Query 021816
Match_columns 307
No_of_seqs 233 out of 1331
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 05:53:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021816.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021816hhsearch_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 1.1E-21 2.5E-26 180.9 12.0 111 10-185 16-127 (249)
2 PLN03091 hypothetical protein; 99.8 8E-21 1.7E-25 186.8 14.2 112 9-185 4-116 (459)
3 KOG0048 Transcription factor, 99.8 1.4E-18 3E-23 160.4 10.2 103 26-186 9-112 (238)
4 KOG0724 Zuotin and related mol 99.5 7.4E-15 1.6E-19 140.8 7.5 198 12-209 12-244 (335)
5 KOG0049 Transcription factor, 99.5 2.2E-14 4.9E-19 146.1 9.6 151 22-181 249-406 (939)
6 TIGR01557 myb_SHAQKYF myb-like 99.5 1.1E-14 2.3E-19 107.5 5.2 51 133-183 2-56 (57)
7 KOG0049 Transcription factor, 99.4 3.7E-13 8E-18 137.4 10.7 100 22-178 356-455 (939)
8 PF00249 Myb_DNA-binding: Myb- 99.4 1.7E-13 3.6E-18 96.7 4.5 45 135-180 2-47 (48)
9 PF00249 Myb_DNA-binding: Myb- 99.2 1.6E-11 3.5E-16 86.5 5.7 46 27-75 2-48 (48)
10 PF13921 Myb_DNA-bind_6: Myb-l 99.2 5.3E-11 1.2E-15 87.0 7.4 42 29-74 1-42 (60)
11 smart00717 SANT SANT SWI3, AD 99.1 6.1E-11 1.3E-15 80.9 4.4 46 135-181 2-47 (49)
12 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 1.1E-10 2.4E-15 78.6 4.6 44 136-180 1-44 (45)
13 smart00717 SANT SANT SWI3, AD 99.0 1.1E-09 2.3E-14 74.7 6.1 46 27-75 2-47 (49)
14 PF13921 Myb_DNA-bind_6: Myb-l 98.9 7.7E-10 1.7E-14 80.8 3.7 42 137-180 1-42 (60)
15 cd00167 SANT 'SWI3, ADA2, N-Co 98.9 4.7E-09 1E-13 70.5 5.9 44 28-74 1-44 (45)
16 PLN03142 Probable chromatin-re 98.8 4.4E-09 9.6E-14 114.5 7.4 133 27-184 825-987 (1033)
17 PLN03212 Transcription repress 98.8 4.2E-09 9E-14 98.0 5.8 49 133-182 24-73 (249)
18 KOG0050 mRNA splicing protein 98.7 1.4E-08 3.1E-13 102.2 6.2 101 25-184 6-106 (617)
19 KOG0051 RNA polymerase I termi 98.7 4.3E-08 9.4E-13 100.8 9.3 103 25-184 383-510 (607)
20 PLN03091 hypothetical protein; 98.6 3.7E-08 8.1E-13 98.0 4.5 48 134-182 14-62 (459)
21 KOG0048 Transcription factor, 98.5 7.6E-08 1.7E-12 89.1 3.8 47 135-182 10-57 (238)
22 COG5147 REB1 Myb superfamily p 98.5 2.4E-07 5.2E-12 94.3 7.2 106 23-186 17-122 (512)
23 KOG0457 Histone acetyltransfer 98.4 2E-07 4.3E-12 92.4 4.4 49 136-185 74-122 (438)
24 KOG0457 Histone acetyltransfer 97.7 7.8E-05 1.7E-09 74.3 6.4 47 26-75 72-118 (438)
25 COG5114 Histone acetyltransfer 97.7 3.3E-05 7.2E-10 74.6 3.6 47 136-183 65-111 (432)
26 TIGR01557 myb_SHAQKYF myb-like 97.6 0.00018 3.8E-09 53.2 6.4 47 26-75 3-54 (57)
27 COG5259 RSC8 RSC chromatin rem 97.6 4.6E-05 1E-09 76.6 3.8 42 135-178 280-321 (531)
28 KOG1279 Chromatin remodeling f 97.3 0.0002 4.3E-09 73.4 4.5 43 134-178 253-295 (506)
29 KOG4167 Predicted DNA-binding 97.3 0.00034 7.4E-09 73.6 6.0 50 25-78 618-667 (907)
30 COG5259 RSC8 RSC chromatin rem 97.3 0.00022 4.8E-09 71.8 4.4 46 25-74 278-323 (531)
31 KOG1194 Predicted DNA-binding 97.2 0.0051 1.1E-07 62.1 12.3 49 135-185 370-418 (534)
32 PF09111 SLIDE: SLIDE; InterP 97.2 0.00047 1E-08 58.1 4.2 50 133-182 48-111 (118)
33 KOG1279 Chromatin remodeling f 97.2 0.00061 1.3E-08 69.8 5.8 49 22-74 249-297 (506)
34 PF13325 MCRS_N: N-terminal re 97.1 0.0051 1.1E-07 56.2 10.2 113 28-179 1-124 (199)
35 KOG0050 mRNA splicing protein 96.6 0.0015 3.2E-08 66.7 2.9 50 132-182 5-54 (617)
36 KOG0051 RNA polymerase I termi 96.5 0.0085 1.8E-07 62.5 8.0 108 25-179 435-565 (607)
37 KOG0385 Chromatin remodeling c 96.4 0.0035 7.5E-08 67.0 4.5 138 26-181 795-956 (971)
38 PF13837 Myb_DNA-bind_4: Myb/S 96.4 0.0052 1.1E-07 47.6 4.4 54 27-80 2-69 (90)
39 KOG4329 DNA-binding protein [G 96.3 0.021 4.6E-07 56.5 8.8 48 135-186 278-325 (445)
40 COG5114 Histone acetyltransfer 96.0 0.011 2.4E-07 57.5 5.2 48 26-76 63-110 (432)
41 COG5147 REB1 Myb superfamily p 95.7 0.014 3E-07 60.1 5.1 52 23-78 69-120 (512)
42 COG5118 BDP1 Transcription ini 95.6 0.018 4E-07 57.1 5.3 67 4-74 341-409 (507)
43 PF09111 SLIDE: SLIDE; InterP 95.0 0.062 1.4E-06 45.3 5.9 55 24-78 47-113 (118)
44 PF13837 Myb_DNA-bind_4: Myb/S 94.4 0.074 1.6E-06 41.0 4.7 49 136-185 3-68 (90)
45 PF13873 Myb_DNA-bind_5: Myb/S 94.3 0.075 1.6E-06 40.4 4.5 54 26-79 2-73 (78)
46 PF08914 Myb_DNA-bind_2: Rap1 94.0 0.074 1.6E-06 40.3 3.8 49 135-183 3-59 (65)
47 KOG4329 DNA-binding protein [G 92.4 0.21 4.6E-06 49.6 5.1 48 24-75 275-323 (445)
48 PLN03162 golden-2 like transcr 92.1 0.32 7E-06 48.5 6.0 56 130-185 233-291 (526)
49 PF12776 Myb_DNA-bind_3: Myb/S 91.3 0.5 1.1E-05 36.9 5.3 52 28-79 1-66 (96)
50 COG5118 BDP1 Transcription ini 89.7 0.48 1E-05 47.4 4.6 46 131-178 362-407 (507)
51 KOG4468 Polycomb-group transcr 88.7 0.56 1.2E-05 49.3 4.6 50 135-185 89-147 (782)
52 PF13873 Myb_DNA-bind_5: Myb/S 88.4 1.5 3.3E-05 33.1 5.8 49 136-184 4-72 (78)
53 KOG3554 Histone deacetylase co 88.2 0.45 9.7E-06 48.8 3.4 43 134-177 285-327 (693)
54 KOG4167 Predicted DNA-binding 87.6 1.9 4.1E-05 46.5 7.6 41 135-177 620-660 (907)
55 PRK13923 putative spore coat p 87.6 0.7 1.5E-05 41.4 3.9 51 25-76 4-57 (170)
56 TIGR02894 DNA_bind_RsfA transc 87.5 0.69 1.5E-05 41.1 3.7 50 26-76 4-56 (161)
57 KOG2656 DNA methyltransferase 86.9 0.53 1.1E-05 47.2 3.0 48 27-78 131-184 (445)
58 KOG1878 Nuclear receptor coreg 85.9 0.44 9.5E-06 54.3 2.1 44 25-72 224-267 (1672)
59 TIGR02894 DNA_bind_RsfA transc 85.8 0.81 1.8E-05 40.7 3.3 49 135-185 5-59 (161)
60 KOG4468 Polycomb-group transcr 84.1 2 4.3E-05 45.4 5.7 54 25-82 87-150 (782)
61 PF08914 Myb_DNA-bind_2: Rap1 83.0 3 6.6E-05 31.6 4.9 51 26-76 2-58 (65)
62 PF12776 Myb_DNA-bind_3: Myb/S 82.9 3.1 6.7E-05 32.3 5.2 48 136-184 1-64 (96)
63 KOG3554 Histone deacetylase co 82.8 1.5 3.2E-05 45.1 4.1 45 27-75 286-331 (693)
64 PLN03142 Probable chromatin-re 81.2 1.9 4.1E-05 48.4 4.5 47 136-183 826-872 (1033)
65 PF11035 SnAPC_2_like: Small n 79.7 7.3 0.00016 38.3 7.4 56 23-79 18-74 (344)
66 KOG4282 Transcription factor G 77.0 6.5 0.00014 38.1 6.4 54 26-79 54-117 (345)
67 KOG3841 TEF-1 and related tran 75.0 3.9 8.4E-05 41.1 4.2 51 133-184 75-145 (455)
68 KOG0724 Zuotin and related mol 74.7 0.71 1.5E-05 44.5 -1.0 49 136-186 55-103 (335)
69 PF13404 HTH_AsnC-type: AsnC-t 74.4 8.9 0.00019 26.4 4.8 40 32-75 3-42 (42)
70 smart00595 MADF subfamily of S 73.6 3.5 7.5E-05 31.7 2.9 26 51-77 29-54 (89)
71 KOG4282 Transcription factor G 72.7 4.6 0.0001 39.1 4.2 51 135-185 55-117 (345)
72 KOG1194 Predicted DNA-binding 72.4 6.1 0.00013 40.6 5.0 40 136-177 189-228 (534)
73 PRK13923 putative spore coat p 72.0 4.3 9.2E-05 36.5 3.4 50 135-184 6-59 (170)
74 COG1549 Queuine tRNA-ribosyltr 69.5 2.9 6.3E-05 43.3 2.0 50 3-61 287-336 (519)
75 KOG0384 Chromodomain-helicase 68.8 2.5 5.4E-05 47.9 1.5 29 133-161 1132-1160(1373)
76 smart00426 TEA TEA domain. 67.6 7 0.00015 30.1 3.3 23 136-158 5-27 (68)
77 KOG2009 Transcription initiati 67.0 5.7 0.00012 41.9 3.6 48 22-73 405-452 (584)
78 PF11626 Rap1_C: TRF2-interact 66.7 6.8 0.00015 30.9 3.2 16 24-39 45-60 (87)
79 KOG3841 TEF-1 and related tran 65.4 15 0.00033 37.0 6.0 54 24-77 74-144 (455)
80 PF04504 DUF573: Protein of un 64.8 10 0.00022 30.8 3.9 47 136-183 6-64 (98)
81 PF05263 DUF722: Protein of un 58.8 22 0.00047 30.6 5.1 36 43-79 93-128 (130)
82 PF06461 DUF1086: Domain of Un 58.6 28 0.00061 30.6 5.8 51 136-187 40-92 (145)
83 PRK11179 DNA-binding transcrip 57.7 26 0.00056 30.0 5.5 41 32-76 9-49 (153)
84 PF04504 DUF573: Protein of un 55.6 27 0.00058 28.3 4.9 51 26-76 4-63 (98)
85 cd00086 homeodomain Homeodomai 53.1 64 0.0014 22.2 6.1 48 25-73 3-50 (59)
86 PF01285 TEA: TEA/ATTS domain 52.4 13 0.00029 37.9 3.2 46 134-180 49-112 (431)
87 PF08281 Sigma70_r4_2: Sigma-7 51.9 31 0.00068 23.9 4.2 41 139-182 12-52 (54)
