+.||..++
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~---~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKD---NWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTT---HHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCc---HHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 3679999999999999999997 5999999999 999999999998763
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=99.15 E-value=6.8e-11 Score=79.14 Aligned_cols=44 Identities=36% Similarity=0.721 Sum_probs=40.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHH
Q 022439 123 AWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKY 167 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky 167 (297)
+||+||+++|+.++.+||.++|..||+ ++++||..||+++|+++
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 599999999999999999559999995 99999999999998765
No 12
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.15 E-value=5.8e-11 Score=80.60 Aligned_cols=46 Identities=30% Similarity=0.565 Sum_probs=41.7
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHH
Q 022439 122 IAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYF 168 (297)
Q Consensus 122 ~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~ 168 (297)
..||+||+.+|+.++.+||.++|..||+ ++++||..+|+++|..++
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 3799999999999999999449999995 999999999999988764
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=99.06 E-value=1.9e-10 Score=83.41 Aligned_cols=42 Identities=36% Similarity=0.711 Sum_probs=36.1
Q ss_pred CCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHH
Q 022439 124 WTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKY 167 (297)
Q Consensus 124 WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky 167 (297)
||+|||++|+.++.+||. +|..||+ +++.||..||++||+++
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~-~l~~Rt~~~~~~r~~~~ 42 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAE-HLGNRTPKQCRNRWRNH 42 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHH-HSTTS-HHHHHHHHHHT
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHH-HHCcCCHHHHHHHHHHH
Confidence 999999999999999998 9999995 88789999999998763
No 14
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.05 E-value=2.9e-10 Score=112.72 Aligned_cols=102 Identities=22% Similarity=0.424 Sum_probs=88.7
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhhhhhhhcccCCCCCCCCCCCCCCCCCCCCC
Q 022439 8 SSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLVDDVNRIESGCVPLPSYNSSSDGSMSHAGD 87 (297)
Q Consensus 8 ~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~~dv~~IesG~v~lp~y~~~~~~~~~~~~~ 87 (297)
.++.|+.-||+.|..++.+|+.+. |.+||+.++-+|++||+.||.+.++..
T Consensus 6 kggvwrntEdeilkaav~kyg~nq---ws~i~sll~~kt~rqC~~rw~e~ldp~-------------------------- 56 (617)
T KOG0050|consen 6 KGGVWRNTEDEVLKAAVMKYGKNQ---WSRIASLLNRKTARQCKARWEEWLDPA-------------------------- 56 (617)
T ss_pred ecceecccHHHHHHHHHHHcchHH---HHHHHHHHhhcchhHHHHHHHHHhCHH--------------------------
Confidence 568899999999999999999975 999999999999999999999766531
Q ss_pred CCCCCCCCCCCCCccCCCCCCCCCCcchhhhccCCCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHH
Q 022439 88 EGTSNGKKGGHYGHFNSESNGNKSSRSDQERRKGIAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKY 167 (297)
Q Consensus 88 ~~~~~~~~gg~~~~~~~~~~~~~~~~~~~~~kk~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky 167 (297)
.+..-|+.|||..||.+.+.+.. .|..|+. +-+||..||-.||.++
T Consensus 57 -------------------------------i~~tews~eederlLhlakl~p~-qwrtIa~--i~gr~~~qc~eRy~~l 102 (617)
T KOG0050|consen 57 -------------------------------IKKTEWSREEDERLLHLAKLEPT-QWRTIAD--IMGRTSQQCLERYNNL 102 (617)
T ss_pred -------------------------------HhhhhhhhhHHHHHHHHHHhcCC-ccchHHH--HhhhhHHHHHHHHHHH
Confidence 12347999999999999999999 9999995 6789999999998876
Q ss_pred HHHHh
Q 022439 168 FIRLN 172 (297)
Q Consensus 168 ~~r~~ 172 (297)
+-...
T Consensus 103 l~~~~ 107 (617)
T KOG0050|consen 103 LDVYV 107 (617)
T ss_pred HHHHH
Confidence 55443
No 15
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.05 E-value=4.4e-10 Score=76.21 Aligned_cols=47 Identities=30% Similarity=0.719 Sum_probs=42.3
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhh
Q 022439 9 SSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLV 58 (297)
Q Consensus 9 ~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~ 58 (297)
+..||.|||++|..+++.|+.. +|..||..|++||..||+++|..++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~---~w~~Ia~~~~~rt~~~~~~~~~~~~ 47 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKN---NWEKIAKELPGRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcC---CHHHHHHHcCCCCHHHHHHHHHHHc
Confidence 3579999999999999999942 3999999999999999999998765
No 16
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.95 E-value=1.6e-09 Score=72.35 Aligned_cols=44 Identities=32% Similarity=0.747 Sum_probs=40.4
Q ss_pred CCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHh
Q 022439 11 VWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELL 57 (297)
Q Consensus 11 ~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l 57 (297)
.||+||+++|.+++..|+.. +|..||..|++||..||+++|..+
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 59999999999999999953 399999999999999999999865
No 17
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.91 E-value=1.6e-09 Score=99.46 Aligned_cols=49 Identities=24% Similarity=0.449 Sum_probs=44.2
Q ss_pred cCCCCCHHHHHHHHHHHHHhCCCchhhhhhhhc-CCCCHHHHHHHHHHHHH
Q 022439 120 KGIAWTEDEHRLFLLGLDKYGKGDWRSISRNFV-VTRTPTQVASHAQKYFI 169 (297)
Q Consensus 120 k~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v-~tRT~~Q~~sh~qky~~ 169 (297)
++.+||+|||++|+++|++||..+|..||+ .+ .+||..||+.||.+|+.
T Consensus 24 KRg~WT~EEDe~L~~lV~kyG~~nW~~IAk-~~g~gRT~KQCReRW~N~L~ 73 (249)
T PLN03212 24 KRGPWTVEEDEILVSFIKKEGEGRWRSLPK-RAGLLRCGKSCRLRWMNYLR 73 (249)
T ss_pred cCCCCCHHHHHHHHHHHHHhCcccHHHHHH-hhhcCCCcchHHHHHHHhhc
Confidence 455899999999999999999889999996 66 69999999999998874
No 18
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.87 E-value=6.2e-09 Score=105.82 Aligned_cols=103 Identities=21% Similarity=0.430 Sum_probs=84.9
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhhhhhhhcccCCCCCCCCCCCCCCCCCCCCC
Q 022439 8 SSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLVDDVNRIESGCVPLPSYNSSSDGSMSHAGD 87 (297)
Q Consensus 8 ~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~~dv~~IesG~v~lp~y~~~~~~~~~~~~~ 87 (297)
.++.||+||++.|.+.+.+++.+ |..|+..| ||....|+++|..++.-
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~~----W~~Ig~~l-gr~P~~crd~wr~~~~~--------------------------- 430 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGND----WKEIGKAL-GRMPMDCRDRWRQYVKC--------------------------- 430 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhccc----HHHHHHHH-ccCcHHHHHHHHHhhcc---------------------------
Confidence 67899999999999999999986 99999999 89999999999865531
Q ss_pred CCCCCCCCCCCCCccCCCCCCCCCCcchhhhccCCCCCHHHHHHHHHHHH-------Hh-------C----------CC-
Q 022439 88 EGTSNGKKGGHYGHFNSESNGNKSSRSDQERRKGIAWTEDEHRLFLLGLD-------KY-------G----------KG- 142 (297)
Q Consensus 88 ~~~~~~~~gg~~~~~~~~~~~~~~~~~~~~~kk~~~WT~eEd~~ll~~l~-------k~-------G----------~g- 142 (297)
| . .++..+||.||.++||..|+ .| | .+
T Consensus 431 --------g------------~--------~~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I 482 (607)
T KOG0051|consen 431 --------G------------S--------KRNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDI 482 (607)
T ss_pred --------c------------c--------ccccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCc
Confidence 0 0 02344899999999999995 33 1 11
Q ss_pred chhhhhhhhcCCCCHHHHHHHHHHHHHHH
Q 022439 143 DWRSISRNFVVTRTPTQVASHAQKYFIRL 171 (297)
Q Consensus 143 ~W~~Iar~~v~tRT~~Q~~sh~qky~~r~ 171 (297)
+|..|+. .+.||+..||+.+|++...+-
T Consensus 483 ~Wt~vse-~~~TR~~~qCr~Kw~kl~~~~ 510 (607)
T KOG0051|consen 483 NWTLVSE-MLGTRSRIQCRYKWYKLTTSP 510 (607)
T ss_pred chhhhhH-hhcCCCcchHHHHHHHHHhhH
Confidence 7999995 999999999999999876653
No 19
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.82 E-value=6.3e-09 Score=104.61 Aligned_cols=105 Identities=16% Similarity=0.339 Sum_probs=90.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhhhhhhhcccCCCCCCCCCCCCCCCCCCCC
Q 022439 7 GSSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLVDDVNRIESGCVPLPSYNSSSDGSMSHAG 86 (297)
Q Consensus 7 ~~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~~dv~~IesG~v~lp~y~~~~~~~~~~~~ 86 (297)
...+.|++.||..|..++..|+... |.+||+.|.-++.+||+.||...++.
T Consensus 18 ~k~gsw~~~EDe~l~~~vk~l~~nn---ws~vas~~~~~~~kq~~~rw~~~lnp-------------------------- 68 (512)
T COG5147 18 RKGGSWKRTEDEDLKALVKKLGPNN---WSKVASLLISSTGKQSSNRWNNHLNP-------------------------- 68 (512)
T ss_pred ecCCCCCCcchhHHHHHHhhccccc---HHHHHHHhcccccccccchhhhhhch--------------------------
Confidence 3456899999999999999998865 99999999999999999999643331
Q ss_pred CCCCCCCCCCCCCCccCCCCCCCCCCcchhhhccCCCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHH
Q 022439 87 DEGTSNGKKGGHYGHFNSESNGNKSSRSDQERRKGIAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQK 166 (297)
Q Consensus 87 ~~~~~~~~~gg~~~~~~~~~~~~~~~~~~~~~kk~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qk 166 (297)
..+...|++|||+.|+.+-..+|. .|..||. ++++||..||..+|.+
T Consensus 69 -------------------------------~lk~~~~~~eed~~li~l~~~~~~-~wstia~-~~d~rt~~~~~ery~~ 115 (512)
T COG5147 69 -------------------------------QLKKKNWSEEEDEQLIDLDKELGT-QWSTIAD-YKDRRTAQQCVERYVN 115 (512)
T ss_pred -------------------------------hcccccccHHHHHHHHHHHHhcCc-hhhhhcc-ccCccchHHHHHHHHH
Confidence 112338999999999999999999 9999995 9999999999999988
Q ss_pred HHHHHhc
Q 022439 167 YFIRLNS 173 (297)
Q Consensus 167 y~~r~~~ 173 (297)
.+....+
T Consensus 116 ~~~~~~s 122 (512)
T COG5147 116 TLEDLSS 122 (512)
T ss_pred Hhhhhhc
Confidence 8777665
No 20
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=98.74 E-value=4.6e-09 Score=113.49 Aligned_cols=143 Identities=22% Similarity=0.356 Sum_probs=95.1
Q ss_pred CCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhhhh----------hhhcccCCCCCCCCCCCCC
Q 022439 10 SVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLVDD----------VNRIESGCVPLPSYNSSSD 79 (297)
Q Consensus 10 ~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~~d----------v~~IesG~v~lp~y~~~~~ 79 (297)
..||+.|...|.+|+++|+.+. .+.||..|.|||.+||+++++.+-+. ++.||.|...+-.......
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~---~~~i~~~~~~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~ 901 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRND---IKSIASEMEGKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMK 901 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhH---HHHHHHHhcCCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4699999999999999999864 99999999999999999776554322 4456666322211000000
Q ss_pred CCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCCcchhhhccCCCCCHHHHHHHHHHHHHhCCCchhhh-----------h
Q 022439 80 GSMSHAGDEGTSNGKKGGHYGHFNSESNGNKSSRSDQERRKGIAWTEDEHRLFLLGLDKYGKGDWRSI-----------S 148 (297)
Q Consensus 80 ~~~~~~~~~~~~~~~~gg~~~~~~~~~~~~~~~~~~~~~kk~~~WT~eEd~~ll~~l~k~G~g~W~~I-----------a 148 (297)
... .+...+ ..+-...+......++..+|+|||+.||..+.+||-|+|..| .
T Consensus 902 ~~~----------~k~~~~-------~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~f 964 (1033)
T PLN03142 902 AIG----------KKLDRY-------KNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRF 964 (1033)
T ss_pred HHH----------HHHHHc-------cCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceee
Confidence 000 000000 000000001111234457999999999999999999999999 2
Q ss_pred hhhcCCCCHHHHHHHHHHHHHHHh
Q 022439 149 RNFVVTRTPTQVASHAQKYFIRLN 172 (297)
Q Consensus 149 r~~v~tRT~~Q~~sh~qky~~r~~ 172 (297)
.+|+.+||+.++..|+.-++.-+.
T Consensus 965 d~~~~srt~~~~~~r~~~l~~~~~ 988 (1033)
T PLN03142 965 DWFVKSRTPQELARRCDTLIRLIE 988 (1033)
T ss_pred ehhhccCCHHHHHHHHHHHHHHHH
Confidence 478999999999999887666554
No 21
>PLN03091 hypothetical protein; Provisional
Probab=98.74 E-value=9.2e-09 Score=101.10 Aligned_cols=49 Identities=22% Similarity=0.464 Sum_probs=43.4
Q ss_pred cCCCCCHHHHHHHHHHHHHhCCCchhhhhhhhc-CCCCHHHHHHHHHHHHH
Q 022439 120 KGIAWTEDEHRLFLLGLDKYGKGDWRSISRNFV-VTRTPTQVASHAQKYFI 169 (297)
Q Consensus 120 k~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v-~tRT~~Q~~sh~qky~~ 169 (297)
++..||.|||++|+++|++||.++|..||+ ++ .+||..|||.||.+|+.