88 PF11035 SnAPC_2_like: Small n 51.7 45 0.00098 33.0 6.5 51 132-183 19-72 (344)
89 PRK11169 leucine-responsive tr 50.5 33 0.00071 29.8 5.0 42 31-76 13-54 (164)
90 PF08074 CHDCT2: CHDCT2 (NUC03 50.4 7.6 0.00016 34.8 1.0 26 136-161 5-30 (173)
91 smart00389 HOX Homeodomain. DN 47.8 83 0.0018 21.6 5.9 46 26-72 4-49 (56)
92 PF00046 Homeobox: Homeobox do 47.8 55 0.0012 22.8 5.0 47 25-72 3-49 (57)
93 PF09420 Nop16: Ribosome bioge 46.9 45 0.00097 29.2 5.3 48 132-180 112-162 (164)
94 PF10545 MADF_DNA_bdg: Alcohol 46.9 21 0.00046 26.4 2.9 28 51-78 28-56 (85)
95 PF13325 MCRS_N: N-terminal re 45.8 56 0.0012 30.1 5.9 51 25-76 72-127 (199)
96 KOG2656 DNA methyltransferase 43.4 38 0.00083 34.3 4.7 49 135-184 131-184 (445)
97 PF13404 HTH_AsnC-type: AsnC-t 39.0 47 0.001 22.7 3.3 39 140-180 3-41 (42)
98 smart00344 HTH_ASNC helix_turn 34.7 1.1E+02 0.0024 23.9 5.5 41 32-76 3-43 (108)
99 KOG2009 Transcription initiati 33.9 49 0.0011 35.1 4.0 44 132-177 407-450 (584)
100 PRK11179 DNA-binding transcrip 30.7 75 0.0016 27.1 4.1 39 140-180 9-47 (153)
101 smart00426 TEA TEA domain. 28.5 97 0.0021 23.9 3.8 22 26-47 3-24 (68)
102 PF07750 GcrA: GcrA cell cycle 27.8 81 0.0018 27.8 3.9 42 28-74 2-43 (162)
103 KOG0385 Chromatin remodeling c 27.3 81 0.0018 35.0 4.4 48 136-185 797-844 (971)
104 TIGR00695 uxuA mannonate dehyd 26.7 1.1E+02 0.0025 30.9 5.1 51 24-79 35-93 (394)
105 PF00674 DUP: DUP family; Int 26.3 61 0.0013 26.4 2.6 27 34-60 44-70 (108)
106 PRK11169 leucine-responsive tr 25.9 82 0.0018 27.3 3.5 40 139-180 13-52 (164)
107 PF01285 TEA: TEA/ATTS domain 25.5 74 0.0016 32.5 3.6 50 25-74 48-112 (431)
108 PRK03906 mannonate dehydratase 24.5 1.3E+02 0.0028 30.3 5.1 51 24-79 35-93 (385)
109 COG5269 ZUO1 Ribosome-associat 23.8 99 0.0021 30.3 3.8 51 26-76 245-301 (379)
110 COG1312 UxuA D-mannonate dehyd 23.8 1.3E+02 0.0029 30.1 4.8 54 21-79 32-93 (362)
111 PF02509 Rota_NS35: Rotavirus 23.1 72 0.0016 30.9 2.8 52 136-195 196-256 (316)
112 PF01466 Skp1: Skp1 family, di 22.0 69 0.0015 24.5 2.0 21 52-72 36-56 (78)
113 PF04545 Sigma70_r4: Sigma-70, 21.6 2.7E+02 0.0058 18.9 5.7 27 51-78 22-48 (50)
114 COG1522 Lrp Transcriptional re 21.2 2.5E+02 0.0054 23.2 5.5 41 32-76 8-48 (154)
115 PF09197 Rap1-DNA-bind: Rap1, 20.1 4.6E+02 0.01 21.8 6.6 49 29-77 2-77 (105)
No 1
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.86 E-value=1.1e-21 Score=180.91 Aligned_cols=111 Identities=16% Similarity=0.230 Sum_probs=96.0
Q ss_pred CCcccCCCccccCCCCCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhC-CCCCHHHHHHHHHHHHHhhhhhhhcCCCC
Q 021816 10 PASYISSSNWLLEESKSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMI-PGKTVVDVIKQYKELEADISNIEAGLIPL 88 (307)
Q Consensus 10 p~~~~~~~~w~~~~~~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~v-PGRT~~qc~~rY~~L~~dV~~IEsG~v~~ 88 (307)
|||+. ..-.++.||+|||++|.++|++|+.. +|..||..+ ++||.+||++||...+.
T Consensus 16 pcc~K-------~glKRg~WT~EEDe~L~~lV~kyG~~---nW~~IAk~~g~gRT~KQCReRW~N~L~------------ 73 (249)
T PLN03212 16 PCCTK-------MGMKRGPWTVEEDEILVSFIKKEGEG---RWRSLPKRAGLLRCGKSCRLRWMNYLR------------ 73 (249)
T ss_pred CCccc-------CCCcCCCCCHHHHHHHHHHHHHhCcc---cHHHHHHhhhcCCCcchHHHHHHHhhc------------
Confidence 66665 23357789999999999999999965 599999988 59999999999998876
Q ss_pred CCCCCCCCcchhhhccCCCCCCCCccccCCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCchhcchhcccCCC
Q 021816 89 PGYGNSSPFTLEWVNNHGYDGFKHPYAVGGKRSSSVRPAEHERKKGVPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSR 168 (307)
Q Consensus 89 P~y~~~s~f~l~~~~~~~~dg~k~~~~~ggkr~~~~rs~~~erkKg~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tR 168 (307)
|.+. ..+||+|||++||+++.+||. +|..||+ +|++|
T Consensus 74 P~I~-----------------------------------------kgpWT~EED~lLlel~~~~Gn-KWs~IAk-~LpGR 110 (249)
T PLN03212 74 PSVK-----------------------------------------RGGITSDEEDLILRLHRLLGN-RWSLIAG-RIPGR 110 (249)
T ss_pred hhcc-----------------------------------------cCCCChHHHHHHHHHHHhccc-cHHHHHh-hcCCC
Confidence 4432 248999999999999999998 9999997 99999
Q ss_pred CHHHHHHHHHHHHHHHh
Q 021816 169 TPTQVASHAQKYFIRQL 185 (307)
Q Consensus 169 T~~Qv~sh~qky~~r~~ 185 (307)
|+.||++||..++++..
T Consensus 111 TDnqIKNRWns~LrK~l 127 (249)
T PLN03212 111 TDNEIKNYWNTHLRKKL 127 (249)
T ss_pred CHHHHHHHHHHHHhHHH
Confidence 99999999998877654
No 2
>PLN03091 hypothetical protein; Provisional
Probab=99.85 E-value=8e-21 Score=186.77 Aligned_cols=112 Identities=14% Similarity=0.295 Sum_probs=97.8
Q ss_pred CCCcccCCCccccCCCCCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCC-CCCHHHHHHHHHHHHHhhhhhhhcCCC
Q 021816 9 SPASYISSSNWLLEESKSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIP-GKTVVDVIKQYKELEADISNIEAGLIP 87 (307)
Q Consensus 9 ~p~~~~~~~~w~~~~~~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vP-GRT~~qc~~rY~~L~~dV~~IEsG~v~ 87 (307)
+||||. +.-.++.||+|||++|+++|.+|+.. .|..||..++ |||.+||++||...++
T Consensus 4 ~~Cc~K-------qklrKg~WTpEEDe~L~~~V~kyG~~---nWs~IAk~~g~gRT~KQCRERW~NyLd----------- 62 (459)
T PLN03091 4 HSCCYK-------QKLRKGLWSPEEDEKLLRHITKYGHG---CWSSVPKQAGLQRCGKSCRLRWINYLR----------- 62 (459)
T ss_pred CccCcC-------CCCcCCCCCHHHHHHHHHHHHHhCcC---CHHHHhhhhccCcCcchHhHHHHhccC-----------
Confidence 478887 55677899999999999999999975 5999999885 8999999999998765
Q ss_pred CCCCCCCCCcchhhhccCCCCCCCCccccCCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCchhcchhcccCC
Q 021816 88 LPGYGNSSPFTLEWVNNHGYDGFKHPYAVGGKRSSSVRPAEHERKKGVPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTS 167 (307)
Q Consensus 88 ~P~y~~~s~f~l~~~~~~~~dg~k~~~~~ggkr~~~~rs~~~erkKg~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~t 167 (307)
|.+ +.++||+|||++||+++++||. +|..||+ +|++
T Consensus 63 -P~I-----------------------------------------kKgpWT~EED~lLLeL~k~~Gn-KWskIAk-~LPG 98 (459)
T PLN03091 63 -PDL-----------------------------------------KRGTFSQQEENLIIELHAVLGN-RWSQIAA-QLPG 98 (459)
T ss_pred -Ccc-----------------------------------------cCCCCCHHHHHHHHHHHHHhCc-chHHHHH-hcCC
Confidence 433 1248999999999999999998 9999997 9999
Q ss_pred CCHHHHHHHHHHHHHHHh
Q 021816 168 RTPTQVASHAQKYFIRQL 185 (307)
Q Consensus 168 RT~~Qv~sh~qky~~r~~ 185 (307)
||+.||++||...++|..
T Consensus 99 RTDnqIKNRWnslLKKkl 116 (459)
T PLN03091 99 RTDNEIKNLWNSCLKKKL 116 (459)
T ss_pred CCHHHHHHHHHHHHHHHH
Confidence 999999999998777654
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.77 E-value=1.4e-18 Score=160.36 Aligned_cols=103 Identities=17% Similarity=0.244 Sum_probs=92.7
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCC-CCCHHHHHHHHHHHHHhhhhhhhcCCCCCCCCCCCCcchhhhcc
Q 021816 26 STRWTAAENKMFENALAVYDKDSPDRWQKVAAMIP-GKTVVDVIKQYKELEADISNIEAGLIPLPGYGNSSPFTLEWVNN 104 (307)
Q Consensus 26 ~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vP-GRT~~qc~~rY~~L~~dV~~IEsG~v~~P~y~~~s~f~l~~~~~ 104 (307)
.+.||+|||.+|.+.|..|+.+ +|..||..++ +|+-++|+.||...+. |++
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~---~W~~i~k~~gl~R~GKSCRlRW~NyLr------------P~i------------- 60 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKH---NGTALPKLAGLRRCGKSCRLRWTNYLR------------PDL------------- 60 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCC---CcchhhhhcCCCccchHHHHHhhcccC------------CCc-------------
Confidence 5899999999999999999987 5999999999 9999999999987654 332
Q ss_pred CCCCCCCCccccCCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHHHHHH
Q 021816 105 HGYDGFKHPYAVGGKRSSSVRPAEHERKKGVPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKYFIRQ 184 (307)
Q Consensus 105 ~~~dg~k~~~~~ggkr~~~~rs~~~erkKg~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky~~r~ 184 (307)
|++.||+|||++|+++..+||. +|..||+ ++||||+..|++||.-.++|.