T Consensus 13 rKg~WTpEEDe~L~~~V~kyG~~nWs~IAk-~~g~gRT~KQCRERW~NyLd 62 (459)
T PLN03091 13 RKGLWSPEEDEKLLRHITKYGHGCWSSVPK-QAGLQRCGKSCRLRWINYLR 62 (459)
T ss_pred cCCCCCHHHHHHHHHHHHHhCcCCHHHHhh-hhccCcCcchHhHHHHhccC
Confidence 344899999999999999999989999996 66 59999999999987753
No 22
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.66 E-value=1.6e-08 Score=92.86 Aligned_cols=47 Identities=15% Similarity=0.297 Sum_probs=44.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhhhhhhhcC-CCCHHHHHHHHHHHHH
Q 022439 122 IAWTEDEHRLFLLGLDKYGKGDWRSISRNFVV-TRTPTQVASHAQKYFI 169 (297)
Q Consensus 122 ~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~-tRT~~Q~~sh~qky~~ 169 (297)
++||.|||.+|+..|++||.++|..|++ .++ +|+..+||-||.+|++
T Consensus 10 GpWt~EED~~L~~~V~~~G~~~W~~i~k-~~gl~R~GKSCRlRW~NyLr 57 (238)
T KOG0048|consen 10 GPWTQEEDLTQIRSIKSFGKHNGTALPK-LAGLRRCGKSCRLRWTNYLR 57 (238)
T ss_pred CCCChHHHHHHHHHHHHhCCCCcchhhh-hcCCCccchHHHHHhhcccC
Confidence 4999999999999999999999999996 888 9999999999999864
No 23
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.57 E-value=6.4e-08 Score=94.75 Aligned_cols=48 Identities=33% Similarity=0.670 Sum_probs=46.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHHHHH
Q 022439 123 AWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYFIRL 171 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~~r~ 171 (297)
.||.+|+.+||+|+++||-|+|..|| ++|++||..+|+.||.|+|...
T Consensus 74 ~WtadEEilLLea~~t~G~GNW~dIA-~hIGtKtkeeck~hy~k~fv~s 121 (438)
T KOG0457|consen 74 SWTADEEILLLEAAETYGFGNWQDIA-DHIGTKTKEECKEHYLKHFVNS 121 (438)
T ss_pred CCChHHHHHHHHHHHHhCCCcHHHHH-HHHcccchHHHHHHHHHHHhcC
Confidence 79999999999999999999999999 5999999999999999999875
No 24
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=98.01 E-value=4.7e-06 Score=82.48 Aligned_cols=44 Identities=39% Similarity=0.777 Sum_probs=41.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHHHHH
Q 022439 122 IAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYFIRL 171 (297)
Q Consensus 122 ~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~~r~ 171 (297)
..||.+|-.+||+||+.||. +|.+||+ +|++||..||.-| |.++
T Consensus 280 k~WS~qE~~LLLEGIe~ygD-dW~kVA~-HVgtKt~EqCIl~----FL~L 323 (531)
T COG5259 280 KNWSRQELLLLLEGIEMYGD-DWDKVAR-HVGTKTKEQCILH----FLQL 323 (531)
T ss_pred ccccHHHHHHHHHHHHHhhh-hHHHHHH-HhCCCCHHHHHHH----HHcC
Confidence 48999999999999999999 9999997 9999999999998 6666
No 25
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.99 E-value=6e-06 Score=78.53 Aligned_cols=48 Identities=29% Similarity=0.615 Sum_probs=45.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHHHHH
Q 022439 123 AWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYFIRL 171 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~~r~ 171 (297)
.|+.+|+.+|+++++..|.|+|..||. +|++|+..+|++||-||+..-
T Consensus 65 ~WgadEEllli~~~~TlGlGNW~dIad-yiGsr~kee~k~HylK~y~es 112 (432)
T COG5114 65 GWGADEELLLIECLDTLGLGNWEDIAD-YIGSRAKEEIKSHYLKMYDES 112 (432)
T ss_pred CcCchHHHHHHHHHHhcCCCcHHHHHH-HHhhhhhHHHHHHHHHHHhhc
Confidence 699999999999999999999999995 999999999999999988753
No 26
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=97.95 E-value=5.1e-05 Score=73.38 Aligned_cols=43 Identities=37% Similarity=0.525 Sum_probs=40.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHH
Q 022439 121 GIAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHA 164 (297)
Q Consensus 121 ~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~ 164 (297)
-..||++|++.|.++|+.||| ++..|.++-|.+|+..+|..+|
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 9999998999999999999874
No 27
>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=97.95 E-value=2.7e-05 Score=56.77 Aligned_cols=48 Identities=17% Similarity=0.363 Sum_probs=41.7
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCChhH---HHHhhhCC-CC-CHHHHHHHHHHhh
Q 022439 8 SSSVWTKEQDKAFENALVSYPEDASDRW---EKIAADVP-GK-SLEEIKQHYELLV 58 (297)
Q Consensus 8 ~~~~WT~EEdk~Le~Ala~~p~~~~~rW---ekIA~~Vp-GR-T~~Qcr~rY~~l~ 58 (297)
.+-.||.||..+|.+||..|+.+. | .+|++.+. .+ |..||+.|++++.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~---~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPD---WATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCc---ccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 356799999999999999999864 9 99999876 45 9999999998764
No 28
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.94 E-value=1.5e-05 Score=80.69 Aligned_cols=45 Identities=36% Similarity=0.694 Sum_probs=41.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHHHHH
Q 022439 121 GIAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYFIRL 171 (297)
Q Consensus 121 ~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~~r~ 171 (297)
+..||++|.-+||++|+.||. +|.+||. +|++||..||..| |.++
T Consensus 253 ~~~WT~qE~lLLLE~ie~y~d-dW~kVa~-hVg~ks~eqCI~k----FL~L 297 (506)
T KOG1279|consen 253 RPNWTEQETLLLLEAIEMYGD-DWNKVAD-HVGTKSQEQCILK----FLRL 297 (506)
T ss_pred CCCccHHHHHHHHHHHHHhcc-cHHHHHh-ccCCCCHHHHHHH----HHhc
Confidence 458999999999999999999 9999995 9999999999998 7777
No 29
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.91 E-value=2e-05 Score=77.60 Aligned_cols=47 Identities=28% Similarity=0.461 Sum_probs=43.4
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHh
Q 022439 8 SSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELL 57 (297)
Q Consensus 8 ~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l 57 (297)
....||.+|+-+|.+|+..|+-++ |+.||.+|+.||.+||++||.+.
T Consensus 71 ~~~~WtadEEilLLea~~t~G~GN---W~dIA~hIGtKtkeeck~hy~k~ 117 (438)
T KOG0457|consen 71 LDPSWTADEEILLLEAAETYGFGN---WQDIADHIGTKTKEECKEHYLKH 117 (438)
T ss_pred CCCCCChHHHHHHHHHHHHhCCCc---HHHHHHHHcccchHHHHHHHHHH
Confidence 456799999999999999999987 99999999999999999999854
No 30
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.85 E-value=1.4e-05 Score=79.12 Aligned_cols=46 Identities=24% Similarity=0.481 Sum_probs=42.5
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHh
Q 022439 8 SSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELL 57 (297)
Q Consensus 8 ~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l 57 (297)
....||++|.-+|.++|+.|+.+ |++||.+|..||.+||+.||..|
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygDd----W~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGDD----WDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhhh----HHHHHHHhCCCCHHHHHHHHHcC
Confidence 44589999999999999999987 99999999999999999999755
No 31
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.60 E-value=8.6e-05 Score=75.19 Aligned_cols=49 Identities=27% Similarity=0.437 Sum_probs=45.6
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHh
Q 022439 5 EVGSSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELL 57 (297)
Q Consensus 5 e~~~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l 57 (297)
..+.+..||++|+-+|..+|.+|+.+ |.+||.+|.+||.+||+.||..|
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie~y~dd----W~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIEMYGDD----WNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred cccCCCCccHHHHHHHHHHHHHhccc----HHHHHhccCCCCHHHHHHHHHhc
Confidence 56678899999999999999999997 99999999999999999999755
No 32
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=97.33 E-value=0.0019 Score=64.26 Aligned_cols=51 Identities=4% Similarity=-0.143 Sum_probs=46.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHHHHHhc
Q 022439 121 GIAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYFIRLNS 173 (297)
Q Consensus 121 ~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~~r~~~ 173 (297)
...||.+|.-+++++|++||. ...-|+ +.++..+-.|+.+....|-+|++.
T Consensus 369 n~~~~T~~~la~v~~I~~~~~-~~~pl~-wrik~t~cmee~e~l~~~~Rr~mf 419 (534)
T KOG1194|consen 369 NRCFDTPAALALIDNIKRKHH-MCVPLV-WRVKQTKCMEENEILNEEARRQMF 419 (534)
T ss_pred ccccCcHHHHHHHHHHHHhcc-Ccchhh-hHhcCcchhhHHHHHHHHHHHHHH
Confidence 458999999999999999999 999999 789999999999998888888764
No 33
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=97.20 E-value=0.00063 Score=69.94 Aligned_cols=48 Identities=23% Similarity=0.430 Sum_probs=42.4
Q ss_pred cCCCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHHHH
Q 022439 120 KGIAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYFIR 170 (297)
Q Consensus 120 k~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~~r 170 (297)
+.+.||+||++.|-..+.++|. +|..|++ .-+|.+..|+.+|+.|...
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~-~W~~Ig~--~lgr~P~~crd~wr~~~~~ 430 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN-DWKEIGK--ALGRMPMDCRDRWRQYVKC 430 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc-cHHHHHH--HHccCcHHHHHHHHHhhcc
Confidence 4458999999999999999998 9999996 5789999999999976543
No 34
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.17 E-value=0.0005 Score=65.71 Aligned_cols=47 Identities=26% Similarity=0.446 Sum_probs=43.0
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhh
Q 022439 9 SSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLV 58 (297)
Q Consensus 9 ~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~ 58 (297)
.-.|+.+|+-+|++++...+.++ |+-||.+|+.|+.+||+.||.++.
T Consensus 63 ~e~WgadEEllli~~~~TlGlGN---W~dIadyiGsr~kee~k~HylK~y 109 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGN---WEDIADYIGSRAKEEIKSHYLKMY 109 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCc---HHHHHHHHhhhhhHHHHHHHHHHH
Confidence 34699999999999999999986 999999999999999999998654
No 35
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=97.14 E-value=0.00064 Score=70.76 Aligned_cols=45 Identities=27% Similarity=0.413 Sum_probs=41.2
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHh
Q 022439 9 SSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELL 57 (297)
Q Consensus 9 ~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l 57 (297)
...||..|.++|.+||..|.+| +.+|+.+|++||++||.++|..-
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 4579999999999999999997 99999999999999999998533
No 36
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.11 E-value=0.00038 Score=70.03 Aligned_cols=49 Identities=24% Similarity=0.529 Sum_probs=45.0
Q ss_pred cCCCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHHH
Q 022439 120 KGIAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYFI 169 (297)
Q Consensus 120 k~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~~ 169 (297)
+++-|+..||+.|-.++.+||+..|++|++ .+.-+|..||+++|.+|+.
T Consensus 6 kggvwrntEdeilkaav~kyg~nqws~i~s-ll~~kt~rqC~~rw~e~ld 54 (617)
T KOG0050|consen 6 KGGVWRNTEDEVLKAAVMKYGKNQWSRIAS-LLNRKTARQCKARWEEWLD 54 (617)
T ss_pred ecceecccHHHHHHHHHHHcchHHHHHHHH-HHhhcchhHHHHHHHHHhC
Confidence 556899999999999999999989999996 9999999999999987754
No 37
>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=97.08 E-value=0.001 Score=55.28 Aligned_cols=51 Identities=29% Similarity=0.551 Sum_probs=41.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCC---Cchhhh-----------hhhhcCCCCHHHHHHHHHHHHHHH
Q 022439 121 GIAWTEDEHRLFLLGLDKYGK---GDWRSI-----------SRNFVVTRTPTQVASHAQKYFIRL 171 (297)
Q Consensus 121 ~~~WT~eEd~~ll~~l~k~G~---g~W~~I-----------ar~~v~tRT~~Q~~sh~qky~~r~ 171 (297)
+..||+|||+.||..+.+||- |.|..| ..+|+.+||+..+..|+.-++.-+
T Consensus 49 ~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i 113 (118)
T PF09111_consen 49 KKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLI 113 (118)
T ss_dssp -SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHH
T ss_pred CCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHH
Confidence 448999999999999999999 899999 247899999999999988665544
No 38
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.05 E-value=0.0023 Score=57.76 Aligned_cols=112 Identities=19% Similarity=0.236 Sum_probs=74.4
Q ss_pred CCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCC---CCCHHHHHHHHHHhhhhh--hhcccCC-CCCCCCCCCCCCCCCC
Q 022439 11 VWTKEQDKAFENALVSYPEDASDRWEKIAADVP---GKSLEEIKQHYELLVDDV--NRIESGC-VPLPSYNSSSDGSMSH 84 (297)
Q Consensus 11 ~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~Vp---GRT~~Qcr~rY~~l~~dv--~~IesG~-v~lp~y~~~~~~~~~~ 84 (297)
.|+.++|-+|++||..-.. -+.|+.-|. .-|.+|+.+||..|+-|- ..+.... ..+.
T Consensus 1 rW~~~DDl~Li~av~~~~~-----L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~------------ 63 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTND-----LESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLH------------ 63 (199)
T ss_pred CCCchhhHHHHHHHHHhcC-----HHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCC------------
Confidence 5999999999999987443 677777666 689999999999776541 1111000 0000
Q ss_pred CCCCCCCCCCCCCCCCccCCCCCCCCCCcchhhhccCCCCCHHHHHHHHHHHHHhCC--Cchhhh----hhhhcCCCCHH
Q 022439 85 AGDEGTSNGKKGGHYGHFNSESNGNKSSRSDQERRKGIAWTEDEHRLFLLGLDKYGK--GDWRSI----SRNFVVTRTPT 158 (297)
Q Consensus 85 ~~~~~~~~~~~gg~~~~~~~~~~~~~~~~~~~~~kk~~~WT~eEd~~ll~~l~k~G~--g~W~~I----ar~~v~tRT~~ 158 (297)
++.. .....+..||.+|+++|......... ..|.+| ..-|-.+||+.
T Consensus 64 ------------------p~~~---------~~iq~kalfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak 116 (199)
T PF13325_consen 64 ------------------PELI---------AAIQSKALFSKEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAK 116 (199)
T ss_pred ------------------cchh---------hcccccCCCCHHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHH
Confidence 0000 00112348999999999986655533 257777 11378999999
Q ss_pred HHHHHHHH
Q 022439 159 QVASHAQK 166 (297)
Q Consensus 159 Q~~sh~qk 166 (297)
++..||+.
T Consensus 117 ~L~~HW~l 124 (199)
T PF13325_consen 117 SLQDHWRL 124 (199)
T ss_pred HHHHHHHH
Confidence 99999984
No 39
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.88 E-value=0.0011 Score=51.01 Aligned_cols=55 Identities=18% Similarity=0.447 Sum_probs=39.2
Q ss_pred CCCCHHHHHHHHHHHHH------CC---CC-CChhHHHHhhhCC----CCCHHHHHHHHHHhhhhhhhc
Q 022439 10 SVWTKEQDKAFENALVS------YP---ED-ASDRWEKIAADVP----GKSLEEIKQHYELLVDDVNRI 64 (297)
Q Consensus 10 ~~WT~EEdk~Le~Ala~------~p---~~-~~~rWekIA~~Vp----GRT~~Qcr~rY~~l~~dv~~I 64 (297)
..||.+|..+|..++.. |. .. ....|+.||..|. .||..||+.+|+.|...-+.+
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~ 70 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKI 70 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCS
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 57999999999998877 21 11 2237999999986 599999999999998876544
No 40
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=96.83 E-value=0.0017 Score=66.02 Aligned_cols=51 Identities=16% Similarity=0.319 Sum_probs=45.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhhhhh
Q 022439 7 GSSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLVDDV 61 (297)
Q Consensus 7 ~~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~~dv 61 (297)
.....|+.|||+.|..+-..++.. |..||..+++||..+|.++|..++++.
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 356789999999999999988875 999999999999999999999887764
No 41
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=96.68 E-value=0.001 Score=69.95 Aligned_cols=137 Identities=25% Similarity=0.320 Sum_probs=83.6
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhhhh----------hhhcccCCCCCCCCCCCC
Q 022439 9 SSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLVDD----------VNRIESGCVPLPSYNSSS 78 (297)
Q Consensus 9 ~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~~d----------v~~IesG~v~lp~y~~~~ 78 (297)
-..||+.|...|.+|..+|+.++ -+.||+.+.+ |++||...-+.+-+- +..||.|...+..-....
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 34699999999999999999975 8999999998 999998654433221 234555532221100000
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCCcchhhhccCCCCCHHHHHHHHHHHHHhCCCc---hhhh--------
Q 022439 79 DGSMSHAGDEGTSNGKKGGHYGHFNSESNGNKSSRSDQERRKGIAWTEDEHRLFLLGLDKYGKGD---WRSI-------- 147 (297)
Q Consensus 79 ~~~~~~~~~~~~~~~~~gg~~~~~~~~~~~~~~~~~~~~~kk~~~WT~eEd~~ll~~l~k~G~g~---W~~I-------- 147 (297)
.+.+ .+.+ ++ +.+ ...+..+...++...|++||+.|+.+|.++|-++ |..+
T Consensus 871 -----~~ld-----~k~~---~~----k~p-~~l~i~~~~nk~~~ys~~edrfL~~~l~K~g~~~~~~~e~lr~~~~~~~ 932 (971)
T KOG0385|consen 871 -----KALD-----DKIA---RY----KAP-HQLRIQYGTNKGKNYSEEEDRFLECMLHKLGFDAENVYEELRQPIRNSP 932 (971)
T ss_pred -----HHHh-----hhHh---hh----cCc-hheeeeeccccCCCCchhhHHHHHHHHHHhccCchhHHHHHHHHHhcCc
Confidence 0000 0000 00 001 0111122233666899999999999999999753 5555
Q ss_pred ---hhhhcCCCCHHHHHHHHHHH
Q 022439 148 ---SRNFVVTRTPTQVASHAQKY 167 (297)
Q Consensus 148 ---ar~~v~tRT~~Q~~sh~qky 167 (297)
..+|+.+||...+..|+.-|
T Consensus 933 ~frfdw~~~sRt~~el~Rr~ntl 955 (971)
T KOG0385|consen 933 QFRFDWFIKSRTAMELQRRCNTL 955 (971)
T ss_pred ccccceeeehhhHHHHHhcCCee
Confidence 34688888887776665443
No 42
>PLN03162 golden-2 like transcription factor; Provisional
Probab=96.49 E-value=0.11 Score=50.99 Aligned_cols=57 Identities=26% Similarity=0.338 Sum_probs=43.4
Q ss_pred hccCCCCCHHHHHHHHHHHHHhCCC--chhhhhh-hhcCCCCHHHHHHHHHHHHHHHhcc
Q 022439 118 RRKGIAWTEDEHRLFLLGLDKYGKG--DWRSISR-NFVVTRTPTQVASHAQKYFIRLNSM 174 (297)
Q Consensus 118 ~kk~~~WT~eEd~~ll~~l~k~G~g--~W~~Iar-~~v~tRT~~Q~~sh~qky~~r~~~~ 174 (297)
+|.+..||.|=|++|+++|.+.|.. .=+.|-+ =-|.+=|..+|+||.|||...+..+
T Consensus 234 KKpRLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~rk~l 293 (526)
T PLN03162 234 KKAKVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRSHRRHL 293 (526)
T ss_pred CCCcccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHHhcccc
Confidence 4456689999999999999999942 2344431 0267889999999999998877643
No 43
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.35 E-value=0.0089 Score=45.91 Aligned_cols=52 Identities=19% Similarity=0.464 Sum_probs=36.2
Q ss_pred CCCHHHHHHHHHHHHH------hCC-----C--chhhhhhhhc----CCCCHHHHHHHHHHHHHHHhccC
Q 022439 123 AWTEDEHRLFLLGLDK------YGK-----G--DWRSISRNFV----VTRTPTQVASHAQKYFIRLNSMN 175 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k------~G~-----g--~W~~Iar~~v----~tRT~~Q~~sh~qky~~r~~~~~ 175 (297)
.||.+|..+||..+.. |+. + -|..||. .+ ..||+.||+++|..+..+-....
T Consensus 3 ~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~-~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~k 71 (90)
T PF13837_consen 3 NWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAE-ELAEHGYNRTPEQCRNKWKNLKKKYKKIK 71 (90)
T ss_dssp SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHH-HHHHHC----HHHHHHHHHHHHHHHHCSS
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHH-HHHHcCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 7999999999998877 321 1 5999985 44 37999999999998776665443
No 44
>KOG1878 consensus Nuclear receptor coregulator SMRT/SMRTER, contains Myb-like domains [Transcription]
Probab=96.07 E-value=0.0039 Score=69.09 Aligned_cols=44 Identities=18% Similarity=0.316 Sum_probs=38.8
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHH
Q 022439 8 SSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYE 55 (297)
Q Consensus 8 ~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~ 55 (297)
....|+.+|-+.|+.-+..+.+. +..||++|..||+.||.-.|+
T Consensus 224 ~~n~Ws~~Ek~~fk~rf~~H~kn----f~~~as~~erkSv~d~vlfyy 267 (1672)
T KOG1878|consen 224 RMNEWSPEEKELFKSRFAQHVKN----FGLIASFFERKSVSDCVLFYY 267 (1672)
T ss_pred HhhhccccccccccchhhhcCcc----hhhhhhhhcccchhhceeeee
Confidence 34579999999999999999886 899999999999999987664
No 45
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.54 E-value=0.02 Score=43.19 Aligned_cols=54 Identities=15% Similarity=0.382 Sum_probs=43.6
Q ss_pred CCCCCHHHHHHHHHHHHHCCC---C----------CChhHHHHhhhCC-----CCCHHHHHHHHHHhhhhhh
Q 022439 9 SSVWTKEQDKAFENALVSYPE---D----------ASDRWEKIAADVP-----GKSLEEIKQHYELLVDDVN 62 (297)
Q Consensus 9 ~~~WT~EEdk~Le~Ala~~p~---~----------~~~rWekIA~~Vp-----GRT~~Qcr~rY~~l~~dv~ 62 (297)
...||.+|...|.+.|..|.. + ...-|+.|+..|. .||..||++.|..+...++
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 357999999999999998832 1 1247999999986 4999999999998876654
No 46
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=94.81 E-value=0.13 Score=54.32 Aligned_cols=45 Identities=27% Similarity=0.369 Sum_probs=40.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHH
Q 022439 122 IAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYF 168 (297)
Q Consensus 122 ~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~ 168 (297)
.-||..|-++|-.||-.|-+ |+..|++ +|++||..||..+|..+.
T Consensus 620 d~WTp~E~~lF~kA~y~~~K-DF~~v~k-m~~~KtVaqCVeyYYtWK 664 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSK-DFIFVQK-MVKSKTVAQCVEYYYTWK 664 (907)
T ss_pred ccccHHHHHHHHHHHHHhcc-cHHHHHH-HhccccHHHHHHHHHHHH
Confidence 47999999999999999999 9999996 999999999999865543
No 47
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=94.74 E-value=0.041 Score=56.66 Aligned_cols=52 Identities=29% Similarity=0.449 Sum_probs=43.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCchhhh---------hhhhcCCCCHHHHHHHHHHHHHHHhc
Q 022439 121 GIAWTEDEHRLFLLGLDKYGKGDWRSI---------SRNFVVTRTPTQVASHAQKYFIRLNS 173 (297)
Q Consensus 121 ~~~WT~eEd~~ll~~l~k~G~g~W~~I---------ar~~v~tRT~~Q~~sh~qky~~r~~~ 173 (297)
++.||-.|...|..||++||+ ++.+| +..-+..+|..|++-||.+...++++
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 458999999999999999999 99999 22357789999999998887777664
No 48
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=94.62 E-value=0.059 Score=52.88 Aligned_cols=46 Identities=22% Similarity=0.395 Sum_probs=42.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHH
Q 022439 7 GSSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYEL 56 (297)
Q Consensus 7 ~~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~ 56 (297)
+..-.||.+|...|-+||.++|.+ +..|++.+|.|+.+||+-.|.+
T Consensus 363 ~~~~~Ws~~e~ekFYKALs~wGtd----F~LIs~lfP~R~RkqIKaKfi~ 408 (507)
T COG5118 363 KGALRWSKKEIEKFYKALSIWGTD----FSLISSLFPNRERKQIKAKFIK 408 (507)
T ss_pred CCCCcccHHHHHHHHHHHHHhcch----HHHHHHhcCchhHHHHHHHHHH
Confidence 344579999999999999999997 9999999999999999999974
No 49
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=94.58 E-value=0.054 Score=52.97 Aligned_cols=46 Identities=33% Similarity=0.517 Sum_probs=40.9
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCChhHHHH-hhhCCCCCHHHHHHHHHHh
Q 022439 8 SSSVWTKEQDKAFENALVSYPEDASDRWEKI-AADVPGKSLEEIKQHYELL 57 (297)
Q Consensus 8 ~~~~WT~EEdk~Le~Ala~~p~~~~~rWekI-A~~VpGRT~~Qcr~rY~~l 57 (297)
..+.||++|=+.|+..|..|+++ +..| |..|+.|++.+|.+.|..-
T Consensus 276 ~l~~wsEeEcr~FEegl~~yGKD----F~lIr~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 276 DLSGWSEEECRNFEEGLELYGKD----FHLIRANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred ccccCCHHHHHHHHHHHHHhccc----HHHHHhcccccchHHHHHHHHHHh
Confidence 34579999999999999999997 8888 7889999999999999743
No 50
>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=94.47 E-value=0.067 Score=39.99 Aligned_cols=48 Identities=15% Similarity=0.213 Sum_probs=30.6
Q ss_pred CCCCHHHHHHHHHHHHHhCC------C--chhhhhhhhcCCCCHHHHHHHHHHHHH
Q 022439 122 IAWTEDEHRLFLLGLDKYGK------G--DWRSISRNFVVTRTPTQVASHAQKYFI 169 (297)
Q Consensus 122 ~~WT~eEd~~ll~~l~k~G~------g--~W~~Iar~~v~tRT~~Q~~sh~qky~~ 169 (297)
.++|+|||++|+..|..+.. | -|+.+++..+..+|-...++||.|.+.
T Consensus 3 ~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~ 58 (65)
T PF08914_consen 3 TPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLR 58 (65)
T ss_dssp ----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-
T ss_pred CCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence 48999999999999976532 2 499999755558888888999655443
No 51
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=94.24 E-value=0.82 Score=44.77 Aligned_cols=35 Identities=26% Similarity=0.379 Sum_probs=26.4
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHH
Q 022439 123 AWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVA 161 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~ 161 (297)
=||.+|| |+++|+-.|..++..|- ||.+||..|-+
T Consensus 90 W~TTD~D--L~~A~~S~G~~~~~dmK--FFENR~NGQSK 124 (498)
T KOG4849|consen 90 WYTTDAD--LLKALQSTGLAQFADMK--FFENRTNGQSK 124 (498)
T ss_pred EEeccHH--HHHHHHhhhHHHHhhhh--hhhcccCCccc
Confidence 5898887 68888888876666665 77888776654
No 52
>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=94.21 E-value=0.095 Score=43.64 Aligned_cols=56 Identities=23% Similarity=0.472 Sum_probs=45.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCC------------CCCHHHHHHHHHHhhhhh
Q 022439 6 VGSSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVP------------GKSLEEIKQHYELLVDDV 61 (297)
Q Consensus 6 ~~~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~Vp------------GRT~~Qcr~rY~~l~~dv 61 (297)
...+..||.|||.-|...+.+||-+.++.|++|-..|- .||+.++.+|-..|+.-|
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 34568899999999999999999988889999988654 799999999998776543
No 53
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=94.17 E-value=0.075 Score=52.17 Aligned_cols=44 Identities=23% Similarity=0.512 Sum_probs=39.7
Q ss_pred hccCCCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHH
Q 022439 118 RRKGIAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASH 163 (297)
Q Consensus 118 ~kk~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh 163 (297)
+++..+||.+|-++|..||..+|- ++..|+ +++++|...||+-.
T Consensus 362 ~~~~~~Ws~~e~ekFYKALs~wGt-dF~LIs-~lfP~R~RkqIKaK 405 (507)
T COG5118 362 KKGALRWSKKEIEKFYKALSIWGT-DFSLIS-SLFPNRERKQIKAK 405 (507)
T ss_pred CCCCCcccHHHHHHHHHHHHHhcc-hHHHHH-HhcCchhHHHHHHH
Confidence 445568999999999999999999 999999 59999999999865
No 54
>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=93.73 E-value=0.071 Score=46.61 Aligned_cols=50 Identities=20% Similarity=0.315 Sum_probs=41.3
Q ss_pred CCCCHHHHHHHHHHHHHhCC-C-----chhhhhhhhcCCCCHHHHHHHHHHHHHHHhc
Q 022439 122 IAWTEDEHRLFLLGLDKYGK-G-----DWRSISRNFVVTRTPTQVASHAQKYFIRLNS 173 (297)
Q Consensus 122 ~~WT~eEd~~ll~~l~k~G~-g-----~W~~Iar~~v~tRT~~Q~~sh~qky~~r~~~ 173 (297)
+.||.|||.+|-+.|.+|=+ | .+..+++ --+||...|.-||+.|.+++-.
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 37999999999999988743 2 5888885 4579999999999999987653
No 55
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=93.52 E-value=0.095 Score=52.73 Aligned_cols=44 Identities=30% Similarity=0.542 Sum_probs=40.1
Q ss_pred cCCCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHH
Q 022439 120 KGIAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHA 164 (297)
Q Consensus 120 k~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~ 164 (297)
.-..|+..|-.+|.++|+|||+ ++..|-.+|++=++-..|..+|
T Consensus 284 emEEWSasEanLFEeALeKyGK-DFndIrqdfLPWKSl~sIveyY 327 (693)
T KOG3554|consen 284 EMEEWSASEANLFEEALEKYGK-DFNDIRQDFLPWKSLTSIVEYY 327 (693)
T ss_pred hhhhccchhhHHHHHHHHHhcc-cHHHHHHhhcchHHHHHHHHHH
Confidence 3457999999999999999999 9999988999999999998774
No 56
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=93.51 E-value=0.31 Score=36.67 Aligned_cols=49 Identities=16% Similarity=0.261 Sum_probs=38.4
Q ss_pred CCCHHHHHHHHHHHHHh-----CCC-----------chhhhhhhh----cCCCCHHHHHHHHHHHHHHH
Q 022439 123 AWTEDEHRLFLLGLDKY-----GKG-----------DWRSISRNF----VVTRTPTQVASHAQKYFIRL 171 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~-----G~g-----------~W~~Iar~~----v~tRT~~Q~~sh~qky~~r~ 171 (297)
.||.+|.++|++.|.+| |+. .|..|+..| ...||..||+..|.++....