T Consensus 61 ----------------------------krg~fT~eEe~~Ii~lH~~~GN-rWs~IA~-~LPGRTDNeIKN~Wnt~lkkk 110 (238)
T KOG0048|consen 61 ----------------------------KRGNFSDEEEDLIIKLHALLGN-RWSLIAG-RLPGRTDNEVKNHWNTHLKKK 110 (238)
T ss_pred ----------------------------cCCCCCHHHHHHHHHHHHHHCc-HHHHHHh-hCCCcCHHHHHHHHHHHHHHH
Confidence 3358999999999999999999 9999997 999999999999999887776
Q ss_pred hc
Q 021816 185 LS 186 (307)
Q Consensus 185 ~s 186 (307)
..
T Consensus 111 l~ 112 (238)
T KOG0048|consen 111 LL 112 (238)
T ss_pred HH
Confidence 54
No 4
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=7.4e-15 Score=140.79 Aligned_cols=198 Identities=44% Similarity=0.618 Sum_probs=153.5
Q ss_pred cccCCCccccCCCCC-----CCCCHHHHHHHHHHHHHhCCC----CChhHHHHHhhCCC-CCHHHHHHHHHHHHHhhhhh
Q 021816 12 SYISSSNWLLEESKS-----TRWTAAENKMFENALAVYDKD----SPDRWQKVAAMIPG-KTVVDVIKQYKELEADISNI 81 (307)
Q Consensus 12 ~~~~~~~w~~~~~~~-----~~WT~EEdk~Le~Ala~y~~~----tpdRW~kIAa~vPG-RT~~qc~~rY~~L~~dV~~I 81 (307)
+|..+..|.+++... ..|++++++.|++|++.+... ++++|++++..||+ ++..+++.+|..+..+|..+
T Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~i~ka~~i~~~~~~~~t~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~v~~~ 91 (335)
T KOG0724|consen 12 AYREMALKSHPEKKSFYEKLSLWTEEEFKKIEKALAILDDDEPRRTPDSWDKFAEALPLEKRLEDKIEEYIGLVFDVNIR 91 (335)
T ss_pred HHHHHhhhcCcHHHHHHHHhhhhHHHHHHHHHHHHHHHhccccccchhhhhHHHhcCccccccchhHHhhhhhHHHHhhh
Confidence 455566777776543 669999999999999999865 78999999999999 99999999999999999999
Q ss_pred hhcCCCCCCCCCCC---C----cchhhhcc---CCCCCCCCcc-c-cCCCCCCC--------CCcccccccCCCCCCHHH
Q 021816 82 EAGLIPLPGYGNSS---P----FTLEWVNN---HGYDGFKHPY-A-VGGKRSSS--------VRPAEHERKKGVPWTEEE 141 (307)
Q Consensus 82 EsG~v~~P~y~~~s---~----f~l~~~~~---~~~dg~k~~~-~-~ggkr~~~--------~rs~~~erkKg~pWT~EE 141 (307)
+++.+++|.|...+ . +...|... ..|....... . .+.+.... ....+..++++.+|++.+
T Consensus 92 ~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~k~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 171 (335)
T KOG0724|consen 92 ESGQKPFPKYGKSDTSLAEVEEFYNFWPKFKSWRQYPQKDEPDEEDSENRSQSRYSGGTQRGKSNAEELRRKGTPVTERE 171 (335)
T ss_pred hccCCCccccCccccccccccccCCccccccccccCCCCCCcccccccchhhhhhcccccccccchhhhhhccchhHHHH
Confidence 99999999997521 0 22222211 1222211000 0 01111111 122455667889999999
Q ss_pred HHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHH-----HHHHHHhcCCCCCCCCCCccccccccCCCCC
Q 021816 142 HKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQ-----KYFIRQLSGGKDKRRASIHDITTVNLNETRT 209 (307)
Q Consensus 142 d~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~q-----ky~~r~~s~~k~~~r~s~hdit~~~~~~~~~ 209 (307)
+++++.++.++|++.|..|+++++..|++.|+.+|++ +|+.+.....+++++.++||++.+..-....
T Consensus 172 ~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~s~a~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~ 244 (335)
T KOG0724|consen 172 RKLVLLALKKDGKIDWRKISQNVEKERTPEQVASHAQEKAFEKALARQKSGEEEKRRKSIEDITTASEAEDRK 244 (335)
T ss_pred HHHHHhhhcccccccceechhhhhhhhcchhhhhhhhhhhhHHHHHHHhhhccccccchhhhhhccchhhhhh
Confidence 9999999999999999999999999999999999999 9999999888999999999999987666533
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.53 E-value=2.2e-14 Score=146.10 Aligned_cols=151 Identities=13% Similarity=0.212 Sum_probs=101.1
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCC-CCHHHHHHHHHHHHHhhhhhhhcCCCCCCCCCCCCcchh
Q 021816 22 EESKSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPG-KTVVDVIKQYKELEADISNIEAGLIPLPGYGNSSPFTLE 100 (307)
Q Consensus 22 ~~~~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPG-RT~~qc~~rY~~L~~dV~~IEsG~v~~P~y~~~s~f~l~ 100 (307)
.+.+...|+.||++.|....+.++-- .|++||+.++. |+..||..+|+.-+.-+...|...-.--.+.. ..+
T Consensus 249 P~~nk~~WS~EE~E~L~AiA~A~~~~---~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~a----lV~ 321 (939)
T KOG0049|consen 249 PKWNKEHWSNEEVEKLKALAEAPKFV---SWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIA----LVK 321 (939)
T ss_pred CccchhccChHHHHHHHHHHhccccc---cHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHH----HHH
Confidence 45567789999999998765555543 59999999987 99999999998766655554432111000000 000
Q ss_pred hhccCCCCCCCCc-cccCCCCCCC-----CCcccccccCCCCCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHH
Q 021816 101 WVNNHGYDGFKHP-YAVGGKRSSS-----VRPAEHERKKGVPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVA 174 (307)
Q Consensus 101 ~~~~~~~dg~k~~-~~~ggkr~~~-----~rs~~~erkKg~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~ 174 (307)
.........++.+ +.+.|+.... +...++..++ ++||.+||.+|+.+|.+||..+|.+|.. .||+|+..||+
T Consensus 322 ~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikh-g~wt~~ED~~L~~AV~~Yg~kdw~k~R~-~vPnRSdsQcR 399 (939)
T KOG0049|consen 322 ITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKH-GRWTDQEDVLLVCAVSRYGAKDWAKVRQ-AVPNRSDSQCR 399 (939)
T ss_pred HhhccCccchHHHHHhcCCcchhhhhhhheeccCccccC-CCCCCHHHHHHHHHHHHhCccchhhHHH-hcCCccHHHHH
Confidence 0011122333333 3344443322 2344555555 5999999999999999999889999997 99999999999
Q ss_pred HHHHHHH
Q 021816 175 SHAQKYF 181 (307)
Q Consensus 175 sh~qky~ 181 (307)
.+|.+.+
T Consensus 400 ~RY~nvL 406 (939)
T KOG0049|consen 400 ERYTNVL 406 (939)
T ss_pred HHHHHHH
Confidence 9865543
No 6
>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=99.53 E-value=1.1e-14 Score=107.50 Aligned_cols=51 Identities=43% Similarity=0.665 Sum_probs=46.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCch---hcchhcccCCC-CHHHHHHHHHHHHHH
Q 021816 133 KGVPWTEEEHKLFLLGLKKHGKGDW---RNISRNFVTSR-TPTQVASHAQKYFIR 183 (307)
Q Consensus 133 Kg~pWT~EEd~llL~~l~kyG~G~W---~~Ia~~~v~tR-T~~Qv~sh~qky~~r 183 (307)
++..||+|||.+||+||+.||.|+| +.|+..++.+| |..||+||+||||.+
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~k 56 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLK 56 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHcc
Confidence 4568999999999999999999999 99998666678 999999999999976
No 7
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.44 E-value=3.7e-13 Score=137.37 Aligned_cols=100 Identities=24% Similarity=0.469 Sum_probs=87.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHHHhhhhhhhcCCCCCCCCCCCCcchhh
Q 021816 22 EESKSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELEADISNIEAGLIPLPGYGNSSPFTLEW 101 (307)
Q Consensus 22 ~~~~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~~dV~~IEsG~v~~P~y~~~s~f~l~~ 101 (307)
.....+.||.+||.+|..||+.|++.. |.+|-+.||||+..||+.||...+.- .
T Consensus 356 Psikhg~wt~~ED~~L~~AV~~Yg~kd---w~k~R~~vPnRSdsQcR~RY~nvL~~--------------s--------- 409 (939)
T KOG0049|consen 356 PSVKHGRWTDQEDVLLVCAVSRYGAKD---WAKVRQAVPNRSDSQCRERYTNVLNR--------------S--------- 409 (939)
T ss_pred ccccCCCCCCHHHHHHHHHHHHhCccc---hhhHHHhcCCccHHHHHHHHHHHHHH--------------h---------
Confidence 456788999999999999999999874 99999999999999999999987761 0
Q ss_pred hccCCCCCCCCccccCCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHH
Q 021816 102 VNNHGYDGFKHPYAVGGKRSSSVRPAEHERKKGVPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQ 178 (307)
Q Consensus 102 ~~~~~~dg~k~~~~~ggkr~~~~rs~~~erkKg~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~q 178 (307)
.|.+.||-.||+.||.+|++||.|+|-+||. ++|.||..|..++-.
T Consensus 410 ------------------------------~K~~rW~l~edeqL~~~V~~YG~g~WakcA~-~Lp~~t~~q~~rrR~ 455 (939)
T KOG0049|consen 410 ------------------------------AKVERWTLVEDEQLLYAVKVYGKGNWAKCAM-LLPKKTSRQLRRRRL 455 (939)
T ss_pred ------------------------------hccCceeecchHHHHHHHHHHccchHHHHHH-HccccchhHHHHHHH
Confidence 1335899999999999999999999999997 999999977665433
No 8
>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=99.42 E-value=1.7e-13 Score=96.75 Aligned_cols=45 Identities=40% Similarity=0.677 Sum_probs=41.0
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhcchhcccC-CCCHHHHHHHHHHH
Q 021816 135 VPWTEEEHKLFLLGLKKHGKGDWRNISRNFVT-SRTPTQVASHAQKY 180 (307)
Q Consensus 135 ~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~-tRT~~Qv~sh~qky 180 (307)
.+||+|||++|+++|++||.++|..||. +|+ +||+.||++||++|
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~-~~~~~Rt~~qc~~~~~~~ 47 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYGKDNWKKIAK-RMPGGRTAKQCRSRYQNL 47 (48)
T ss_dssp -SS-HHHHHHHHHHHHHSTTTHHHHHHH-HHSSSSTHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHhCCcHHHHHHH-HcCCCCCHHHHHHHHHhh
Confidence 3799999999999999999966999997 888 99999999999987
No 9
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.23 E-value=1.6e-11 Score=86.54 Aligned_cols=46 Identities=33% Similarity=0.672 Sum_probs=41.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCC-CCCHHHHHHHHHHHH
Q 021816 27 TRWTAAENKMFENALAVYDKDSPDRWQKVAAMIP-GKTVVDVIKQYKELE 75 (307)
Q Consensus 27 ~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vP-GRT~~qc~~rY~~L~ 75 (307)
..||+||+++|.+||.+||.+ +|..||..|| |||..||+.||..++
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g~~---~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYGKD---NWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp -SS-HHHHHHHHHHHHHSTTT---HHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCHHHHHHHHHHHHHhCCc---HHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 579999999999999999976 6999999999 999999999998763
No 10
>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=99.20 E-value=5.3e-11 Score=87.02 Aligned_cols=42 Identities=19% Similarity=0.525 Sum_probs=36.5
Q ss_pred CCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHH
Q 021816 29 WTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKEL 74 (307)
Q Consensus 29 WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L 74 (307)
||+|||.+|..++..|+. +|..||.+|+.||..+|+.||...