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 79999999999999886 421 599997422 23799999999998876554
No 57
>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=93.05 E-value=0.18 Score=39.14 Aligned_cols=52 Identities=21% Similarity=0.493 Sum_probs=39.5
Q ss_pred CCCHHHHHHHHHHHHHC------C-CC--CChhHHHHhhhCC-----CCCHHHHHHHHHHhhhhhh
Q 022439 11 VWTKEQDKAFENALVSY------P-ED--ASDRWEKIAADVP-----GKSLEEIKQHYELLVDDVN 62 (297)
Q Consensus 11 ~WT~EEdk~Le~Ala~~------p-~~--~~~rWekIA~~Vp-----GRT~~Qcr~rY~~l~~dv~ 62 (297)
.||.++++.|..++... + .+ ....|+.|+..|. ..|.+||+.||..|..+-.
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 59999999998887543 1 11 2457999999987 3688999999998876543
No 58
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=92.86 E-value=0.16 Score=51.18 Aligned_cols=44 Identities=32% Similarity=0.538 Sum_probs=38.6
Q ss_pred CCCCHHHHHHHHHHHHHCCCCCChhHHHH-hhhCCCCCHHHHHHHHHHh
Q 022439 10 SVWTKEQDKAFENALVSYPEDASDRWEKI-AADVPGKSLEEIKQHYELL 57 (297)
Q Consensus 10 ~~WT~EEdk~Le~Ala~~p~~~~~rWekI-A~~VpGRT~~Qcr~rY~~l 57 (297)
-+||..|-.+||.||.+|+++ +..| +.+||=||...+.+.|...
T Consensus 286 EEWSasEanLFEeALeKyGKD----FndIrqdfLPWKSl~sIveyYYmw 330 (693)
T KOG3554|consen 286 EEWSASEANLFEEALEKYGKD----FNDIRQDFLPWKSLTSIVEYYYMW 330 (693)
T ss_pred hhccchhhHHHHHHHHHhccc----HHHHHHhhcchHHHHHHHHHHHHH
Confidence 379999999999999999997 7666 7788999999999998643
No 59
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=92.05 E-value=0.3 Score=49.04 Aligned_cols=43 Identities=21% Similarity=0.375 Sum_probs=38.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHH
Q 022439 122 IAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQK 166 (297)
Q Consensus 122 ~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qk 166 (297)
..||.||--||..++..||+ ++.+|-+ .++.|+-..+.-+|..
T Consensus 188 d~WT~Ed~vlFe~aF~~~GK-~F~kIrq-~LP~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 188 DEWTAEDIVLFEQAFQFFGK-DFHKIRQ-ALPHRSLASLVQYYYS 230 (534)
T ss_pred ccchHHHHHHHHHHHHHhcc-cHHHHHH-HccCccHHHHHHHHHH
Confidence 37999999999999999999 9999996 9999999998876543
No 60
>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=91.92 E-value=0.13 Score=44.90 Aligned_cols=50 Identities=12% Similarity=0.312 Sum_probs=39.9
Q ss_pred CCCCCHHHHHHHHHHHHHCCCC---CChhHHHHhhhCCCCCHHHHHHHHHHhhh
Q 022439 9 SSVWTKEQDKAFENALVSYPED---ASDRWEKIAADVPGKSLEEIKQHYELLVD 59 (297)
Q Consensus 9 ~~~WT~EEdk~Le~Ala~~p~~---~~~rWekIA~~VpGRT~~Qcr~rY~~l~~ 59 (297)
...||.|||.+|...|-.|=.. .-.-++.|+..| +||..-|-=||..++.
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 3469999999999999888321 123589999998 7999999999986655
No 61
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=90.40 E-value=0.17 Score=49.80 Aligned_cols=48 Identities=19% Similarity=0.368 Sum_probs=40.4
Q ss_pred CCCCHHHHHHHHHHHHHCCCCCChhHHHHhhh-----CCC-CCHHHHHHHHHHhhhhh
Q 022439 10 SVWTKEQDKAFENALVSYPEDASDRWEKIAAD-----VPG-KSLEEIKQHYELLVDDV 61 (297)
Q Consensus 10 ~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~-----VpG-RT~~Qcr~rY~~l~~dv 61 (297)
..||.||...|-+++..|+. ||-.||.. ++. ||++|.++||..+...+
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 57999999999999999998 48888776 555 99999999998766544
No 62
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=90.21 E-value=0.31 Score=43.05 Aligned_cols=49 Identities=12% Similarity=0.156 Sum_probs=38.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCC------chhhhhhhhcCCCCHHHHHHHHHHHHHHHh
Q 022439 122 IAWTEDEHRLFLLGLDKYGKG------DWRSISRNFVVTRTPTQVASHAQKYFIRLN 172 (297)
Q Consensus 122 ~~WT~eEd~~ll~~l~k~G~g------~W~~Iar~~v~tRT~~Q~~sh~qky~~r~~ 172 (297)
..||.|||.+|-+-|..|++. .+..++. .-+||..+|.-||..+.+++-
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 379999999999988888864 2455553 457999999999987776543
No 63
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=89.67 E-value=1.5 Score=43.33 Aligned_cols=52 Identities=33% Similarity=0.369 Sum_probs=41.3
Q ss_pred CCCCHHHHHHHHHHHHHhCC---------------Cchhhhhhhhc-----CCCCHHHHHHHHHHHHHHHhcc
Q 022439 122 IAWTEDEHRLFLLGLDKYGK---------------GDWRSISRNFV-----VTRTPTQVASHAQKYFIRLNSM 174 (297)
Q Consensus 122 ~~WT~eEd~~ll~~l~k~G~---------------g~W~~Iar~~v-----~tRT~~Q~~sh~qky~~r~~~~ 174 (297)
+-|+++=++.|++||..|.. |+=..||| |+ .+||..||.||-|-+-+|+.+.
T Consensus 77 gvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIar-YIKlrtgktRTrKQVSSHIQVlarrk~re 148 (455)
T KOG3841|consen 77 GVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIAR-YIKLRTGKTRTRKQVSSHIQVLARRKLRE 148 (455)
T ss_pred cccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHH-HHHHhcCCchhHHHHHHHHHHHHHHHHHH
Confidence 47999999999999999743 35567886 76 4788899999998777666543
No 64
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=88.77 E-value=0.89 Score=43.81 Aligned_cols=54 Identities=17% Similarity=0.361 Sum_probs=40.2
Q ss_pred CCCCHHHHHHHHHHHHH----hCCC-----chhhhhhh---hcCCCCHHHHHHHHHHHHHHHhccC
Q 022439 122 IAWTEDEHRLFLLGLDK----YGKG-----DWRSISRN---FVVTRTPTQVASHAQKYFIRLNSMN 175 (297)
Q Consensus 122 ~~WT~eEd~~ll~~l~k----~G~g-----~W~~Iar~---~v~tRT~~Q~~sh~qky~~r~~~~~ 175 (297)
..|+.+|-+.||++..+ |..+ .|..||+. .-.-||+.||+.++.+..++.++.+
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 48999999999988654 3334 49999852 2334999999999887766665544
No 65
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=88.25 E-value=0.69 Score=48.02 Aligned_cols=47 Identities=28% Similarity=0.584 Sum_probs=39.4
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCChhHHHH----------hhhCCCCCHHHHHHHHHHhh
Q 022439 8 SSSVWTKEQDKAFENALVSYPEDASDRWEKI----------AADVPGKSLEEIKQHYELLV 58 (297)
Q Consensus 8 ~~~~WT~EEdk~Le~Ala~~p~~~~~rWekI----------A~~VpGRT~~Qcr~rY~~l~ 58 (297)
++..||-.|...|-.||..|+++ +++| -..+--||..||+++|..++
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GKd----Fe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGKD----FEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV 143 (782)
T ss_pred cccccchhhHHHHHHHHHHhccc----HHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence 35689999999999999999997 8988 44445699999999997554
No 66
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=88.18 E-value=0.52 Score=41.70 Aligned_cols=48 Identities=10% Similarity=0.332 Sum_probs=37.6
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCC---hhHHHHhhhCCCCCHHHHHHHHHHh
Q 022439 9 SSVWTKEQDKAFENALVSYPEDAS---DRWEKIAADVPGKSLEEIKQHYELL 57 (297)
Q Consensus 9 ~~~WT~EEdk~Le~Ala~~p~~~~---~rWekIA~~VpGRT~~Qcr~rY~~l 57 (297)
...||.|||.+|...|-.|..... .-++.++..| +||...|..||...
T Consensus 5 qdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~ 55 (170)
T PRK13923 5 QDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSV 55 (170)
T ss_pred hhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHH
Confidence 457999999999999988865322 3467777777 79999999999543
No 67
>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=88.03 E-value=1.2 Score=33.17 Aligned_cols=50 Identities=14% Similarity=0.328 Sum_probs=33.7
Q ss_pred CCCCCHHHHHHHHHHHHHCCC-----CCChhHHHHhhhCC-CCCHHHHHHHHHHhh
Q 022439 9 SSVWTKEQDKAFENALVSYPE-----DASDRWEKIAADVP-GKSLEEIKQHYELLV 58 (297)
Q Consensus 9 ~~~WT~EEdk~Le~Ala~~p~-----~~~~rWekIA~~Vp-GRT~~Qcr~rY~~l~ 58 (297)
+..+|.|||.+|.+-|+.+.. ..+.-|..+++.-+ ..|-.--++||.+.+
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L 57 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHL 57 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 356899999999999976532 24568999999988 889899999997544
No 68
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=88.01 E-value=0.86 Score=43.92 Aligned_cols=53 Identities=17% Similarity=0.266 Sum_probs=39.4
Q ss_pred CCCCHHHHHHHHHHHHHC----C--CCCChhHHHHhhhCC----CCCHHHHHHHHHHhhhhhh
Q 022439 10 SVWTKEQDKAFENALVSY----P--EDASDRWEKIAADVP----GKSLEEIKQHYELLVDDVN 62 (297)
Q Consensus 10 ~~WT~EEdk~Le~Ala~~----p--~~~~~rWekIA~~Vp----GRT~~Qcr~rY~~l~~dv~ 62 (297)
..|+.+|-..|+.+.... . .....-|+.||..+. -||..||+.+|+.|....+
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk 117 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYK 117 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 689999999998876543 1 112346999999554 4999999999987765443
No 69
>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=87.74 E-value=1.7 Score=33.54 Aligned_cols=48 Identities=23% Similarity=0.376 Sum_probs=33.3
Q ss_pred CCCHHHHHHHHHHHHHh-------CCC-----chhhhhhhh----cCCCCHHHHHHHHHHHHHH
Q 022439 123 AWTEDEHRLFLLGLDKY-------GKG-----DWRSISRNF----VVTRTPTQVASHAQKYFIR 170 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~-------G~g-----~W~~Iar~~----v~tRT~~Q~~sh~qky~~r 170 (297)
.||+++++.||+++... +.+ .|..|++.| -...|..||+||++.+-+.
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 49999999999988553 122 488886422 2346789999997765443
No 70
>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=86.98 E-value=1.9 Score=41.67 Aligned_cols=55 Identities=18% Similarity=0.365 Sum_probs=43.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhhhhh
Q 022439 7 GSSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLVDDV 61 (297)
Q Consensus 7 ~~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~~dv 61 (297)
.....||..|.+.|.++|+........+-..|+..|+||+..||++.-+.|...|
T Consensus 19 ~gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rv 73 (344)
T PF11035_consen 19 TGPAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRV 73 (344)
T ss_pred CCcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHH
Confidence 3456899999999999998764434445777999999999999998877665443
No 71
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=84.55 E-value=1.6 Score=48.39 Aligned_cols=47 Identities=26% Similarity=0.538 Sum_probs=41.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHHHH
Q 022439 123 AWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYFIR 170 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~~r 170 (297)
.||.-+=..|+.+..+||+.+...||. .|.+||..+|+.+++.|+.|
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 599999999999999999999999995 89999999999776666554
No 72
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=83.78 E-value=8.3 Score=41.68 Aligned_cols=16 Identities=13% Similarity=0.297 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHCCCCC
Q 022439 16 QDKAFENALVSYPEDA 31 (297)
Q Consensus 16 Edk~Le~Ala~~p~~~ 31 (297)
++..|.-++..|.+..
T Consensus 348 ~n~~ldvqlkvfdE~~ 363 (1102)
T KOG1924|consen 348 NNDILDVQLKVFDEHK 363 (1102)
T ss_pred ccHHHHHHHHHHhhhh
Confidence 3344444444444433
No 73
>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=82.40 E-value=3.4 Score=27.99 Aligned_cols=39 Identities=18% Similarity=0.294 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHh
Q 022439 15 EQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELL 57 (297)
Q Consensus 15 EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l 57 (297)
+=|..+.++|+.-+.-. |..||+.+ |-|...|.+|.+.|
T Consensus 3 ~~D~~Il~~Lq~d~r~s---~~~la~~l-glS~~~v~~Ri~rL 41 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRS---YAELAEEL-GLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHHHHH-TTS----HHHHHHHH-TS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCcc---HHHHHHHH-CcCHHHHHHHHHHh
Confidence 34778888888887655 99999999 89999999999876
No 74
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=82.18 E-value=0.34 Score=46.37 Aligned_cols=49 Identities=16% Similarity=0.098 Sum_probs=44.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHHHHHhc
Q 022439 123 AWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYFIRLNS 173 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~~r~~~ 173 (297)
.||++|+..|.++|..|+. .|..|-+ ++..++..+.+.|+|+||-.+..
T Consensus 55 ~~t~~~~~~~~~~l~~~~~-~~~~~~~-~~~~~~~v~~~~~~~~~~p~~~~ 103 (335)
T KOG0724|consen 55 RRTPDSWDKFAEALPLEKR-LEDKIEE-YIGLVFDVNIRESGQKPFPKYGK 103 (335)
T ss_pred ccchhhhhHHHhcCccccc-cchhHHh-hhhhHHHHhhhhccCCCccccCc
Confidence 4999999999999999966 9999995 99999999999999999887754
No 75
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=78.86 E-value=3.5 Score=40.78 Aligned_cols=52 Identities=25% Similarity=0.509 Sum_probs=42.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCC------------ChhHHHHhhhCC-----CCCHHHHHHHHHHhh
Q 022439 7 GSSSVWTKEQDKAFENALVSYPEDA------------SDRWEKIAADVP-----GKSLEEIKQHYELLV 58 (297)
Q Consensus 7 ~~~~~WT~EEdk~Le~Ala~~p~~~------------~~rWekIA~~Vp-----GRT~~Qcr~rY~~l~ 58 (297)
...+.|+.+=++.|.+||+.|+.+. =.|=+.||.+|. .||.+||--|-+.|.