T Consensus 1 WT~eEd~~L~~~~~~~g~----~W~~Ia~~l~~Rt~~~~~~r~~~~ 42 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN----DWKKIAEHLGNRTPKQCRNRWRNH 42 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-----HHHHHHHSTTS-HHHHHHHHHHT
T ss_pred CCHHHHHHHHHHHHHHCc----CHHHHHHHHCcCCHHHHHHHHHHH
Confidence 999999999999999985 499999999669999999999983
No 11
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.13 E-value=6.1e-11 Score=80.91 Aligned_cols=46 Identities=33% Similarity=0.559 Sum_probs=42.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHHH
Q 021816 135 VPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKYF 181 (307)
Q Consensus 135 ~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky~ 181 (307)
.+||+||+.+|+.++.+||.++|..||. .+++||+.+|+.+|..++
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 4799999999999999999559999997 999999999999998764
No 12
>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=99.10 E-value=1.1e-10 Score=78.56 Aligned_cols=44 Identities=41% Similarity=0.764 Sum_probs=41.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHH
Q 021816 136 PWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKY 180 (307)
Q Consensus 136 pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky 180 (307)
+||+||+++|+.++.+||.++|..||+ ++++||..||+.||+++
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 599999999999999999559999997 99999999999999865
No 13
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.99 E-value=1.1e-09 Score=74.67 Aligned_cols=46 Identities=26% Similarity=0.645 Sum_probs=42.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHH
Q 021816 27 TRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELE 75 (307)
Q Consensus 27 ~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~ 75 (307)
..||+||+++|..+++.|+.. +|..||..||+||..||+.+|..+.
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~~---~w~~Ia~~~~~rt~~~~~~~~~~~~ 47 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGKN---NWEKIAKELPGRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCcC---CHHHHHHHcCCCCHHHHHHHHHHHc
Confidence 579999999999999999942 4999999999999999999998765
No 14
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=98.93 E-value=7.7e-10 Score=80.83 Aligned_cols=42 Identities=38% Similarity=0.693 Sum_probs=36.5
Q ss_pred CCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHH
Q 021816 137 WTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKY 180 (307)
Q Consensus 137 WT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky 180 (307)
||+|||++|+.++++||. +|..||. +++.||+.||+.||.++
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 999999999999999997 9999997 88889999999998863
No 15
>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=98.88 E-value=4.7e-09 Score=70.52 Aligned_cols=44 Identities=30% Similarity=0.721 Sum_probs=40.4
Q ss_pred CCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHH
Q 021816 28 RWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKEL 74 (307)
Q Consensus 28 ~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L 74 (307)
.||+||++.|..+++.|+.. +|..||..||+||..||+.+|..+
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 59999999999999999943 499999999999999999999865
No 16
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=98.84 E-value=4.4e-09 Score=114.53 Aligned_cols=133 Identities=25% Similarity=0.420 Sum_probs=97.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHHHh----------hhhhhhcCCCCCCCCC---
Q 021816 27 TRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELEAD----------ISNIEAGLIPLPGYGN--- 93 (307)
Q Consensus 27 ~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~~d----------V~~IEsG~v~~P~y~~--- 93 (307)
..||+.|-..|.+|+++||.+ ....||..|.|||+.+|+++++.++.. ++.||.|...+-....
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~---~~~~i~~~~~~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~ 901 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRN---DIKSIASEMEGKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMK 901 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHh---HHHHHHHHhcCCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 569999999999999999976 499999999999999999887777654 4567777543321110
Q ss_pred -----CCCcchhhhccC-CCCCCCCccccCCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCchhcch------
Q 021816 94 -----SSPFTLEWVNNH-GYDGFKHPYAVGGKRSSSVRPAEHERKKGVPWTEEEHKLFLLGLKKHGKGDWRNIS------ 161 (307)
Q Consensus 94 -----~s~f~l~~~~~~-~~dg~k~~~~~ggkr~~~~rs~~~erkKg~pWT~EEd~llL~~l~kyG~G~W~~Ia------ 161 (307)
.+.+..+|.... .|.. .++..+|+|||+.||..+.+||.|+|..|.
T Consensus 902 ~~~~k~~~~~~p~~~l~~~~~~----------------------~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~ 959 (1033)
T PLN03142 902 AIGKKLDRYKNPWLELKIQYGQ----------------------NKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTS 959 (1033)
T ss_pred HHHHHHHHccCcHHHceeecCC----------------------CCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhC
Confidence 011112222111 1110 234579999999999999999999999995
Q ss_pred -----hcccCCCCHHHHHHHHHHHHHHH
Q 021816 162 -----RNFVTSRTPTQVASHAQKYFIRQ 184 (307)
Q Consensus 162 -----~~~v~tRT~~Qv~sh~qky~~r~ 184 (307)
.+|+.+||+.++..|+.-++.-.
T Consensus 960 ~~f~fd~~~~srt~~~~~~r~~~l~~~~ 987 (1033)
T PLN03142 960 PLFRFDWFVKSRTPQELARRCDTLIRLI 987 (1033)
T ss_pred CceeeehhhccCCHHHHHHHHHHHHHHH
Confidence 57889999999999998554443
No 17
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.83 E-value=4.2e-09 Score=98.01 Aligned_cols=49 Identities=29% Similarity=0.523 Sum_probs=44.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCchhcchhccc-CCCCHHHHHHHHHHHHH
Q 021816 133 KGVPWTEEEHKLFLLGLKKHGKGDWRNISRNFV-TSRTPTQVASHAQKYFI 182 (307)
Q Consensus 133 Kg~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v-~tRT~~Qv~sh~qky~~ 182 (307)
+..+||+|||++|+.+|++||..+|..||+ .+ ++||+.||+.||.+|+.
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 445899999999999999999889999997 66 69999999999998874
No 18
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.73 E-value=1.4e-08 Score=102.16 Aligned_cols=101 Identities=24% Similarity=0.466 Sum_probs=87.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHHHhhhhhhhcCCCCCCCCCCCCcchhhhcc
Q 021816 25 KSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELEADISNIEAGLIPLPGYGNSSPFTLEWVNN 104 (307)
Q Consensus 25 ~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~~dV~~IEsG~v~~P~y~~~s~f~l~~~~~ 104 (307)
.++.|+.-||..|..||.+||++ .|.+||..++-+|+.||..+|.+.++ |.+
T Consensus 6 kggvwrntEdeilkaav~kyg~n---qws~i~sll~~kt~rqC~~rw~e~ld------------p~i------------- 57 (617)
T KOG0050|consen 6 KGGVWRNTEDEVLKAAVMKYGKN---QWSRIASLLNRKTARQCKARWEEWLD------------PAI------------- 57 (617)
T ss_pred ecceecccHHHHHHHHHHHcchH---HHHHHHHHHhhcchhHHHHHHHHHhC------------HHH-------------
Confidence 46789999999999999999987 49999999999999999999997765 332
Q ss_pred CCCCCCCCccccCCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHHHHHH
Q 021816 105 HGYDGFKHPYAVGGKRSSSVRPAEHERKKGVPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKYFIRQ 184 (307)
Q Consensus 105 ~~~dg~k~~~~~ggkr~~~~rs~~~erkKg~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky~~r~ 184 (307)
+.+.|+.|||+.||.+.+.+.. .|+.|+. +-+||..||-.||.+..--.
T Consensus 58 ----------------------------~~tews~eederlLhlakl~p~-qwrtIa~--i~gr~~~qc~eRy~~ll~~~ 106 (617)
T KOG0050|consen 58 ----------------------------KKTEWSREEDERLLHLAKLEPT-QWRTIAD--IMGRTSQQCLERYNNLLDVY 106 (617)
T ss_pred ----------------------------hhhhhhhhHHHHHHHHHHhcCC-ccchHHH--HhhhhHHHHHHHHHHHHHHH
Confidence 2347999999999999999998 9999996 77999999999988654433
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.72 E-value=4.3e-08 Score=100.79 Aligned_cols=103 Identities=19% Similarity=0.433 Sum_probs=85.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHHHhhhhhhhcCCCCCCCCCCCCcchhhhcc
Q 021816 25 KSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELEADISNIEAGLIPLPGYGNSSPFTLEWVNN 104 (307)
Q Consensus 25 ~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~~dV~~IEsG~v~~P~y~~~s~f~l~~~~~ 104 (307)
.++.||+||++.|...++.++.+ |..|+..| ||.+.+|+.+|..... ++-
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~~----W~~Ig~~l-gr~P~~crd~wr~~~~------------~g~------------- 432 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGND----WKEIGKAL-GRMPMDCRDRWRQYVK------------CGS------------- 432 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhccc----HHHHHHHH-ccCcHHHHHHHHHhhc------------ccc-------------
Confidence 68899999999999999999965 99999999 8999999999987543 110
Q ss_pred CCCCCCCCccccCCCCCCCCCcccccccCCCCCCHHHHHHHHHHHH-------Hh-------C-----C-----C-chhc
Q 021816 105 HGYDGFKHPYAVGGKRSSSVRPAEHERKKGVPWTEEEHKLFLLGLK-------KH-------G-----K-----G-DWRN 159 (307)
Q Consensus 105 ~~~dg~k~~~~~ggkr~~~~rs~~~erkKg~pWT~EEd~llL~~l~-------ky-------G-----~-----G-~W~~ 159 (307)
+ .+..+||.||++.||..|+ .| | . + .|..
T Consensus 433 --------------~------------~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~ 486 (607)
T KOG0051|consen 433 --------------K------------RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTL 486 (607)
T ss_pred --------------c------------cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhh
Confidence 0 1345899999999999996 23 1 1 1 6999
Q ss_pred chhcccCCCCHHHHHHHHHHHHHHH
Q 021816 160 ISRNFVTSRTPTQVASHAQKYFIRQ 184 (307)
Q Consensus 160 Ia~~~v~tRT~~Qv~sh~qky~~r~ 184 (307)
|+. .+.||+..||+.+|.+...+-
T Consensus 487 vse-~~~TR~~~qCr~Kw~kl~~~~ 510 (607)
T KOG0051|consen 487 VSE-MLGTRSRIQCRYKWYKLTTSP 510 (607)
T ss_pred hhH-hhcCCCcchHHHHHHHHHhhH
Confidence 997 999999999999999876654
No 20
>PLN03091 hypothetical protein; Provisional
Probab=98.59 E-value=3.7e-08 Score=97.98 Aligned_cols=48 Identities=21% Similarity=0.370 Sum_probs=43.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCchhcchhccc-CCCCHHHHHHHHHHHHH
Q 021816 134 GVPWTEEEHKLFLLGLKKHGKGDWRNISRNFV-TSRTPTQVASHAQKYFI 182 (307)
Q Consensus 134 g~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v-~tRT~~Qv~sh~qky~~ 182 (307)
.++||+|||++|+.+|++||.++|..||+ .+ ++||+.||+.||.+|+.
T Consensus 14 Kg~WTpEEDe~L~~~V~kyG~~nWs~IAk-~~g~gRT~KQCRERW~NyLd 62 (459)
T PLN03091 14 KGLWSPEEDEKLLRHITKYGHGCWSSVPK-QAGLQRCGKSCRLRWINYLR 62 (459)
T ss_pred CCCCCHHHHHHHHHHHHHhCcCCHHHHhh-hhccCcCcchHhHHHHhccC
Confidence 35899999999999999999999999997 55 59999999999997653
No 21
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.50 E-value=7.6e-08 Score=89.06 Aligned_cols=47 Identities=21% Similarity=0.352 Sum_probs=44.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhcchhcccC-CCCHHHHHHHHHHHHH
Q 021816 135 VPWTEEEHKLFLLGLKKHGKGDWRNISRNFVT-SRTPTQVASHAQKYFI 182 (307)
Q Consensus 135 ~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~-tRT~~Qv~sh~qky~~ 182 (307)
+|||+|||+.|+..|++||.|+|..|++ .++ +|+..+||-||..|++
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 5999999999999999999999999997 888 9999999999999854
No 22
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.49 E-value=2.4e-07 Score=94.30 Aligned_cols=106 Identities=21% Similarity=0.357 Sum_probs=90.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHHHhhhhhhhcCCCCCCCCCCCCcchhhh
Q 021816 23 ESKSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELEADISNIEAGLIPLPGYGNSSPFTLEWV 102 (307)
Q Consensus 23 ~~~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~~dV~~IEsG~v~~P~y~~~s~f~l~~~ 102 (307)
....+.|+..||..+..++..|+.+ .|.+||+.+.-+|..||..||...++ |.+
T Consensus 17 ~~k~gsw~~~EDe~l~~~vk~l~~n---nws~vas~~~~~~~kq~~~rw~~~ln------------p~l----------- 70 (512)
T COG5147 17 KRKGGSWKRTEDEDLKALVKKLGPN---NWSKVASLLISSTGKQSSNRWNNHLN------------PQL----------- 70 (512)
T ss_pred eecCCCCCCcchhHHHHHHhhcccc---cHHHHHHHhcccccccccchhhhhhc------------hhc-----------
Confidence 4567799999999999999999866 49999999988999999999965433 222
Q ss_pred ccCCCCCCCCccccCCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHHHH
Q 021816 103 NNHGYDGFKHPYAVGGKRSSSVRPAEHERKKGVPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKYFI 182 (307)
Q Consensus 103 ~~~~~dg~k~~~~~ggkr~~~~rs~~~erkKg~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky~~ 182 (307)
+...|+.|||+.|+.+-..+|. .|..|+. ++++||..||..+|.+.+.
T Consensus 71 ------------------------------k~~~~~~eed~~li~l~~~~~~-~wstia~-~~d~rt~~~~~ery~~~~~ 118 (512)
T COG5147 71 ------------------------------KKKNWSEEEDEQLIDLDKELGT-QWSTIAD-YKDRRTAQQCVERYVNTLE 118 (512)
T ss_pred ------------------------------ccccccHHHHHHHHHHHHhcCc-hhhhhcc-ccCccchHHHHHHHHHHhh
Confidence 2347999999999999999999 8999996 9999999999999988777
Q ss_pred HHhc
Q 021816 183 RQLS 186 (307)
Q Consensus 183 r~~s 186 (307)
...+
T Consensus 119 ~~~s 122 (512)
T COG5147 119 DLSS 122 (512)
T ss_pred hhhc
Confidence 7654
No 23
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.42 E-value=2e-07 Score=92.41 Aligned_cols=49 Identities=27% Similarity=0.565 Sum_probs=46.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHHHHHHh
Q 021816 136 PWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKYFIRQL 185 (307)
Q Consensus 136 pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky~~r~~ 185 (307)
.||.+|+-+||+|+..||-|+|..||. +|++||..+|+.||.|+|...-
T Consensus 74 ~WtadEEilLLea~~t~G~GNW~dIA~-hIGtKtkeeck~hy~k~fv~s~ 122 (438)
T KOG0457|consen 74 SWTADEEILLLEAAETYGFGNWQDIAD-HIGTKTKEECKEHYLKHFVNSP 122 (438)
T ss_pred CCChHHHHHHHHHHHHhCCCcHHHHHH-HHcccchHHHHHHHHHHHhcCc
Confidence 599999999999999999999999996 9999999999999999998763
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.67 E-value=7.8e-05 Score=74.34 Aligned_cols=47 Identities=28% Similarity=0.427 Sum_probs=43.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHH
Q 021816 26 STRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELE 75 (307)
Q Consensus 26 ~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~ 75 (307)
...||.+|+-+|.+|+..||-++ |..||.+|+.||..||++||.+..
T Consensus 72 ~~~WtadEEilLLea~~t~G~GN---W~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 72 DPSWTADEEILLLEAAETYGFGN---WQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCChHHHHHHHHHHHHhCCCc---HHHHHHHHcccchHHHHHHHHHHH
Confidence 46799999999999999999985 999999999999999999997643
No 25
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.67 E-value=3.3e-05 Score=74.59 Aligned_cols=47 Identities=28% Similarity=0.604 Sum_probs=45.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHHHHH
Q 021816 136 PWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKYFIR 183 (307)
Q Consensus 136 pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky~~r 183 (307)
.|+.+|+-+|++++...|-|+|..||. +|+.|+..+|++||-||+..
T Consensus 65 ~WgadEEllli~~~~TlGlGNW~dIad-yiGsr~kee~k~HylK~y~e 111 (432)
T COG5114 65 GWGADEELLLIECLDTLGLGNWEDIAD-YIGSRAKEEIKSHYLKMYDE 111 (432)
T ss_pred CcCchHHHHHHHHHHhcCCCcHHHHHH-HHhhhhhHHHHHHHHHHHhh
Confidence 599999999999999999999999997 99999999999999999875
No 26
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.65 E-value=0.00018 Score=53.23 Aligned_cols=47 Identities=15% Similarity=0.326 Sum_probs=40.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCChhH---HHHHhhCC-CC-CHHHHHHHHHHHH
Q 021816 26 STRWTAAENKMFENALAVYDKDSPDRW---QKVAAMIP-GK-TVVDVIKQYKELE 75 (307)
Q Consensus 26 ~~~WT~EEdk~Le~Ala~y~~~tpdRW---~kIAa~vP-GR-T~~qc~~rY~~L~ 75 (307)
+-.||+||..+|..||..+|.+. | ..|++.+. .+ |..||+.|+++.-
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~---~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPD---WATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCc---ccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 56799999999999999999753 9 99988775 35 9999999998753
No 27
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.61 E-value=4.6e-05 Score=76.58 Aligned_cols=42 Identities=31% Similarity=0.592 Sum_probs=39.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHH
Q 021816 135 VPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQ 178 (307)
Q Consensus 135 ~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~q 178 (307)
..||.+|.-+||+||+.||. +|.+||+ +|.+||+.||.-|+-
T Consensus 280 k~WS~qE~~LLLEGIe~ygD-dW~kVA~-HVgtKt~EqCIl~FL 321 (531)
T COG5259 280 KNWSRQELLLLLEGIEMYGD-DWDKVAR-HVGTKTKEQCILHFL 321 (531)
T ss_pred ccccHHHHHHHHHHHHHhhh-hHHHHHH-HhCCCCHHHHHHHHH
Confidence 38999999999999999998 9999998 999999999999864
No 28
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.34 E-value=0.0002 Score=73.36 Aligned_cols=43 Identities=26% Similarity=0.487 Sum_probs=39.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHH
Q 021816 134 GVPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQ 178 (307)
Q Consensus 134 g~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~q 178 (307)
+..||++|.-+||++|++||. +|.+||. +|.+||..||-.|+-
T Consensus 253 ~~~WT~qE~lLLLE~ie~y~d-dW~kVa~-hVg~ks~eqCI~kFL 295 (506)
T KOG1279|consen 253 RPNWTEQETLLLLEAIEMYGD-DWNKVAD-HVGTKSQEQCILKFL 295 (506)
T ss_pred CCCccHHHHHHHHHHHHHhcc-cHHHHHh-ccCCCCHHHHHHHHH
Confidence 447999999999999999998 9999997 999999999999754
No 29
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=97.32 E-value=0.00034 Score=73.60 Aligned_cols=50 Identities=34% Similarity=0.561 Sum_probs=44.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHHHhh
Q 021816 25 KSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELEADI 78 (307)
Q Consensus 25 ~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~~dV 78 (307)
.+..||..|.++|.+||..|-+| +.+|+.+|++|||.||.+.|.....++
T Consensus 618 gSd~WTp~E~~lF~kA~y~~~KD----F~~v~km~~~KtVaqCVeyYYtWKK~~ 667 (907)
T KOG4167|consen 618 GSDKWTPLERKLFNKALYTYSKD----FIFVQKMVKSKTVAQCVEYYYTWKKIM 667 (907)
T ss_pred CcccccHHHHHHHHHHHHHhccc----HHHHHHHhccccHHHHHHHHHHHHHhc
Confidence 45689999999999999999987 999999999999999999987665553
No 30
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.32 E-value=0.00022 Score=71.77 Aligned_cols=46 Identities=26% Similarity=0.546 Sum_probs=42.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHH
Q 021816 25 KSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKEL 74 (307)
Q Consensus 25 ~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L 74 (307)
....||++|.-+|.++|..|+.+ |.+||.+|+.||++||+-||-.|
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 44589999999999999999965 99999999999999999999765
No 31
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=97.18 E-value=0.0051 Score=62.06 Aligned_cols=49 Identities=8% Similarity=-0.048 Sum_probs=43.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHHHHHHh
Q 021816 135 VPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKYFIRQL 185 (307)
Q Consensus 135 ~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky~~r~~ 185 (307)
..||.+|.-+++.+|++||+ ...-|+ +.|+.++-.|+.+....|-+|+.
T Consensus 370 ~~~~T~~~la~v~~I~~~~~-~~~pl~-wrik~t~cmee~e~l~~~~Rr~m 418 (534)
T KOG1194|consen 370 RCFDTPAALALIDNIKRKHH-MCVPLV-WRVKQTKCMEENEILNEEARRQM 418 (534)
T ss_pred cccCcHHHHHHHHHHHHhcc-Ccchhh-hHhcCcchhhHHHHHHHHHHHHH
Confidence 57999999999999999999 788888 58999999999999888888774
No 32
>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=97.17 E-value=0.00047 Score=58.07 Aligned_cols=50 Identities=32% Similarity=0.541 Sum_probs=40.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC---Cchhcch-----------hcccCCCCHHHHHHHHHHHHH
Q 021816 133 KGVPWTEEEHKLFLLGLKKHGK---GDWRNIS-----------RNFVTSRTPTQVASHAQKYFI 182 (307)
Q Consensus 133 Kg~pWT~EEd~llL~~l~kyG~---G~W~~Ia-----------~~~v~tRT~~Qv~sh~qky~~ 182 (307)
++..||+|||+.||..+.+||. |.|..|. .+|+.+||+..+.-|+.-++.
T Consensus 48 ~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~ 111 (118)
T PF09111_consen 48 KKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIK 111 (118)
T ss_dssp S-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHH
T ss_pred CCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHH
Confidence 3457999999999999999999 8999997 578899999999999985443
No 33
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.16 E-value=0.00061 Score=69.82 Aligned_cols=49 Identities=31% Similarity=0.557 Sum_probs=44.3
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHH
Q 021816 22 EESKSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKEL 74 (307)
Q Consensus 22 ~~~~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L 74 (307)
....+..||++|.-+|..+|..|+.+ |.+||.+|.+||..||+-|+..|
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 34567899999999999999999976 99999999999999999999764
No 34
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.06 E-value=0.0051 Score=56.21 Aligned_cols=113 Identities=17% Similarity=0.211 Sum_probs=74.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCC---CCCHHHHHHHHHHHHHh--hhhhhhcCCCCCCCCCCCCcchhhh
Q 021816 28 RWTAAENKMFENALAVYDKDSPDRWQKVAAMIP---GKTVVDVIKQYKELEAD--ISNIEAGLIPLPGYGNSSPFTLEWV 102 (307)
Q Consensus 28 ~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vP---GRT~~qc~~rY~~L~~d--V~~IEsG~v~~P~y~~~s~f~l~~~ 102 (307)
.|++++|-+|++||..-.. -+.|+.-|+ .-|..++.+||..|+-| |.++....