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVla 142 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLA 142 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHH
Confidence 4567899999999999999998642 127799999997 588899988876553
No 76
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=77.91 E-value=9.6 Score=41.01 Aligned_cols=41 Identities=27% Similarity=0.418 Sum_probs=20.4
Q ss_pred CCCCccccCcCCCCccCCCCCCCCCCCCCCCCccccCCCCCCCCC
Q 022439 241 QPIGGPLVSAVGTPVNLPAPAHMAYGVRAPVPGTVVPGAPMNVSP 285 (297)
Q Consensus 241 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 285 (297)
+|+++.+--++=-++++|||+ |.+-+|.| ...||.|+||.|
T Consensus 595 ~P~~~~~Ppa~p~~~~~ppPg---f~PnpPpP-~~~Pg~np~~pP 635 (894)
T KOG0132|consen 595 APIPSGEPPAFPGPMWHPPPG---FVPNPPPP-PLRPGYNPYPPP 635 (894)
T ss_pred CCCCCCCCCCCCCccCCCCCC---CCCCCCCC-CCCCCCCCCCCC
Confidence 566544444555556666663 22222222 345666655555
No 77
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=77.84 E-value=4.2 Score=32.56 Aligned_cols=47 Identities=23% Similarity=0.487 Sum_probs=33.0
Q ss_pred CCCHHHHHHHHHHHHHh----CCC---chhhhhhhhcCCC-----CHHHHHHHHHHHHHH
Q 022439 123 AWTEDEHRLFLLGLDKY----GKG---DWRSISRNFVVTR-----TPTQVASHAQKYFIR 170 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~----G~g---~W~~Iar~~v~tR-----T~~Q~~sh~qky~~r 170 (297)
-||+|++..||+||..| |.. +|.... ++|... |..|+...-+++-++
T Consensus 6 ~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~-~~vk~~l~~~~s~~Ql~~KirrLK~K 64 (98)
T PF04504_consen 6 LWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFY-DFVKGSLSFDVSKNQLYDKIRRLKKK 64 (98)
T ss_pred CCCchHHHHHHHHHHHHHHhcCCCCCccHHHHH-HHHHHHccCCCCHHHHHHHHHHHHHH
Confidence 69999999999999887 642 676665 355444 667877665444333
No 78
>smart00595 MADF subfamily of SANT domain.
Probab=77.25 E-value=2.3 Score=32.42 Aligned_cols=25 Identities=40% Similarity=0.667 Sum_probs=21.9
Q ss_pred hHHHHhhhCCCCCHHHHHHHHHHhhh
Q 022439 34 RWEKIAADVPGKSLEEIKQHYELLVD 59 (297)
Q Consensus 34 rWekIA~~VpGRT~~Qcr~rY~~l~~ 59 (297)
-|..||..+. .|+++|+.+|+.|..
T Consensus 29 aW~~Ia~~l~-~~~~~~~~kw~~LR~ 53 (89)
T smart00595 29 AWEEIAEELG-LSVEECKKRWKNLRD 53 (89)
T ss_pred HHHHHHHHHC-cCHHHHHHHHHHHHH
Confidence 6999999995 599999999997754
No 79
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=75.73 E-value=2.8 Score=43.62 Aligned_cols=47 Identities=19% Similarity=0.312 Sum_probs=42.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHH
Q 022439 6 VGSSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYEL 56 (297)
Q Consensus 6 ~~~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~ 56 (297)
......||.+|-.+|.+++..++-+ ...|++.+++|+.+|++..|..
T Consensus 406 ~~~~~~w~~se~e~fyka~~~~gs~----~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 406 KLETDKWDASETELFYKALSERGSD----FSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred ccccCcccchhhHHhhhHHhhhccc----ccccccccccccHHHHHHHHhh
Confidence 3455689999999999999999987 8999999999999999999973
No 80
>smart00426 TEA TEA domain.
Probab=73.76 E-value=4.3 Score=30.73 Aligned_cols=24 Identities=25% Similarity=0.412 Sum_probs=20.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhh
Q 022439 123 AWTEDEHRLFLLGLDKYGKGDWRS 146 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~G~g~W~~ 146 (297)
-|.++=+..|++||..|-+-.+.+
T Consensus 5 vWp~~lE~Af~~aL~~~~~~g~~k 28 (68)
T smart00426 5 VWSPDIEQAFQEALAIYPPCGRRK 28 (68)
T ss_pred cCcHHHHHHHHHHHHHcCccCccc
Confidence 699999999999999998744443
No 81
>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=72.03 E-value=10 Score=36.72 Aligned_cols=50 Identities=22% Similarity=0.309 Sum_probs=39.6
Q ss_pred CCCCCHHHHHHHHHHHHHh-CCC--chhhhhhhhcCCCCHHHHHHHHHHHHHHH
Q 022439 121 GIAWTEDEHRLFLLGLDKY-GKG--DWRSISRNFVVTRTPTQVASHAQKYFIRL 171 (297)
Q Consensus 121 ~~~WT~eEd~~ll~~l~k~-G~g--~W~~Iar~~v~tRT~~Q~~sh~qky~~r~ 171 (297)
...||..|-+.||.+|+-- |.- +-..|++ .+.+|+..+|+++-|.+..|.
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~-~l~~Rs~aEI~~fl~~LK~rv 73 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAK-ELPGRSEAEIRDFLQQLKGRV 73 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHh-hccCcCHHHHHHHHHHHHHHH
Confidence 3489999999999999864 421 5667886 899999999999877765554
No 82
>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=71.02 E-value=14 Score=31.93 Aligned_cols=51 Identities=16% Similarity=0.397 Sum_probs=44.3
Q ss_pred CCCHHHHHHHHHHHHHhCCC--chhhhhhhhcCCCCHHHHHHHHHHHHHHHhcc
Q 022439 123 AWTEDEHRLFLLGLDKYGKG--DWRSISRNFVVTRTPTQVASHAQKYFIRLNSM 174 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~G~g--~W~~Iar~~v~tRT~~Q~~sh~qky~~r~~~~ 174 (297)
-++..+-+.||.+|.+||-| +|+-+-+ .+..+|..+++.+..-|+.++...
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 48999999999999999998 7888885 899999999999888777777543
No 83
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=70.49 E-value=18 Score=34.01 Aligned_cols=26 Identities=15% Similarity=0.052 Sum_probs=17.2
Q ss_pred HHHHHhCCCchhhhhhhhcCCCCHHHHH
Q 022439 134 LGLDKYGKGDWRSISRNFVVTRTPTQVA 161 (297)
Q Consensus 134 ~~l~k~G~g~W~~Iar~~v~tRT~~Q~~ 161 (297)
.+++.+-. .-.+|- +-|.+|+...|.
T Consensus 53 hcmqvhke-tid~ip-~av~gr~~i~ve 78 (341)
T KOG2893|consen 53 HCMQVHKE-TIDKIP-AAVHGRDNIHVE 78 (341)
T ss_pred ehhhhhhh-hhhccc-ccccCCcceeEE
Confidence 34444444 566777 578999987764
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=70.47 E-value=8.9 Score=33.30 Aligned_cols=48 Identities=25% Similarity=0.418 Sum_probs=38.3
Q ss_pred ccCCCCCHHHHHHHHHHHHHhCCCchhhhhhhhc---CCCCHHHHHHHHHHH
Q 022439 119 RKGIAWTEDEHRLFLLGLDKYGKGDWRSISRNFV---VTRTPTQVASHAQKY 167 (297)
Q Consensus 119 kk~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v---~tRT~~Q~~sh~qky 167 (297)
.....=|+.|...+..+|++||. |+..+++..= -=.|..||+....+|
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGd-Dy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGD-DYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCc-cHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 34557899999999999999998 9999996321 126999999887766
No 85
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=69.51 E-value=11 Score=31.95 Aligned_cols=42 Identities=19% Similarity=0.279 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhhhh
Q 022439 15 EQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLVDD 60 (297)
Q Consensus 15 EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~~d 60 (297)
+-|.++..+|+.-+.-. |..||+.+ |-|...|++|++.|.+.
T Consensus 9 ~~D~~Il~~Lq~d~R~s---~~eiA~~l-glS~~tV~~Ri~rL~~~ 50 (153)
T PRK11179 9 NLDRGILEALMENARTP---YAELAKQF-GVSPGTIHVRVEKMKQA 50 (153)
T ss_pred HHHHHHHHHHHHcCCCC---HHHHHHHH-CcCHHHHHHHHHHHHHC
Confidence 56788888898887765 99999999 89999999999988763
No 86
>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=69.33 E-value=9.9 Score=32.22 Aligned_cols=47 Identities=13% Similarity=0.206 Sum_probs=32.9
Q ss_pred CCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhhhhhh
Q 022439 12 WTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLVDDVN 62 (297)
Q Consensus 12 WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~~dv~ 62 (297)
++.|+-++|+--...+... -|..||..+ ..+..+|+..++.+.++|.
T Consensus 82 l~de~k~Ii~lry~~r~~~---TW~~IA~~l-~i~erta~r~~~~fK~~i~ 128 (130)
T PF05263_consen 82 LIDEEKRIIKLRYDRRSRR---TWYQIAQKL-HISERTARRWRDRFKNDIY 128 (130)
T ss_pred hCHHHHHHHHHHHcccccc---hHHHHHHHh-CccHHHHHHHHHHHHHHhc
Confidence 4455555554433333333 499999999 5999999999998888764
No 87
>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=66.45 E-value=28 Score=23.83 Aligned_cols=48 Identities=19% Similarity=0.328 Sum_probs=39.5
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHH
Q 022439 8 SSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYEL 56 (297)
Q Consensus 8 ~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~ 56 (297)
....+|.++...|++.+...+.-+...-+.||..+ |-+..||..-|..
T Consensus 3 ~r~~~~~~~~~~Le~~f~~~~~P~~~~~~~la~~~-~l~~~qV~~WF~n 50 (59)
T cd00086 3 KRTRFTPEQLEELEKEFEKNPYPSREEREELAKEL-GLTERQVKIWFQN 50 (59)
T ss_pred CCCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHH-CcCHHHHHHHHHH
Confidence 45679999999999999997765556779999998 7999999876653
No 88
>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=64.67 E-value=19 Score=24.73 Aligned_cols=39 Identities=13% Similarity=0.161 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHH
Q 022439 127 DEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYF 168 (297)
Q Consensus 127 eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~ 168 (297)
++++.++...-..|. .|.+||+ .-+.|...|+++.++-.
T Consensus 13 ~~~r~i~~l~~~~g~-s~~eIa~--~l~~s~~~v~~~l~ra~ 51 (54)
T PF08281_consen 13 ERQREIFLLRYFQGM-SYAEIAE--ILGISESTVKRRLRRAR 51 (54)
T ss_dssp HHHHHHHHHHHTS----HHHHHH--HCTS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCc-CHHHHHH--HHCcCHHHHHHHHHHHH
Confidence 556667777777888 9999995 45799999998855433
No 89
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=63.56 E-value=7.4 Score=40.59 Aligned_cols=43 Identities=28% Similarity=0.451 Sum_probs=39.2
Q ss_pred ccCCCCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHH
Q 022439 119 RKGIAWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASH 163 (297)
Q Consensus 119 kk~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh 163 (297)
.....||.+|-.+|-.++..+|. +...|+ +.++.|+..|++-.
T Consensus 407 ~~~~~w~~se~e~fyka~~~~gs-~~slis-~l~p~R~rk~iK~K 449 (584)
T KOG2009|consen 407 LETDKWDASETELFYKALSERGS-DFSLIS-NLFPLRDRKQIKAK 449 (584)
T ss_pred cccCcccchhhHHhhhHHhhhcc-cccccc-cccccccHHHHHHH
Confidence 34568999999999999999999 999999 59999999999864
No 90
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=63.19 E-value=15 Score=31.59 Aligned_cols=43 Identities=16% Similarity=0.072 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhhhh
Q 022439 14 KEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLVDD 60 (297)
Q Consensus 14 ~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~~d 60 (297)
.+-|.++.++|+.-+.-+ |..||+.+ |-|..-|.+|++.|.+.
T Consensus 13 D~~D~~IL~~Lq~d~R~s---~~eiA~~l-glS~~tv~~Ri~rL~~~ 55 (164)
T PRK11169 13 DRIDRNILNELQKDGRIS---NVELSKRV-GLSPTPCLERVRRLERQ 55 (164)
T ss_pred HHHHHHHHHHhccCCCCC---HHHHHHHH-CcCHHHHHHHHHHHHHC
Confidence 345667777888777765 99999999 89999999999988764
No 91
>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=61.37 E-value=4.1 Score=31.71 Aligned_cols=17 Identities=24% Similarity=0.638 Sum_probs=9.6
Q ss_pred CCCCCCCHHHHHHHHHH
Q 022439 7 GSSSVWTKEQDKAFENA 23 (297)
Q Consensus 7 ~~~~~WT~EEdk~Le~A 23 (297)
...+.||+|||+.|...
T Consensus 45 n~~GiWT~eDD~~L~~~ 61 (87)
T PF11626_consen 45 NMPGIWTPEDDEMLRSG 61 (87)
T ss_dssp T-TT---HHHHHHHTS-
T ss_pred CCCCCcCHHHHHHHHcC
Confidence 34678999999999543
No 92
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=60.01 E-value=23 Score=32.14 Aligned_cols=53 Identities=13% Similarity=0.410 Sum_probs=39.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhh-----CCCCCHHHHHHHHHHhhh
Q 022439 6 VGSSSVWTKEQDKAFENALVSYPEDASDRWEKIAAD-----VPGKSLEEIKQHYELLVD 59 (297)
Q Consensus 6 ~~~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~-----VpGRT~~Qcr~rY~~l~~ 59 (297)
..++..||.+|+.+|.+....... +...|++|=.. -++||+++...||..+..