T Consensus 1 rW~~~DDl~Li~av~~~~~-----L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~----------------- 58 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTND-----LESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAA----------------- 58 (199)
T ss_pred CCCchhhHHHHHHHHHhcC-----HHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHH-----------------
Confidence 5999999999999986432 667777665 46999999999999876 22221110
Q ss_pred ccCCCCCCCCccccCCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCC--chhcch----hcccCCCCHHHHHHH
Q 021816 103 NNHGYDGFKHPYAVGGKRSSSVRPAEHERKKGVPWTEEEHKLFLLGLKKHGKG--DWRNIS----RNFVTSRTPTQVASH 176 (307)
Q Consensus 103 ~~~~~dg~k~~~~~ggkr~~~~rs~~~erkKg~pWT~EEd~llL~~l~kyG~G--~W~~Ia----~~~v~tRT~~Qv~sh 176 (307)
+.+..+.. .. ......+||.+|+++|.......... .+.+|= ..|-++||+.+...|
T Consensus 59 -m~~l~p~~-------~~---------~iq~kalfS~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~H 121 (199)
T PF13325_consen 59 -MRNLHPEL-------IA---------AIQSKALFSKEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDH 121 (199)
T ss_pred -HHhCCcch-------hh---------cccccCCCCHHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHH
Confidence 00000000 00 00123589999999998876554332 455552 237799999999999
Q ss_pred HHH
Q 021816 177 AQK 179 (307)
Q Consensus 177 ~qk 179 (307)
|+.
T Consensus 122 W~l 124 (199)
T PF13325_consen 122 WRL 124 (199)
T ss_pred HHH
Confidence 993
No 35
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=96.56 E-value=0.0015 Score=66.74 Aligned_cols=50 Identities=22% Similarity=0.470 Sum_probs=46.0
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHHHH
Q 021816 132 KKGVPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKYFI 182 (307)
Q Consensus 132 kKg~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky~~ 182 (307)
+||+-|+..||+.|-.++.+||...|++|+. .+.-+|+.||+.+|.++..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~s-ll~~kt~rqC~~rw~e~ld 54 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIAS-LLNRKTARQCKARWEEWLD 54 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHH-HHhhcchhHHHHHHHHHhC
Confidence 4677899999999999999999999999997 9999999999999998754
No 36
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=96.50 E-value=0.0085 Score=62.52 Aligned_cols=108 Identities=12% Similarity=0.338 Sum_probs=72.9
Q ss_pred CCCCCCHHHHHHHHHHHH-------Hh------------CCC---CChhHHHHHhhCCCCCHHHHHHHHHHHHHhhhhhh
Q 021816 25 KSTRWTAAENKMFENALA-------VY------------DKD---SPDRWQKVAAMIPGKTVVDVIKQYKELEADISNIE 82 (307)
Q Consensus 25 ~~~~WT~EEdk~Le~Ala-------~y------------~~~---tpdRW~kIAa~vPGRT~~qc~~rY~~L~~dV~~IE 82 (307)
.++.||.||...|..+|. ++ |.. .+..|..|++++.+|+..||+.+|.+++..
T Consensus 435 ~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~----- 509 (607)
T KOG0051|consen 435 NRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTS----- 509 (607)
T ss_pred ccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhh-----
Confidence 678999999999999995 23 111 345899999999999999999999988762
Q ss_pred hcCCCCCCCCCCCCcchhhhccCCCCCCCCccccCCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCchhcchh
Q 021816 83 AGLIPLPGYGNSSPFTLEWVNNHGYDGFKHPYAVGGKRSSSVRPAEHERKKGVPWTEEEHKLFLLGLKKHGKGDWRNISR 162 (307)
Q Consensus 83 sG~v~~P~y~~~s~f~l~~~~~~~~dg~k~~~~~ggkr~~~~rs~~~erkKg~pWT~EEd~llL~~l~kyG~G~W~~Ia~ 162 (307)
|..+. ..+. .+ ...-|..|+=..| .+..++.=+|..|+.
T Consensus 510 ------~s~n~-----~~~~-----~~-----------------------~~~v~l~ErL~dl--~~~e~~~IDW~~l~~ 548 (607)
T KOG0051|consen 510 ------PSFNK-----RQES-----KG-----------------------SDMVWLLERLSDL--DLTEESPIDWKSLAE 548 (607)
T ss_pred ------HHhhc-----cccc-----cc-----------------------chhHHHHHHHHhc--ccccCCccCHHHHHH
Confidence 11110 0000 00 1124665543333 233455558999997
Q ss_pred cccCCCC-HHHHHHHHHH
Q 021816 163 NFVTSRT-PTQVASHAQK 179 (307)
Q Consensus 163 ~~v~tRT-~~Qv~sh~qk 179 (307)
+.++.. +.+|+.+|-.
T Consensus 549 -~~~g~~~~~e~r~q~~~ 565 (607)
T KOG0051|consen 549 -YAPGESTGEELRLQFER 565 (607)
T ss_pred -hCCCCCcHHHHHHHHHh
Confidence 999998 8889987653
No 37
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=96.39 E-value=0.0035 Score=66.96 Aligned_cols=138 Identities=22% Similarity=0.300 Sum_probs=86.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHHHhhh----------hhhhcCCCCCCCCCCC
Q 021816 26 STRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELEADIS----------NIEAGLIPLPGYGNSS 95 (307)
Q Consensus 26 ~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~~dV~----------~IEsG~v~~P~y~~~s 95 (307)
-..||+.|-..|..|..+|+.++ -+.||+.+.+ |+.||...-+-+++.+. .||.|...+..-.. -
T Consensus 795 ft~w~k~df~~fi~a~eKygr~d---i~~ia~~~e~-~~eev~~y~rvfwer~~el~d~ek~~~~ie~~e~~i~r~~~-~ 869 (971)
T KOG0385|consen 795 FTNWTKRDFNQFIKANEKYGRDD---IENIAAEVEG-TPEEVGEYARVFWERLEELSDIEKIIYQIERGEKRIQRGDS-I 869 (971)
T ss_pred ccchhhhhHHHHHHHhhccCcch---hhhhHHhhcC-CHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhHhhhhHHHH-H
Confidence 45699999999999999999774 8899999988 99999887555544432 35555433221100 0
Q ss_pred CcchhhhccCCCCCCCCccccCCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHhCCCc---hhcch-----------
Q 021816 96 PFTLEWVNNHGYDGFKHPYAVGGKRSSSVRPAEHERKKGVPWTEEEHKLFLLGLKKHGKGD---WRNIS----------- 161 (307)
Q Consensus 96 ~f~l~~~~~~~~dg~k~~~~~ggkr~~~~rs~~~erkKg~pWT~EEd~llL~~l~kyG~G~---W~~Ia----------- 161 (307)
...++- ....+.. +..-+ ......++...|++||+.|+.+|.|+|.+. |..+.
T Consensus 870 ~~~ld~-k~~~~k~-----------p~~l~-i~~~~nk~~~ys~~edrfL~~~l~K~g~~~~~~~e~lr~~~~~~~~frf 936 (971)
T KOG0385|consen 870 KKALDD-KIARYKA-----------PHQLR-IQYGTNKGKNYSEEEDRFLECMLHKLGFDAENVYEELRQPIRNSPQFRF 936 (971)
T ss_pred HHHHhh-hHhhhcC-----------chhee-eeeccccCCCCchhhHHHHHHHHHHhccCchhHHHHHHHHHhcCccccc
Confidence 000000 0000000 00000 000112566899999999999999999854 54443
Q ss_pred hcccCCCCHHHHHHHHHHHH
Q 021816 162 RNFVTSRTPTQVASHAQKYF 181 (307)
Q Consensus 162 ~~~v~tRT~~Qv~sh~qky~ 181 (307)
.||+.+||...++.|+..|+
T Consensus 937 dw~~~sRt~~el~Rr~ntli 956 (971)
T KOG0385|consen 937 DWFIKSRTAMELQRRCNTLI 956 (971)
T ss_pred ceeeehhhHHHHHhcCCeeE
Confidence 57889999988877766543
No 38
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.38 E-value=0.0052 Score=47.55 Aligned_cols=54 Identities=17% Similarity=0.385 Sum_probs=38.6
Q ss_pred CCCCHHHHHHHHHHHHH--hC------CCC-C-hhHHHHHhhCC----CCCHHHHHHHHHHHHHhhhh
Q 021816 27 TRWTAAENKMFENALAV--YD------KDS-P-DRWQKVAAMIP----GKTVVDVIKQYKELEADISN 80 (307)
Q Consensus 27 ~~WT~EEdk~Le~Ala~--y~------~~t-p-dRW~kIAa~vP----GRT~~qc~~rY~~L~~dV~~ 80 (307)
..||.+|...|..+... +. ... . .-|..||..|. .||+.||+.+|+.|..+-+.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~ 69 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKK 69 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHC
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence 57999999999998887 21 111 2 36999999985 59999999999999987554
No 39
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=96.26 E-value=0.021 Score=56.46 Aligned_cols=48 Identities=33% Similarity=0.528 Sum_probs=42.7
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHHHHHHhc
Q 021816 135 VPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKYFIRQLS 186 (307)
Q Consensus 135 ~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky~~r~~s 186 (307)
..|+++|=+.|.+||+.||+ ++..|.++-|++|+..+|-.+ ||...++
T Consensus 278 ~~wsEeEcr~FEegl~~yGK-DF~lIr~nkvrtRsvgElVey---YYlWKkS 325 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGK-DFHLIRANKVRTRSVGELVEY---YYLWKKS 325 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcc-cHHHHHhcccccchHHHHHHH---HHHhhcC
Confidence 36999999999999999999 999999999999999999886 5556554
No 40
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.96 E-value=0.011 Score=57.55 Aligned_cols=48 Identities=17% Similarity=0.407 Sum_probs=43.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHHH
Q 021816 26 STRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELEA 76 (307)
Q Consensus 26 ~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~~ 76 (307)
...|+..|+-+|++++...|.++ |+-||.+|+.|+.++|+.||-+...
T Consensus 63 ~e~WgadEEllli~~~~TlGlGN---W~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGN---WEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCc---HHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 34699999999999999999985 9999999999999999999987643
No 41
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=95.73 E-value=0.014 Score=60.12 Aligned_cols=52 Identities=15% Similarity=0.369 Sum_probs=45.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHHHhh
Q 021816 23 ESKSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELEADI 78 (307)
Q Consensus 23 ~~~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~~dV 78 (307)
--....|+.|||+.+..+-..++. +|..||..+|+||..+|.++|..++.+.
T Consensus 69 ~lk~~~~~~eed~~li~l~~~~~~----~wstia~~~d~rt~~~~~ery~~~~~~~ 120 (512)
T COG5147 69 QLKKKNWSEEEDEQLIDLDKELGT----QWSTIADYKDRRTAQQCVERYVNTLEDL 120 (512)
T ss_pred hcccccccHHHHHHHHHHHHhcCc----hhhhhccccCccchHHHHHHHHHHhhhh
Confidence 346788999999999998888875 4999999999999999999999888754
No 42
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=95.62 E-value=0.018 Score=57.12 Aligned_cols=67 Identities=21% Similarity=0.438 Sum_probs=52.4
Q ss_pred cccccC--CCcccCCCccccCCCCCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHH
Q 021816 4 ETEVIS--PASYISSSNWLLEESKSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKEL 74 (307)
Q Consensus 4 ~~~~~~--p~~~~~~~~w~~~~~~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L 74 (307)
+||++- |.+-+-+|.=|-.....-.||.+|..+|-+||.++|.+ +..|+.++|.|..+||+..|..-
T Consensus 341 e~E~veen~~ar~vts~t~g~~~~~~~Ws~~e~ekFYKALs~wGtd----F~LIs~lfP~R~RkqIKaKfi~E 409 (507)
T COG5118 341 EMEVVEENPFARIVTSSTFGKKKGALRWSKKEIEKFYKALSIWGTD----FSLISSLFPNRERKQIKAKFIKE 409 (507)
T ss_pred HHHHhhccchhheeecccccCCCCCCcccHHHHHHHHHHHHHhcch----HHHHHHhcCchhHHHHHHHHHHH
Confidence 566664 55444333333344566789999999999999999986 99999999999999999999753
No 43
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=95.00 E-value=0.062 Score=45.28 Aligned_cols=55 Identities=20% Similarity=0.360 Sum_probs=45.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCC------------CCCHHHHHHHHHHHHHhh
Q 021816 24 SKSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIP------------GKTVVDVIKQYKELEADI 78 (307)
Q Consensus 24 ~~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vP------------GRT~~qc~~rY~~L~~dV 78 (307)
..+..+|+|||.-|...+..||.++++.|++|-..|- .||+.++.+|-..|+.-|
T Consensus 47 ~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i 113 (118)
T PF09111_consen 47 NKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLI 113 (118)
T ss_dssp SS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHH
T ss_pred CCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHH
Confidence 3467899999999999999999988999999988773 899999999999887643
No 44
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=94.43 E-value=0.074 Score=41.05 Aligned_cols=49 Identities=29% Similarity=0.471 Sum_probs=33.9
Q ss_pred CCCHHHHHHHHHHHHH------hCC-C------chhcchhccc----CCCCHHHHHHHHHHHHHHHh
Q 021816 136 PWTEEEHKLFLLGLKK------HGK-G------DWRNISRNFV----TSRTPTQVASHAQKYFIRQL 185 (307)
Q Consensus 136 pWT~EEd~llL~~l~k------yG~-G------~W~~Ia~~~v----~tRT~~Qv~sh~qky~~r~~ 185 (307)
.||.+|..+||..+.. ++. + .|..||. .+ ..||+.||+.+|.....+-.