T Consensus 70 iq~kalfS~~EE~lL~~v~s~~~p-~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkq 127 (199)
T PF13325_consen 70 IQSKALFSKEEEQLLGTVASSSQP-SLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQ 127 (199)
T ss_pred ccccCCCCHHHHHHHHhhhhccCC-cHHHHHHHHHhChhhhccccCHHHHHHHHHHHHH
Confidence 456678999999999996655533 33568777443 348999999999996543
No 93
>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=59.99 E-value=22 Score=23.97 Aligned_cols=39 Identities=13% Similarity=0.233 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHH
Q 022439 127 DEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKY 167 (297)
Q Consensus 127 eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky 167 (297)
+=|+.||..|+.-|+-.|..||+ .-+=|...|..+.+++
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 45889999999999888999995 4568999999886653
No 94
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=59.70 E-value=5.8 Score=44.63 Aligned_cols=28 Identities=29% Similarity=0.749 Sum_probs=26.1
Q ss_pred cCCCCCHHHHHHHHHHHHHhCCCchhhh
Q 022439 120 KGIAWTEDEHRLFLLGLDKYGKGDWRSI 147 (297)
Q Consensus 120 k~~~WT~eEd~~ll~~l~k~G~g~W~~I 147 (297)
....|+.+||..||.||-+||.|+|..|
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~I 1159 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAI 1159 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHh
Confidence 4557999999999999999999999999
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=59.50 E-value=12 Score=37.69 Aligned_cols=46 Identities=33% Similarity=0.373 Sum_probs=29.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCc-------------hhhhhhhhc-----CCCCHHHHHHHHHHH
Q 022439 121 GIAWTEDEHRLFLLGLDKYGKGD-------------WRSISRNFV-----VTRTPTQVASHAQKY 167 (297)
Q Consensus 121 ~~~WT~eEd~~ll~~l~k~G~g~-------------W~~Iar~~v-----~tRT~~Q~~sh~qky 167 (297)
..-|+++=+..|++||..|.+-- =..|++ || ..||..||.||-|-+
T Consensus 49 ~~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~~-yi~~~tg~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 49 EGVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELISD-YIKLKTGKTRTRKQVSSHIQVL 112 (431)
T ss_dssp S--S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHHH-HHHHHHS----SHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHHH-HHHHHhCcccchhHHHHHHHHH
Confidence 34799999999999999976532 234553 44 468999999998866
No 96
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=59.44 E-value=12 Score=37.30 Aligned_cols=46 Identities=11% Similarity=0.230 Sum_probs=37.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCchhhhhhhh----cCC-CCHHHHHHHHHHH
Q 022439 121 GIAWTEDEHRLFLLGLDKYGKGDWRSISRNF----VVT-RTPTQVASHAQKY 167 (297)
Q Consensus 121 ~~~WT~eEd~~ll~~l~k~G~g~W~~Iar~~----v~t-RT~~Q~~sh~qky 167 (297)
...||.||-.-|....++|.. +|--|+..| ++. ||...++.+|...
T Consensus 130 dn~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 130 DNSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred cccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHH
Confidence 347999999999999999999 999998532 444 9999999876533
No 97
>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=57.84 E-value=28 Score=24.04 Aligned_cols=47 Identities=23% Similarity=0.407 Sum_probs=39.1
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHH
Q 022439 8 SSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYE 55 (297)
Q Consensus 8 ~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~ 55 (297)
....+|.++.+.|+..+...+.-+...-+.||..+ |-+..+|..=|.
T Consensus 3 ~r~~~t~~q~~~L~~~f~~~~~p~~~~~~~la~~l-~l~~~~V~~WF~ 49 (57)
T PF00046_consen 3 KRTRFTKEQLKVLEEYFQENPYPSKEEREELAKEL-GLTERQVKNWFQ 49 (57)
T ss_dssp SSSSSSHHHHHHHHHHHHHSSSCHHHHHHHHHHHH-TSSHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHHHHhccccccccccccccc-cccccccccCHH
Confidence 45679999999999999986655566789999998 899999976665
No 98
>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=57.53 E-value=11 Score=27.84 Aligned_cols=28 Identities=25% Similarity=0.546 Sum_probs=23.0
Q ss_pred hhHHHHhhhCCC-CCHHHHHHHHHHhhhh
Q 022439 33 DRWEKIAADVPG-KSLEEIKQHYELLVDD 60 (297)
Q Consensus 33 ~rWekIA~~VpG-RT~~Qcr~rY~~l~~d 60 (297)
.-|..||..+.. -+.++|+++|..|...
T Consensus 27 ~aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~ 55 (85)
T PF10545_consen 27 EAWQEIARELGKEFSVDDCKKRWKNLRDR 55 (85)
T ss_pred HHHHHHHHHHccchhHHHHHHHHHHHHHH
Confidence 359999999963 6889999999987653
No 99
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=56.88 E-value=50 Score=22.41 Aligned_cols=46 Identities=24% Similarity=0.385 Sum_probs=37.1
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHH
Q 022439 9 SSVWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYE 55 (297)
Q Consensus 9 ~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~ 55 (297)
...+|.++..+|+..+...+.-+...-+.||..+ |-+..||..=|.
T Consensus 4 r~~~~~~~~~~L~~~f~~~~~P~~~~~~~la~~~-~l~~~qV~~WF~ 49 (56)
T smart00389 4 RTSFTPEQLEELEKEFQKNPYPSREEREELAAKL-GLSERQVKVWFQ 49 (56)
T ss_pred CCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHH-CcCHHHHHHhHH
Confidence 4569999999999999887654556678899998 788888877665
No 100
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=56.18 E-value=20 Score=28.63 Aligned_cols=52 Identities=13% Similarity=0.253 Sum_probs=34.2
Q ss_pred CCCCCCHHHHHHHHHHHHHC----CCCCChhHHHHhhhCCC-----CCHHHHHHHHHHhhh
Q 022439 8 SSSVWTKEQDKAFENALVSY----PEDASDRWEKIAADVPG-----KSLEEIKQHYELLVD 59 (297)
Q Consensus 8 ~~~~WT~EEdk~Le~Ala~~----p~~~~~rWekIA~~VpG-----RT~~Qcr~rY~~l~~ 59 (297)
..+.||+||+-.|.++|..| +.....+|..+..+|.+ -|..|+.++...|..
T Consensus 3 ~qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~ 63 (98)
T PF04504_consen 3 FQRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKK 63 (98)
T ss_pred CcCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHH
Confidence 35789999999999999888 32222456555555543 366777766665544
No 101
>KOG4672 consensus Uncharacterized conserved low complexity protein [Function unknown]
Probab=56.04 E-value=1e+02 Score=31.23 Aligned_cols=11 Identities=0% Similarity=-0.067 Sum_probs=4.8
Q ss_pred CcCCCCccCCC
Q 022439 249 SAVGTPVNLPA 259 (297)
Q Consensus 249 ~~~g~~~~~~~ 259 (297)
..+|+++...+
T Consensus 358 ~~~~~r~P~gp 368 (487)
T KOG4672|consen 358 NGMPPRMPPGP 368 (487)
T ss_pred CCCCCCCCCCC
Confidence 34444444333
No 102
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=53.50 E-value=22 Score=30.17 Aligned_cols=40 Identities=13% Similarity=0.237 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHH
Q 022439 126 EDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKY 167 (297)
Q Consensus 126 ~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky 167 (297)
++-|+.||..|++-|+-.|..||+ .-+-|...|+.|.+++
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~--~lglS~~tV~~Ri~rL 47 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAK--QFGVSPGTIHVRVEKM 47 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHH--HHCcCHHHHHHHHHHH
Confidence 357999999999999989999996 4578999999986543
No 103
>COG5269 ZUO1 Ribosome-associated chaperone zuotin [Translation, ribosomal structure and biogenesis / Posttranslational modification, protein turnover, chaperones]
Probab=52.94 E-value=15 Score=35.26 Aligned_cols=52 Identities=12% Similarity=0.138 Sum_probs=40.7
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCC-ChhHHHHhhhCCC-----CCHHHHHHHHHHhhh
Q 022439 8 SSSVWTKEQDKAFENALVSYPEDA-SDRWEKIAADVPG-----KSLEEIKQHYELLVD 59 (297)
Q Consensus 8 ~~~~WT~EEdk~Le~Ala~~p~~~-~~rWekIA~~VpG-----RT~~Qcr~rY~~l~~ 59 (297)
..+.|++|+-..++.+++.+++.. .++|+.+|+.+-+ |..+|+.+...+...
T Consensus 244 ~~rkWereagar~~a~aa~k~kae~k~kae~ea~a~asa~a~kkkaKE~~kka~k~~K 301 (379)
T COG5269 244 KIRKWEREAGARLKALAALKGKAEAKNKAEIEAEALASATAVKKKAKEVMKKALKMEK 301 (379)
T ss_pred HHhccchhhhhhHHHHHHHhhhhHHHhHHHHHHHHhhhhHHHHHhHHHHHHHHHHHHH
Confidence 456899999999999999998753 6789999988764 666777776655443
No 104
>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=50.97 E-value=26 Score=28.19 Aligned_cols=43 Identities=16% Similarity=0.256 Sum_probs=30.9
Q ss_pred HHHHHHHHHHCCCCCChhHHHHhhhCCC--------CC------HHHHHHHHHHhhh
Q 022439 17 DKAFENALVSYPEDASDRWEKIAADVPG--------KS------LEEIKQHYELLVD 59 (297)
Q Consensus 17 dk~Le~Ala~~p~~~~~rWekIA~~VpG--------RT------~~Qcr~rY~~l~~ 59 (297)
.+.|...++.-|......|+.||..++. +| .++|.+.|+.++.
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 4566666666676666789999999872 44 3788888886554
No 105
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=50.85 E-value=22 Score=38.58 Aligned_cols=50 Identities=30% Similarity=0.577 Sum_probs=44.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHHHHHhcc
Q 022439 123 AWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYFIRLNSM 174 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~~r~~~~ 174 (297)
.||.-+=..|+.+..+||+++-..||+ .+-+ |+..+.+.+.-||-+++..
T Consensus 797 ~w~k~df~~fi~a~eKygr~di~~ia~-~~e~-~~eev~~y~rvfwer~~el 846 (971)
T KOG0385|consen 797 NWTKRDFNQFIKANEKYGRDDIENIAA-EVEG-TPEEVGEYARVFWERLEEL 846 (971)
T ss_pred chhhhhHHHHHHHhhccCcchhhhhHH-hhcC-CHHHHHHHHHHHHHHHHHh
Confidence 699999999999999999999999997 6776 9999999888888887643
No 106
>smart00426 TEA TEA domain.
Probab=49.39 E-value=24 Score=26.70 Aligned_cols=22 Identities=36% Similarity=0.795 Sum_probs=19.4
Q ss_pred CCCCCHHHHHHHHHHHHHCCCC
Q 022439 9 SSVWTKEQDKAFENALVSYPED 30 (297)
Q Consensus 9 ~~~WT~EEdk~Le~Ala~~p~~ 30 (297)
...|..+=+.+|..||+.|+..
T Consensus 3 ~~vWp~~lE~Af~~aL~~~~~~ 24 (68)
T smart00426 3 EGVWSPDIEQAFQEALAIYPPC 24 (68)
T ss_pred CCcCcHHHHHHHHHHHHHcCcc
Confidence 4679999999999999999874
No 107
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=48.91 E-value=29 Score=29.79 Aligned_cols=40 Identities=23% Similarity=0.246 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHH
Q 022439 126 EDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKY 167 (297)
Q Consensus 126 ~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky 167 (297)
++-|+++|.+|++-|+-.|..||+ .-+-|...|+.|.+++
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 567899999999999989999996 4578999999996654
No 108
>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=48.74 E-value=10 Score=33.55 Aligned_cols=26 Identities=31% Similarity=0.705 Sum_probs=24.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhh
Q 022439 123 AWTEDEHRLFLLGLDKYGKGDWRSIS 148 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~G~g~W~~Ia 148 (297)
-|-.+-|-.||.||.+||.|+|..|.
T Consensus 5 iw~r~hdywll~gi~~hgy~rwqdi~ 30 (173)
T PF08074_consen 5 IWHRRHDYWLLAGIVKHGYGRWQDIQ 30 (173)
T ss_pred hhhhhhhHHHHhHHhhccchhHHHHh
Confidence 59999999999999999999999994
No 109
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=48.58 E-value=46 Score=25.94 Aligned_cols=42 Identities=19% Similarity=0.238 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhhhh
Q 022439 15 EQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLVDD 60 (297)
Q Consensus 15 EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~~d 60 (297)
+.|..+..+|+..+.-+ +..||+.+ |-+...|+++.+.|.+.
T Consensus 3 ~~D~~il~~L~~~~~~~---~~~la~~l-~~s~~tv~~~l~~L~~~ 44 (108)
T smart00344 3 EIDRKILEELQKDARIS---LAELAKKV-GLSPSTVHNRVKRLEEE 44 (108)
T ss_pred HHHHHHHHHHHHhCCCC---HHHHHHHH-CcCHHHHHHHHHHHHHC
Confidence 46777778888877654 99999998 89999999999988764
No 110
>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=48.25 E-value=65 Score=21.75 Aligned_cols=43 Identities=12% Similarity=0.195 Sum_probs=29.2
Q ss_pred CHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhhhhh
Q 022439 13 TKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLVDDV 61 (297)
Q Consensus 13 T~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~~dv 61 (297)
+++|-+.|...+ +..-+ +..||..+ |-|...|+++....++.+
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 445555555444 44434 99999998 799999999888666544
No 111
>KOG3753 consensus Circadian clock protein period [Signal transduction mechanisms]
Probab=45.88 E-value=1.3e+02 Score=33.36 Aligned_cols=17 Identities=24% Similarity=0.378 Sum_probs=11.1
Q ss_pred CCHHHHHHHHHHHHHhC
Q 022439 124 WTEDEHRLFLLGLDKYG 140 (297)
Q Consensus 124 WT~eEd~~ll~~l~k~G 140 (297)
-|.+|++.||.-++..+
T Consensus 709 HtqkeEq~~l~kfre~r 725 (1114)
T KOG3753|consen 709 HTQKEEQFFLKKFRESR 725 (1114)
T ss_pred hhhHHHHHHHHHHHHhh
Confidence 46777777777655543
No 112
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=43.62 E-value=56 Score=25.27 Aligned_cols=44 Identities=14% Similarity=0.237 Sum_probs=30.1
Q ss_pred HHHHHHHHHHCCC----CCChhHHHHhhhCCCC-----CHHHHHHHHHHhhhh
Q 022439 17 DKAFENALVSYPE----DASDRWEKIAADVPGK-----SLEEIKQHYELLVDD 60 (297)
Q Consensus 17 dk~Le~Ala~~p~----~~~~rWekIA~~VpGR-----T~~Qcr~rY~~l~~d 60 (297)
.-.|-.+|..++. ...++|..||..+.-. ...+++..|.+++..