T Consensus 3 ~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~-~l~~~G~~rt~~qc~~Kw~~L~~~Yk 68 (90)
T PF13837_consen 3 NWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAE-ELAEHGYNRTPEQCRNKWKNLKKKYK 68 (90)
T ss_dssp SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHH-HHHHHC----HHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHH-HHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence 6999999999999888 321 1 4999996 44 37999999999987555444
No 45
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.32 E-value=0.075 Score=40.44 Aligned_cols=54 Identities=11% Similarity=0.339 Sum_probs=43.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCC---C----------CChhHHHHHhhCC-----CCCHHHHHHHHHHHHHhhh
Q 021816 26 STRWTAAENKMFENALAVYDK---D----------SPDRWQKVAAMIP-----GKTVVDVIKQYKELEADIS 79 (307)
Q Consensus 26 ~~~WT~EEdk~Le~Ala~y~~---~----------tpdRW~kIAa~vP-----GRT~~qc~~rY~~L~~dV~ 79 (307)
...||.+|...|.+.|..|.. + ...-|+.||..|. .||+.||+++|..+...++
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 467999999999999998741 1 1236999999883 4999999999999887654
No 46
>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=94.03 E-value=0.074 Score=40.34 Aligned_cols=49 Identities=22% Similarity=0.303 Sum_probs=31.8
Q ss_pred CCCCHHHHHHHHHHHHHhC------CC--chhcchhcccCCCCHHHHHHHHHHHHHH
Q 021816 135 VPWTEEEHKLFLLGLKKHG------KG--DWRNISRNFVTSRTPTQVASHAQKYFIR 183 (307)
Q Consensus 135 ~pWT~EEd~llL~~l~kyG------~G--~W~~Ia~~~v~tRT~~Qv~sh~qky~~r 183 (307)
+++|+|||..|+.-|..+. .| -|+.++...+..+|-...++||.|.+..
T Consensus 3 ~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~ 59 (65)
T PF08914_consen 3 TPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRG 59 (65)
T ss_dssp ----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT--
T ss_pred CCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Confidence 5899999999999997653 23 3999998555589999999998766544
No 47
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=92.39 E-value=0.21 Score=49.64 Aligned_cols=48 Identities=23% Similarity=0.511 Sum_probs=40.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCChhHHHH-HhhCCCCCHHHHHHHHHHHH
Q 021816 24 SKSTRWTAAENKMFENALAVYDKDSPDRWQKV-AAMIPGKTVVDVIKQYKELE 75 (307)
Q Consensus 24 ~~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kI-Aa~vPGRT~~qc~~rY~~L~ 75 (307)
..-..|+++|=+.|+..|..||++ +..| |..|+.|++.+|+..|...+
T Consensus 275 d~l~~wsEeEcr~FEegl~~yGKD----F~lIr~nkvrtRsvgElVeyYYlWK 323 (445)
T KOG4329|consen 275 DDLSGWSEEECRNFEEGLELYGKD----FHLIRANKVRTRSVGELVEYYYLWK 323 (445)
T ss_pred cccccCCHHHHHHHHHHHHHhccc----HHHHHhcccccchHHHHHHHHHHhh
Confidence 345679999999999999999987 7766 56799999999999987544
No 48
>PLN03162 golden-2 like transcription factor; Provisional
Probab=92.14 E-value=0.32 Score=48.49 Aligned_cols=56 Identities=30% Similarity=0.334 Sum_probs=41.9
Q ss_pred cccCCCCCCHHHHHHHHHHHHHhCCC--chhcchh-cccCCCCHHHHHHHHHHHHHHHh
Q 021816 130 ERKKGVPWTEEEHKLFLLGLKKHGKG--DWRNISR-NFVTSRTPTQVASHAQKYFIRQL 185 (307)
Q Consensus 130 erkKg~pWT~EEd~llL~~l~kyG~G--~W~~Ia~-~~v~tRT~~Qv~sh~qky~~r~~ 185 (307)
.+|.+..||+|=|+.|+++|.+.|.. -=+.|-+ --|++=|..+|+||-|||...++
T Consensus 233 ~KKpRLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~rk 291 (526)
T PLN03162 233 KKKAKVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRSHRR 291 (526)
T ss_pred CCCCcccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHHhcc
Confidence 44566789999999999999999941 1233332 02578899999999999976553
No 49
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=91.34 E-value=0.5 Score=36.88 Aligned_cols=52 Identities=17% Similarity=0.364 Sum_probs=40.0
Q ss_pred CCCHHHHHHHHHHHHHh------C-CCC--ChhHHHHHhhCC-----CCCHHHHHHHHHHHHHhhh
Q 021816 28 RWTAAENKMFENALAVY------D-KDS--PDRWQKVAAMIP-----GKTVVDVIKQYKELEADIS 79 (307)
Q Consensus 28 ~WT~EEdk~Le~Ala~y------~-~~t--pdRW~kIAa~vP-----GRT~~qc~~rY~~L~~dV~ 79 (307)
.||+++++.|.+++... + .+. +.-|..|++.|- ..|..||..||..|..+-.
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 49999999999988643 1 111 457999998885 3689999999999887643
No 50
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=89.66 E-value=0.48 Score=47.41 Aligned_cols=46 Identities=24% Similarity=0.429 Sum_probs=41.1
Q ss_pred ccCCCCCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHH
Q 021816 131 RKKGVPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQ 178 (307)
Q Consensus 131 rkKg~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~q 178 (307)
+++..+||.+|-++|-.+|...|- ++..||. ++|+|...||+-.+.
T Consensus 362 ~~~~~~Ws~~e~ekFYKALs~wGt-dF~LIs~-lfP~R~RkqIKaKfi 407 (507)
T COG5118 362 KKGALRWSKKEIEKFYKALSIWGT-DFSLISS-LFPNRERKQIKAKFI 407 (507)
T ss_pred CCCCCcccHHHHHHHHHHHHHhcc-hHHHHHH-hcCchhHHHHHHHHH
Confidence 445668999999999999999999 9999996 999999999998543
No 51
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=88.70 E-value=0.56 Score=49.27 Aligned_cols=50 Identities=28% Similarity=0.437 Sum_probs=41.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhcc---------hhcccCCCCHHHHHHHHHHHHHHHh
Q 021816 135 VPWTEEEHKLFLLGLKKHGKGDWRNI---------SRNFVTSRTPTQVASHAQKYFIRQL 185 (307)
Q Consensus 135 ~pWT~EEd~llL~~l~kyG~G~W~~I---------a~~~v~tRT~~Qv~sh~qky~~r~~ 185 (307)
+.||-.|+.-|..||+.+|+ ++.+| +..-+..+|.-||+-||.+..++++
T Consensus 89 taWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~ 147 (782)
T KOG4468|consen 89 TAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMN 147 (782)
T ss_pred cccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHH
Confidence 47999999999999999999 99999 1124677889999999877666664
No 52
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=88.44 E-value=1.5 Score=33.12 Aligned_cols=49 Identities=20% Similarity=0.340 Sum_probs=38.3
Q ss_pred CCCHHHHHHHHHHHHHh-----CCC-----------chhcchhcc----cCCCCHHHHHHHHHHHHHHH
Q 021816 136 PWTEEEHKLFLLGLKKH-----GKG-----------DWRNISRNF----VTSRTPTQVASHAQKYFIRQ 184 (307)
Q Consensus 136 pWT~EEd~llL~~l~ky-----G~G-----------~W~~Ia~~~----v~tRT~~Qv~sh~qky~~r~ 184 (307)
.||.+|-+.|++.|++| |+. -|..|+..+ .+.||..|++..|.++-...
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 69999999999999997 421 499998422 24799999999998875544
No 53
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=88.19 E-value=0.45 Score=48.76 Aligned_cols=43 Identities=28% Similarity=0.489 Sum_probs=39.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHH
Q 021816 134 GVPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHA 177 (307)
Q Consensus 134 g~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~ 177 (307)
-..|+.-|-.+|.++|+|||+ ++..|...|+|=++-..|-.+|
T Consensus 285 mEEWSasEanLFEeALeKyGK-DFndIrqdfLPWKSl~sIveyY 327 (693)
T KOG3554|consen 285 MEEWSASEANLFEEALEKYGK-DFNDIRQDFLPWKSLTSIVEYY 327 (693)
T ss_pred hhhccchhhHHHHHHHHHhcc-cHHHHHHhhcchHHHHHHHHHH
Confidence 347999999999999999999 9999999999999999888764
No 54
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=87.62 E-value=1.9 Score=46.46 Aligned_cols=41 Identities=32% Similarity=0.374 Sum_probs=38.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHH
Q 021816 135 VPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHA 177 (307)
Q Consensus 135 ~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~ 177 (307)
.-||+.|-++|-.+|..|-+ ++..|+. .|+++|..||-.+|
T Consensus 620 d~WTp~E~~lF~kA~y~~~K-DF~~v~k-m~~~KtVaqCVeyY 660 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSK-DFIFVQK-MVKSKTVAQCVEYY 660 (907)
T ss_pred ccccHHHHHHHHHHHHHhcc-cHHHHHH-HhccccHHHHHHHH
Confidence 46999999999999999999 9999997 99999999999874
No 55
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=87.62 E-value=0.7 Score=41.45 Aligned_cols=51 Identities=8% Similarity=0.244 Sum_probs=39.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCC---hhHHHHHhhCCCCCHHHHHHHHHHHHH
Q 021816 25 KSTRWTAAENKMFENALAVYDKDSP---DRWQKVAAMIPGKTVVDVIKQYKELEA 76 (307)
Q Consensus 25 ~~~~WT~EEdk~Le~Ala~y~~~tp---dRW~kIAa~vPGRT~~qc~~rY~~L~~ 76 (307)
....||.|||.+|.+.|..|..... +-.+.++..| +||+..|-.||+..+.
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vr 57 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVR 57 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHH
Confidence 3457999999999999998876442 3466777777 7999999999965443
No 56
>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=87.47 E-value=0.69 Score=41.13 Aligned_cols=50 Identities=10% Similarity=0.235 Sum_probs=40.7
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCC---ChhHHHHHhhCCCCCHHHHHHHHHHHHH
Q 021816 26 STRWTAAENKMFENALAVYDKDS---PDRWQKVAAMIPGKTVVDVIKQYKELEA 76 (307)
Q Consensus 26 ~~~WT~EEdk~Le~Ala~y~~~t---pdRW~kIAa~vPGRT~~qc~~rY~~L~~ 76 (307)
.-.||.|||.+|-+.|-.|=... -.-++.|+..| +||+.-|-=||+..+.