T Consensus 34 L~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 34 LYRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 3456677888765 2346799999999743 246788888866543
No 113
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=41.95 E-value=1.4e+02 Score=32.84 Aligned_cols=8 Identities=38% Similarity=0.721 Sum_probs=2.9
Q ss_pred CCCCCCCC
Q 022439 283 VSPMPYPM 290 (297)
Q Consensus 283 ~~~~~~~~ 290 (297)
+.|+-+||
T Consensus 599 P~~gm~pm 606 (1102)
T KOG1924|consen 599 PPPGMFPM 606 (1102)
T ss_pred CCCCcccc
Confidence 33333333
No 114
>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=41.50 E-value=29 Score=35.02 Aligned_cols=51 Identities=25% Similarity=0.507 Sum_probs=34.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCC----------ChhHHHHhhhCC-----CCCHHHHHHHHHHh
Q 022439 7 GSSSVWTKEQDKAFENALVSYPEDA----------SDRWEKIAADVP-----GKSLEEIKQHYELL 57 (297)
Q Consensus 7 ~~~~~WT~EEdk~Le~Ala~~p~~~----------~~rWekIA~~Vp-----GRT~~Qcr~rY~~l 57 (297)
.....|+.+=+..|.+||++|+... -.|=+.|+.+|- .||.+||--|-+.|
T Consensus 47 ~~~~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~~yi~~~tg~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 47 DGEGVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELISDYIKLKTGKTRTRKQVSSHIQVL 112 (431)
T ss_dssp GGS--S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHHHHHHHHHS----SHHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHHHHHHHHhCcccchhHHHHHHHHH
Confidence 3456899999999999999998742 124467888776 38889999998877
No 115
>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=40.94 E-value=66 Score=27.87 Aligned_cols=50 Identities=30% Similarity=0.415 Sum_probs=41.4
Q ss_pred CCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhhhhh
Q 022439 11 VWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLVDDV 61 (297)
Q Consensus 11 ~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~~dv 61 (297)
-++..+-+.|.++|-.|+-+. -.|.-+...+.+||.++++.+-..+...|
T Consensus 40 GFn~rQR~~Fln~vMR~G~~~-f~~~w~~~~Lr~Ks~~ei~aY~~LFm~HL 89 (145)
T PF06461_consen 40 GFNPRQRKAFLNAVMRYGMGA-FDWKWFVPRLRGKSEKEIRAYGSLFMRHL 89 (145)
T ss_pred ccCHHHHHHHHHHHHHHCcCc-ccchHHhhhhccccHHHHHHHHHHHHHHh
Confidence 378899999999999999853 36988899999999999988776666553
No 116
>PF11084 DUF2621: Protein of unknown function (DUF2621); InterPro: IPR020203 This entry represents a group of uncharacterised proteins.
Probab=37.68 E-value=49 Score=28.25 Aligned_cols=32 Identities=13% Similarity=0.347 Sum_probs=25.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCC
Q 022439 123 AWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTR 155 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tR 155 (297)
-||+|+-.+|.+++.--.. -++.|||.-+-+|
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 6999999999999988877 7777876544443
No 117
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=36.82 E-value=76 Score=27.47 Aligned_cols=47 Identities=9% Similarity=0.139 Sum_probs=38.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCC----CCCHHHHHHHHHHh
Q 022439 7 GSSSVWTKEQDKAFENALVSYPEDASDRWEKIAADVP----GKSLEEIKQHYELL 57 (297)
Q Consensus 7 ~~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~Vp----GRT~~Qcr~rY~~l 57 (297)
.....=|..|..-++.+|++|++| ++..|.... -.|..||++++..+
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGdD----y~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGDD----YKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCcc----HHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 345567889999999999999986 899988765 47999999988754
No 118
>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=36.39 E-value=34 Score=26.21 Aligned_cols=41 Identities=17% Similarity=0.327 Sum_probs=26.8
Q ss_pred HHHHHHHHCCCC----CChhHHHHhhhCCCCC-----HHHHHHHHHHhhh
Q 022439 19 AFENALVSYPED----ASDRWEKIAADVPGKS-----LEEIKQHYELLVD 59 (297)
Q Consensus 19 ~Le~Ala~~p~~----~~~rWekIA~~VpGRT-----~~Qcr~rY~~l~~ 59 (297)
.|-.+|..++.- ....|..||..+.--+ ..+++++|+.++.
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 455666666542 2246999999996322 3688999987654
No 119
>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=33.85 E-value=64 Score=28.14 Aligned_cols=42 Identities=19% Similarity=0.225 Sum_probs=32.0
Q ss_pred CCCHHHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHh
Q 022439 11 VWTKEQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELL 57 (297)
Q Consensus 11 ~WT~EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l 57 (297)
.||.|+.++|.++... +.. =.+||..|.|.|---|+-+...|
T Consensus 2 ~Wtde~~~~L~~lw~~-G~S----asqIA~~lg~vsRnAViGk~hRl 43 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GLS----ASQIARQLGGVSRNAVIGKAHRL 43 (162)
T ss_pred CCCHHHHHHHHHHHHc-CCC----HHHHHHHhCCcchhhhhhhhhcc
Confidence 6999999999886533 322 68999999878888887776643
No 120
>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=33.36 E-value=53 Score=28.68 Aligned_cols=40 Identities=18% Similarity=0.180 Sum_probs=31.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHH
Q 022439 123 AWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQ 165 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~q 165 (297)
.||+|+.++|.++. .-|. .-.+||+ .+++.|.+.|.-++.
T Consensus 2 ~Wtde~~~~L~~lw-~~G~-SasqIA~-~lg~vsRnAViGk~h 41 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGL-SASQIAR-QLGGVSRNAVIGKAH 41 (162)
T ss_pred CCCHHHHHHHHHHH-HcCC-CHHHHHH-HhCCcchhhhhhhhh
Confidence 59999999777755 6677 8899996 888888888887643
No 121
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=32.38 E-value=1.1e+02 Score=25.21 Aligned_cols=42 Identities=17% Similarity=0.177 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHCCCCCChhHHHHhhhCCCCCHHHHHHHHHHhhhh
Q 022439 15 EQDKAFENALVSYPEDASDRWEKIAADVPGKSLEEIKQHYELLVDD 60 (297)
Q Consensus 15 EEdk~Le~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr~rY~~l~~d 60 (297)
+-|.++.++|+.-.... +..||+.+ |.|...|++|-+.|.++
T Consensus 8 ~~D~~IL~~L~~d~r~~---~~eia~~l-glS~~~v~~Ri~~L~~~ 49 (154)
T COG1522 8 DIDRRILRLLQEDARIS---NAELAERV-GLSPSTVLRRIKRLEEE 49 (154)
T ss_pred HHHHHHHHHHHHhCCCC---HHHHHHHH-CCCHHHHHHHHHHHHHC
Confidence 34566666777766644 99999999 79999999999988764
No 122
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=32.11 E-value=82 Score=24.48 Aligned_cols=39 Identities=18% Similarity=0.260 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHH
Q 022439 127 DEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKY 167 (297)
Q Consensus 127 eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky 167 (297)
+.|+.+|..|+..|.-.++.||+ . -+-+...|+.+.+++
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~-~-l~~s~~tv~~~l~~L 41 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAK-K-VGLSPSTVHNRVKRL 41 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHH-H-HCcCHHHHHHHHHHH
Confidence 57899999999998779999996 4 478889998885543
No 123
>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=31.47 E-value=35 Score=25.79 Aligned_cols=21 Identities=38% Similarity=0.491 Sum_probs=17.9
Q ss_pred HHHHhhhCCCCCHHHHHHHHH
Q 022439 35 WEKIAADVPGKSLEEIKQHYE 55 (297)
Q Consensus 35 WekIA~~VpGRT~~Qcr~rY~ 55 (297)
-..||..+.|||++|+|+.+.
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 578899999999999999984
No 124
>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=29.64 E-value=1.3e+02 Score=24.56 Aligned_cols=50 Identities=16% Similarity=0.278 Sum_probs=34.4
Q ss_pred CCCHHHHHHHHHHHHHC--------CC--C--C---------------ChhHHHHhhhCCCCCHHHHHHHHHHhhhh
Q 022439 11 VWTKEQDKAFENALVSY--------PE--D--A---------------SDRWEKIAADVPGKSLEEIKQHYELLVDD 60 (297)
Q Consensus 11 ~WT~EEdk~Le~Ala~~--------p~--~--~---------------~~rWekIA~~VpGRT~~Qcr~rY~~l~~d 60 (297)
..|.+||..|..+|.+| +. + . -.-+...+...|..|...=|+||.+++..
T Consensus 1 kfTA~dDY~Lc~~i~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~fF~~~~~~~p~HT~~sWRDR~RKfv~~ 77 (105)
T PF09197_consen 1 KFTADDDYALCKAIKKQFYRDIYQKDPDTGSSLISDGDSKEFIPKRDMRSFFKDLARKNPRHTENSWRDRYRKFVSE 77 (105)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHSB-TTSS-B----------------TTHHHHHHHHTTTS-HHHHHHHHHHTHHH
T ss_pred CCChHHHHHHHHHHHHHHHHHHHhhCcccccccccCCCccccccchhhHHHHHHHHHcCCccchhHHHHHHHHHHHH
Confidence 36999999999988665 11 1 0 22467788899999999999999876543
No 125
>KOG4274 consensus Positive cofactor 2 (PC2), subunit of a multiprotein coactivator of RNA polymerase II [Transcription]
Probab=28.63 E-value=1.7e+02 Score=31.01 Aligned_cols=29 Identities=17% Similarity=0.354 Sum_probs=19.9
Q ss_pred hcCCCCHHHHHHHHHHHHHHHhccCCCCC
Q 022439 151 FVVTRTPTQVASHAQKYFIRLNSMNKDRR 179 (297)
Q Consensus 151 ~v~tRT~~Q~~sh~qky~~r~~~~~k~~r 179 (297)
|.+.||..+..+-.-|+|++.+-..++|.
T Consensus 42 F~K~~tkDEYl~lvAkli~h~~d~s~~ks 70 (742)
T KOG4274|consen 42 FLKAKTKDEYLSLVAKLIIHFRDISNKKS 70 (742)
T ss_pred HHhhhhHHHHHHHHHHHHHHHHhhhhhhh
Confidence 55778887777776778888776554443
No 126
>KOG4672 consensus Uncharacterized conserved low complexity protein [Function unknown]
Probab=28.58 E-value=6.5e+02 Score=25.69 Aligned_cols=8 Identities=50% Similarity=1.049 Sum_probs=3.3
Q ss_pred CCCCCCCC
Q 022439 278 GAPMNVSP 285 (297)
Q Consensus 278 ~~~~~~~~ 285 (297)
|+|.-+.|
T Consensus 371 ~~P~~l~p 378 (487)
T KOG4672|consen 371 GPPHGLSP 378 (487)
T ss_pred CCCCCCCC
Confidence 44444333
No 127
>PLN03162 golden-2 like transcription factor; Provisional
Probab=28.33 E-value=2e+02 Score=28.88 Aligned_cols=53 Identities=17% Similarity=0.224 Sum_probs=39.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCC--CChhHHHHhhhCCCCCHHHHHHHHHHhhhh
Q 022439 7 GSSSVWTKEQDKAFENALVSYPED--ASDRWEKIAADVPGKSLEEIKQHYELLVDD 60 (297)
Q Consensus 7 ~~~~~WT~EEdk~Le~Ala~~p~~--~~~rWekIA~~VpGRT~~Qcr~rY~~l~~d 60 (297)
..+-.||.|=-++|.+||.+.+.+ ++.+--++=. |+|-|.++|+-|.+++.-.
T Consensus 235 KpRLrWTpELH~rFVeAV~qLG~dKATPK~ILelMn-V~GLTRenVKSHLQKYRl~ 289 (526)
T PLN03162 235 KAKVDWTPELHRRFVHAVEQLGVEKAFPSRILELMG-VQCLTRHNIASHLQKYRSH 289 (526)
T ss_pred CCcccCCHHHHHHHHHHHHHhCcCccchHHHHHHcC-CCCcCHHHHHHHHHHHHHh
Confidence 344579999999999999999853 5555544433 6799999999887765544
No 128
>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=26.88 E-value=1.7e+02 Score=19.61 Aligned_cols=43 Identities=14% Similarity=0.138 Sum_probs=26.0
Q ss_pred CHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHHHHH
Q 022439 125 TEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYFIRL 171 (297)
Q Consensus 125 T~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~~r~ 171 (297)
+++|.+.|..-+ ..|. .+..||+ .-+-|...|+.+-.+-+.++
T Consensus 6 ~~~er~vi~~~y-~~~~-t~~eIa~--~lg~s~~~V~~~~~~al~kL 48 (50)
T PF04545_consen 6 PPREREVIRLRY-FEGL-TLEEIAE--RLGISRSTVRRILKRALKKL 48 (50)
T ss_dssp -HHHHHHHHHHH-TST--SHHHHHH--HHTSCHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHh-cCCC-CHHHHHH--HHCCcHHHHHHHHHHHHHHh
Confidence 444444444333 3444 8999995 44568888888766656555
No 129
>COG5201 SKP1 SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, chaperones]
Probab=26.27 E-value=69 Score=27.53 Aligned_cols=21 Identities=33% Similarity=0.537 Sum_probs=17.6
Q ss_pred HHHHhhhCCCCCHHHHHHHHH
Q 022439 35 WEKIAADVPGKSLEEIKQHYE 55 (297)
Q Consensus 35 WekIA~~VpGRT~~Qcr~rY~ 55 (297)
=..||..+.|||.+++++.+.
T Consensus 115 CKivaemirgkSpeeir~tfn 135 (158)
T COG5201 115 CKIVAEMIRGKSPEEIRETFN 135 (158)
T ss_pred HHHHHHHHccCCHHHHHHHhC
Confidence 467899999999999988773
No 130
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=25.32 E-value=5.4e+02 Score=25.77 Aligned_cols=9 Identities=44% Similarity=0.822 Sum_probs=4.3
Q ss_pred CCCCccCCC
Q 022439 229 PGVGMYGAP 237 (297)
Q Consensus 229 ~~~~~~~~~ 237 (297)
|...|||.+
T Consensus 264 P~~t~~G~p 272 (498)
T KOG4849|consen 264 PQQTMLGNP 272 (498)
T ss_pred CccccCCCC
Confidence 445555543
No 131
>KOG4771 consensus Nucleolar protein (NOP16) involved in 60S ribosomal subunit biogenesis [Translation, ribosomal structure and biogenesis]
Probab=23.38 E-value=1.3e+02 Score=27.07 Aligned_cols=29 Identities=24% Similarity=0.327 Sum_probs=24.8
Q ss_pred cCCCCCHHHHHHHHHHHHHhCCCchhhhhh
Q 022439 120 KGIAWTEDEHRLFLLGLDKYGKGDWRSISR 149 (297)
Q Consensus 120 k~~~WT~eEd~~ll~~l~k~G~g~W~~Iar 149 (297)
|.-+=++-||+.|..++++||. ++..+++
T Consensus 152 Kel~~s~rehewi~rL~~KhGd-D~e~M~~ 180 (210)
T KOG4771|consen 152 KELTTSQREHEWIRRLVEKHGD-DIEGMYR 180 (210)
T ss_pred hhcchHHHHHHHHHHHHHHhch-hHHHHHH
Confidence 3446789999999999999997 9998875
No 132
>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=23.27 E-value=1.3e+02 Score=19.91 Aligned_cols=32 Identities=16% Similarity=0.232 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHH
Q 022439 127 DEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVA 161 (297)
Q Consensus 127 eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~ 161 (297)
=|...|.++|++++- +....|+ .+ +=+...+.
T Consensus 5 ~E~~~i~~aL~~~~g-n~~~aA~-~L-gisr~tL~ 36 (42)
T PF02954_consen 5 FEKQLIRQALERCGG-NVSKAAR-LL-GISRRTLY 36 (42)
T ss_dssp HHHHHHHHHHHHTTT--HHHHHH-HH-TS-HHHHH
T ss_pred HHHHHHHHHHHHhCC-CHHHHHH-HH-CCCHHHHH
Confidence 377889999999995 9999996 33 34444443
No 133
>KOG2941 consensus Beta-1,4-mannosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=22.83 E-value=40 Score=33.60 Aligned_cols=48 Identities=19% Similarity=0.310 Sum_probs=30.3
Q ss_pred cCCCCCHHHHH-HHHHHHHHhCCC------chhhhhhhhcCCCCHHHHHHHHHHHHHH
Q 022439 120 KGIAWTEDEHR-LFLLGLDKYGKG------DWRSISRNFVVTRTPTQVASHAQKYFIR 170 (297)
Q Consensus 120 k~~~WT~eEd~-~ll~~l~k~G~g------~W~~Iar~~v~tRT~~Q~~sh~qky~~r 170 (297)
..+.||++||- +||+|++.|+.. +--++- .++.||-+. +.+|-++..+
T Consensus 260 sSTswTpDEdf~ILL~AL~~y~~~~~~~~~~lP~ll-ciITGKGPl--kE~Y~~~I~~ 314 (444)
T KOG2941|consen 260 SSTSWTPDEDFGILLEALVIYEEQLYDKTHNLPSLL-CIITGKGPL--KEKYSQEIHE 314 (444)
T ss_pred ecCCCCCcccHHHHHHHHHhhhhhhhhccCCCCcEE-EEEcCCCch--hHHHHHHHHH
Confidence 45689999997 788999988652 333444 256666653 4444444333
No 134
>PRK03906 mannonate dehydratase; Provisional
Probab=22.81 E-value=93 Score=30.96 Aligned_cols=51 Identities=12% Similarity=0.266 Sum_probs=37.3
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhh-------hCCCCCHHHHHHHHHHhhhhhh
Q 022439 8 SSSVWTKEQDKAFENALVSYPEDASDRWEKIAA-------DVPGKSLEEIKQHYELLVDDVN 62 (297)
Q Consensus 8 ~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~-------~VpGRT~~Qcr~rY~~l~~dv~ 62 (297)
.+..||.||.+.+++.|+.++.. |+.|.+ .+.+-+.++-++.|+..+..+.
T Consensus 36 ~g~~W~~~~i~~~~~~ie~~Gl~----~~vvEs~pv~~~Ik~g~~~rd~~ie~y~~sirnlg 93 (385)
T PRK03906 36 VGEVWPVEEILARKAEIEAAGLE----WSVVESVPVHEDIKTGTPNRDRYIENYKQTLRNLA 93 (385)
T ss_pred CCCCCCHHHHHHHHHHHHHcCCe----EEEEeCCCccHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence 45789999999999999999975 777744 2224555677777776665543
No 135
>TIGR00695 uxuA mannonate dehydratase. This Fe2+-requiring enzyme plays a role in D-glucuronate catabolism in Escherichia coli. Mannonate dehydratase converts D-mannonate to 2-dehydro-3-deoxy-D-gluconate. An apparent equivalog is found in a glucuronate utilization operon in Bacillus stearothermophilus T-6.
Probab=22.21 E-value=1.1e+02 Score=30.58 Aligned_cols=52 Identities=13% Similarity=0.274 Sum_probs=38.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCChhHHHHhh-------hCCCCCHHHHHHHHHHhhhhhh
Q 022439 7 GSSSVWTKEQDKAFENALVSYPEDASDRWEKIAA-------DVPGKSLEEIKQHYELLVDDVN 62 (297)
Q Consensus 7 ~~~~~WT~EEdk~Le~Ala~~p~~~~~rWekIA~-------~VpGRT~~Qcr~rY~~l~~dv~ 62 (297)
..+..||.||...+++.++.++.. |+.|.+ .+.+-..++-++.|+..+..+.
T Consensus 35 p~gevW~~~~i~~~k~~ie~~GL~----~~vvEs~pv~e~Ik~g~~~rd~~Ienyk~~irNla 93 (394)
T TIGR00695 35 PNGEVWEKEEIRKRKEYIESAGLH----WSVVESVPVHEAIKTGTGNYGRWIENYKQTLRNLA 93 (394)
T ss_pred CCCCCCCHHHHHHHHHHHHHcCCe----EEEEeCCCccHHHHcCCCcHHHHHHHHHHHHHHHH
Confidence 345689999999999999999875 877744 2224455667788887766654
No 136
>COG4281 ACB Acyl-CoA-binding protein [Lipid metabolism]
Probab=21.57 E-value=92 Score=24.34 Aligned_cols=29 Identities=34% Similarity=0.606 Sum_probs=24.0
Q ss_pred hHHHHhhhCCCCCHHHHHHHHHHhhhhhhh
Q 022439 34 RWEKIAADVPGKSLEEIKQHYELLVDDVNR 63 (297)
Q Consensus 34 rWekIA~~VpGRT~~Qcr~rY~~l~~dv~~ 63 (297)
.|+.-|. +.|||.+|.++.|..|++.++.
T Consensus 55 K~eAW~~-LKGksqedA~qeYialVeeLka 83 (87)
T COG4281 55 KYEAWAG-LKGKSQEDARQEYIALVEELKA 83 (87)
T ss_pred hHHHHhh-ccCccHHHHHHHHHHHHHHHHh
Confidence 5777665 5799999999999999998753
No 137
>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=21.51 E-value=2.3e+02 Score=22.02 Aligned_cols=45 Identities=16% Similarity=0.191 Sum_probs=28.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHHHHH
Q 022439 123 AWTEDEHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYFIRL 171 (297)
Q Consensus 123 ~WT~eEd~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~~r~ 171 (297)
..++.|..+|.. .-..|. .+..||+ .++ -|...|+++.++-+.++
T Consensus 110 ~L~~~~~~ii~~-~~~~g~-s~~eIA~-~l~-~s~~~v~~~~~~~~~kl 154 (158)
T TIGR02937 110 KLPEREREVLVL-RYLEGL-SYKEIAE-ILG-ISVGTVKRRLKRARKKL 154 (158)
T ss_pred hCCHHHHHHHhh-HHhcCC-CHHHHHH-HHC-CCHHHHHHHHHHHHHHH
Confidence 456666665543 323576 9999996 555 47888887766655554
No 138
>COG3623 SgaU Putative L-xylulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=21.49 E-value=70 Score=30.22 Aligned_cols=30 Identities=33% Similarity=0.432 Sum_probs=24.0
Q ss_pred CCCCCCC---CCCCCCHHHHHHHHHHHHHCCCC
Q 022439 1 MTVDEVG---SSSVWTKEQDKAFENALVSYPED 30 (297)
Q Consensus 1 ~~~~e~~---~~~~WT~EEdk~Le~Ala~~p~~ 30 (297)
||+||.. ++-.||++|...|.+++..++-.
T Consensus 37 mSvDEsDeRLaRLDWs~~er~~l~~ai~etgv~ 69 (287)
T COG3623 37 MSVDESDERLARLDWSKEERLALVNAIQETGVR 69 (287)
T ss_pred EeccchHHHHHhcCCCHHHHHHHHHHHHHhCCC
Confidence 5666654 55689999999999999988764
No 139
>PF00191 Annexin: Annexin; InterPro: IPR018502 The annexins (or lipocortins) are a family of proteins that bind to phospholipids in a calcium-dependent manner []. They are distributed ubiquitously in different tissues and cell types of higher and lower eukaryotes, including mammals, fish, birds, Drosophila melanogaster (Fruit fly), Xenopus laevis (African clawed frog), Caenorhabditis elegans , Dictyostelium discoideum (Slime mold) and Neurospora crassa [, ]. Annexins are absent from yeasts and prokaryotes []. The plant annexins are somewhat distinct from those found in other taxa []. Most eukaryotic species have 1-20 annexin (ANX) genes. All annexins share a core domain made up of four similar repeats, each approximately 70 amino acids long []. Each individual annexin repeat (sometimes referred to as endonexin folds) is folded into five alpha-helices, and in turn are wound into a right-handed super-helix; they usually contain a characteristic 'type 2' motif for binding calcium ions with the sequence 'GxGT-[38 residues]-D/E'. Animal and fungal annexins also have variable amino-terminal domains. The core domains of most vertebrate annexins have been analysed by X-ray crystallography, revealing conservation of their secondary and tertiary structures despite only 45-55% amino-acid identity among individual members. The four repeats pack into a structure that resembles a flattened disc, with a slightly convex surface on which the Ca 2+ -binding loops are located and a concave surface at which the amino and carboxyl termini come into close apposition. Annexins are traditionally thought of as calcium-dependent phospholipid-binding proteins, but recent work suggests a more complex set of functions. The famiy has been linked with inhibition of phospholipase activity, exocytosis and endoctyosis, signal transduction, organisation of the extracellular matrix, resistance to reactive oxygen species and DNA replication [].; GO: 0005509 calcium ion binding, 0005544 calcium-dependent phospholipid binding; PDB: 1N44_A 1BC1_A 2IE6_A 2H0M_A 1A8B_A 2H0K_A 1BCW_A 1BCZ_A 1N42_A 1BC0_A ....
Probab=21.19 E-value=1e+02 Score=21.75 Aligned_cols=40 Identities=25% Similarity=0.378 Sum_probs=29.5
Q ss_pred HHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHHHHH
Q 022439 130 RLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYFIRL 171 (297)
Q Consensus 130 ~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~~r~ 171 (297)
++|-.+++..|...+.-|. .+.+|+..|.+.-.+.|...-
T Consensus 4 ~~l~~a~~~~g~de~~li~--Il~~rs~~ql~~i~~~Y~~~~ 43 (66)
T PF00191_consen 4 ELLHAALKGWGTDEDVLIE--ILCTRSPAQLRAIKQAYKKKY 43 (66)
T ss_dssp HHHHHHHSSSSSTHHHHHH--HHHHSTHHHHHHHHHHHHHHH
T ss_pred HHHHHHccCCCCChhHhhh--HHhhhcccccceeehhhhhhh
Confidence 4778888888874555444 788999999987777665554
No 140
>cd08307 Death_Pelle Death domain of the protein kinase Pelle. Death domain (DD) of the protein kinase Pelle from Drosophila melanogaster and simlar proteins. In Drosophila, interaction between the DDs of Tube and Pelle is an important component of the Toll pathway, which functions in establishing dorsoventral polarity in embryos and in mediating innate immune responses to pathogens. Tube and Pelle transmit the signal from the Toll receptor to the Dorsal/Cactus complex. Pelle also functions in photoreceptor axon targeting. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=20.63 E-value=1.3e+02 Score=24.21 Aligned_cols=29 Identities=21% Similarity=0.379 Sum_probs=18.9
Q ss_pred HHHHHHCCCCCChhHHHHhhhCCCCCHHHHH
Q 022439 21 ENALVSYPEDASDRWEKIAADVPGKSLEEIK 51 (297)
Q Consensus 21 e~Ala~~p~~~~~rWekIA~~VpGRT~~Qcr 51 (297)
.++.+..+.+ +.|+++|..+++-|..|++
T Consensus 12 ~~Lc~lLD~~--~~W~~LA~~i~~ys~~~v~ 40 (97)
T cd08307 12 KQLCALLDTD--NVWEELAFVMMGYSNDDVE 40 (97)
T ss_pred HHHHHHhCCc--CcHHHHHHHHhcCCHHHHH
Confidence 3334444443 5799999999866666653
No 141
>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=20.42 E-value=2.5e+02 Score=22.54 Aligned_cols=41 Identities=20% Similarity=0.223 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHhCCCchhhhhhhhcCCCCHHHHHHHHHHHHHHH
Q 022439 128 EHRLFLLGLDKYGKGDWRSISRNFVVTRTPTQVASHAQKYFIRL 171 (297)
Q Consensus 128 Ed~~ll~~l~k~G~g~W~~Iar~~v~tRT~~Q~~sh~qky~~r~ 171 (297)
+++.++.+.-..|. .+..||+ +-+.|...|+++...-..++
T Consensus 117 ~~r~il~l~~~~~~-~~~eIA~--~lgis~~tv~~~~~ra~~~L 157 (161)
T TIGR02985 117 QCRKIFILSRFEGK-SYKEIAE--ELGISVKTVEYHISKALKEL 157 (161)
T ss_pred HHHHHHHHHHHcCC-CHHHHHH--HHCCCHHHHHHHHHHHHHHH
Confidence 33444444344576 9999995 56689999998865544444
No 142
>PHA00442 host recBCD nuclease inhibitor
Probab=20.08 E-value=1e+02 Score=22.49 Aligned_cols=24 Identities=21% Similarity=0.447 Sum_probs=20.4
Q ss_pred CHHHHHHHHHHHHHhCCCchhhhh
Q 022439 125 TEDEHRLFLLGLDKYGKGDWRSIS 148 (297)
Q Consensus 125 T~eEd~~ll~~l~k~G~g~W~~Ia 148 (297)
+-|-+.-||.+|+-.|..+|.-+.
T Consensus 24 sLek~~~~L~~Lea~GVDNW~Gy~ 47 (59)
T PHA00442 24 SLEKDNEFLKALRACGVDNWDGYM 47 (59)
T ss_pred HHHHhhHHHHHHHHcCCcchhhHH
Confidence 446677899999999999999885
No 143
>KOG2251 consensus Homeobox transcription factor [Transcription]
Probab=20.01 E-value=1.1e+02 Score=28.26 Aligned_cols=34 Identities=21% Similarity=0.367 Sum_probs=28.4
Q ss_pred CCCCCCHHHHHHHHHHHHH--CCCCCChhHHHHhhhCC
Q 022439 8 SSSVWTKEQDKAFENALVS--YPEDASDRWEKIAADVP 43 (297)
Q Consensus 8 ~~~~WT~EEdk~Le~Ala~--~p~~~~~rWekIA~~Vp 43 (297)
.+..+|+++.+.||+++++ |+. ...|+++|..|.
T Consensus 40 ERTtFtr~QlevLe~LF~kTqYPD--v~~rEelAlkln 75 (228)
T KOG2251|consen 40 ERTTFTRKQLEVLEALFAKTQYPD--VFMREELALKLN 75 (228)
T ss_pred ccceecHHHHHHHHHHHHhhcCcc--HHHHHHHHHHhC
Confidence 4567999999999999987 555 357999999987
Done!