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 45799999999999998874332 13488999998 7999999999987765
No 57
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=86.94 E-value=0.53 Score=47.16 Aligned_cols=48 Identities=19% Similarity=0.343 Sum_probs=40.7
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCChhHHHHHhh-----CCC-CCHHHHHHHHHHHHHhh
Q 021816 27 TRWTAAENKMFENALAVYDKDSPDRWQKVAAM-----IPG-KTVVDVIKQYKELEADI 78 (307)
Q Consensus 27 ~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~-----vPG-RT~~qc~~rY~~L~~dV 78 (307)
..||.||...|-+++..|+. ||..||-. ++. ||++|+++||..+...+
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 56999999999999999996 57777766 666 99999999999876654
No 58
>KOG1878 consensus Nuclear receptor coregulator SMRT/SMRTER, contains Myb-like domains [Transcription]
Probab=85.91 E-value=0.44 Score=54.27 Aligned_cols=44 Identities=23% Similarity=0.474 Sum_probs=37.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHH
Q 021816 25 KSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYK 72 (307)
Q Consensus 25 ~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~ 72 (307)
....|+.+|-+.|+.-++.|.++ ...||.+|..||+.||.-.|.
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 45689999999999988888764 889999999999999986654
No 59
>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=85.83 E-value=0.81 Score=40.68 Aligned_cols=49 Identities=24% Similarity=0.402 Sum_probs=39.0
Q ss_pred CCCCHHHHHHHHHHHHHhC-CC-----chhcchhcccCCCCHHHHHHHHHHHHHHHh
Q 021816 135 VPWTEEEHKLFLLGLKKHG-KG-----DWRNISRNFVTSRTPTQVASHAQKYFIRQL 185 (307)
Q Consensus 135 ~pWT~EEd~llL~~l~kyG-~G-----~W~~Ia~~~v~tRT~~Qv~sh~qky~~r~~ 185 (307)
..||.|||.+|-+.|-+|= .| -+..+++ --+||+..|.-||+.|.+++.
T Consensus 5 DAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~--~L~RTsAACGFRWNs~VRkqY 59 (161)
T TIGR02894 5 DAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGR--ALNRTAAACGFRWNAYVRKQY 59 (161)
T ss_pred cccccHHHHHHHHHHHHHHhcchHHHHHHHHHHH--HHcccHHHhcchHHHHHHHHH
Confidence 3699999999999988873 22 3555554 359999999999999998874
No 60
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=84.13 E-value=2 Score=45.36 Aligned_cols=54 Identities=30% Similarity=0.413 Sum_probs=43.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCChhHHHH----------HhhCCCCCHHHHHHHHHHHHHhhhhhh
Q 021816 25 KSTRWTAAENKMFENALAVYDKDSPDRWQKV----------AAMIPGKTVVDVIKQYKELEADISNIE 82 (307)
Q Consensus 25 ~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kI----------Aa~vPGRT~~qc~~rY~~L~~dV~~IE 82 (307)
..+.||-.|...|-.||..+|++ +++| -..+--||..||+.+|..++..+....
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GKd----Fe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~ 150 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGKD----FEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLL 150 (782)
T ss_pred cccccchhhHHHHHHHHHHhccc----HHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhh
Confidence 35689999999999999999987 8888 333446899999999998877665444
No 61
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=83.02 E-value=3 Score=31.57 Aligned_cols=51 Identities=12% Similarity=0.210 Sum_probs=33.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-----CCChhHHHHHhhCC-CCCHHHHHHHHHHHHH
Q 021816 26 STRWTAAENKMFENALAVYDK-----DSPDRWQKVAAMIP-GKTVVDVIKQYKELEA 76 (307)
Q Consensus 26 ~~~WT~EEdk~Le~Ala~y~~-----~tpdRW~kIAa~vP-GRT~~qc~~rY~~L~~ 76 (307)
+...|.|||.+|..-|+.+.. ....-|..+|+.-| ..|-.--++||.+-+.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~ 58 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLR 58 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence 457899999999999976532 22567999999988 7899999999976543
No 62
>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=82.93 E-value=3.1 Score=32.32 Aligned_cols=48 Identities=27% Similarity=0.508 Sum_probs=33.6
Q ss_pred CCCHHHHHHHHHHHHHh---C----CC-----chhcchhccc----CCCCHHHHHHHHHHHHHHH
Q 021816 136 PWTEEEHKLFLLGLKKH---G----KG-----DWRNISRNFV----TSRTPTQVASHAQKYFIRQ 184 (307)
Q Consensus 136 pWT~EEd~llL~~l~ky---G----~G-----~W~~Ia~~~v----~tRT~~Qv~sh~qky~~r~ 184 (307)
.||+++++.||+++... | .+ .|..|+..|. ...|..||++|++ .+++.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~-~lk~~ 64 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWK-TLKKD 64 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHH-HHHHH
Confidence 39999999999998663 2 22 3888874222 3467889999987 44444
No 63
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=82.77 E-value=1.5 Score=45.10 Aligned_cols=45 Identities=29% Similarity=0.672 Sum_probs=38.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCChhHHHH-HhhCCCCCHHHHHHHHHHHH
Q 021816 27 TRWTAAENKMFENALAVYDKDSPDRWQKV-AAMIPGKTVVDVIKQYKELE 75 (307)
Q Consensus 27 ~~WT~EEdk~Le~Ala~y~~~tpdRW~kI-Aa~vPGRT~~qc~~rY~~L~ 75 (307)
-+|+..|-.+||+||.+||++ +..| +.++|-|+..++++.|....
T Consensus 286 EEWSasEanLFEeALeKyGKD----FndIrqdfLPWKSl~sIveyYYmwK 331 (693)
T KOG3554|consen 286 EEWSASEANLFEEALEKYGKD----FNDIRQDFLPWKSLTSIVEYYYMWK 331 (693)
T ss_pred hhccchhhHHHHHHHHHhccc----HHHHHHhhcchHHHHHHHHHHHHHh
Confidence 379999999999999999997 5544 66789999999999887543
No 64
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=81.19 E-value=1.9 Score=48.36 Aligned_cols=47 Identities=21% Similarity=0.475 Sum_probs=41.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHHHHH
Q 021816 136 PWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKYFIR 183 (307)
Q Consensus 136 pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky~~r 183 (307)
.||.-+=..|+.+..+||+.+...||. .|.++|+.+|+.+++-|..|
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 399999999999999999999999997 99999999999887766544
No 65
>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=79.66 E-value=7.3 Score=38.31 Aligned_cols=56 Identities=18% Similarity=0.412 Sum_probs=44.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHh-CCCCChhHHHHHhhCCCCCHHHHHHHHHHHHHhhh
Q 021816 23 ESKSTRWTAAENKMFENALAVY-DKDSPDRWQKVAAMIPGKTVVDVIKQYKELEADIS 79 (307)
Q Consensus 23 ~~~~~~WT~EEdk~Le~Ala~y-~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~~dV~ 79 (307)
......||..|.+.|.++|... +...|| -..||..|+||+..|+++.-..|...|.
T Consensus 18 ~~gp~~Ws~rEkr~Llr~Lqar~g~~epd-~ael~~~l~~Rs~aEI~~fl~~LK~rva 74 (344)
T PF11035_consen 18 VTGPAAWSAREKRQLLRLLQARRGQPEPD-AAELAKELPGRSEAEIRDFLQQLKGRVA 74 (344)
T ss_pred CCCcccCcHHHHHHHHHHHHHhcCCCCcC-HHHHHhhccCcCHHHHHHHHHHHHHHHH
Confidence 3456789999999999998865 333455 5569999999999999988777776654
No 66
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=77.03 E-value=6.5 Score=38.14 Aligned_cols=54 Identities=15% Similarity=0.308 Sum_probs=40.3
Q ss_pred CCCCCHHHHHHHHHHHHHhC----CC--CChhHHHHHhhCC----CCCHHHHHHHHHHHHHhhh
Q 021816 26 STRWTAAENKMFENALAVYD----KD--SPDRWQKVAAMIP----GKTVVDVIKQYKELEADIS 79 (307)
Q Consensus 26 ~~~WT~EEdk~Le~Ala~y~----~~--tpdRW~kIAa~vP----GRT~~qc~~rY~~L~~dV~ 79 (307)
...|+.+|-..|+.+-.... .. .-.-|+.||+.+. -||..||+.+|+.|....+
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk 117 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYK 117 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 37899999999998776421 11 1334999999443 3999999999998877644
No 67
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=75.00 E-value=3.9 Score=41.09 Aligned_cols=51 Identities=27% Similarity=0.342 Sum_probs=39.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC---------------Cchhcchhccc-----CCCCHHHHHHHHHHHHHHH
Q 021816 133 KGVPWTEEEHKLFLLGLKKHGK---------------GDWRNISRNFV-----TSRTPTQVASHAQKYFIRQ 184 (307)
Q Consensus 133 Kg~pWT~EEd~llL~~l~kyG~---------------G~W~~Ia~~~v-----~tRT~~Qv~sh~qky~~r~ 184 (307)
-.+-|+++=|+.|+++|..|.. |+=..||+ |+ .|||..||.||-|=+-+|.
T Consensus 75 aegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIar-YIKlrtgktRTrKQVSSHIQVlarrk 145 (455)
T KOG3841|consen 75 AEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIAR-YIKLRTGKTRTRKQVSSHIQVLARRK 145 (455)
T ss_pred cccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHH-HHHHhcCCchhHHHHHHHHHHHHHHH
Confidence 3457999999999999999743 34567786 66 5788999999988554444
No 68
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=74.66 E-value=0.71 Score=44.52 Aligned_cols=49 Identities=14% Similarity=0.079 Sum_probs=44.1
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHHHHHHhc
Q 021816 136 PWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKYFIRQLS 186 (307)
Q Consensus 136 pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky~~r~~s 186 (307)
.||++|+..|.++|..|+. .|..|-+ ++..++..+++.|+|+||-....
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 4999999999999999955 9999996 99999999999999999877653
No 69
>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=74.37 E-value=8.9 Score=26.36 Aligned_cols=40 Identities=18% Similarity=0.253 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHH
Q 021816 32 AENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELE 75 (307)
Q Consensus 32 EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~ 75 (307)
+=|..+.++|..-+.-+ |..||+.+ |-|...|.+|.+.|.
T Consensus 3 ~~D~~Il~~Lq~d~r~s---~~~la~~l-glS~~~v~~Ri~rL~ 42 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRS---YAELAEEL-GLSESTVRRRIRRLE 42 (42)
T ss_dssp HHHHHHHHHHHH-TTS----HHHHHHHH-TS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCcc---HHHHHHHH-CcCHHHHHHHHHHhC
Confidence 34677777787766543 99999999 899999999998763
No 70
>smart00595 MADF subfamily of SANT domain.
Probab=73.64 E-value=3.5 Score=31.73 Aligned_cols=26 Identities=27% Similarity=0.611 Sum_probs=22.7
Q ss_pred hHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 021816 51 RWQKVAAMIPGKTVVDVIKQYKELEAD 77 (307)
Q Consensus 51 RW~kIAa~vPGRT~~qc~~rY~~L~~d 77 (307)
-|..||..+ |.|+.+|+.+|+.|-..
T Consensus 29 aW~~Ia~~l-~~~~~~~~~kw~~LR~~ 54 (89)
T smart00595 29 AWEEIAEEL-GLSVEECKKRWKNLRDR 54 (89)
T ss_pred HHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 499999999 56999999999988654
No 71
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=72.66 E-value=4.6 Score=39.15 Aligned_cols=51 Identities=20% Similarity=0.370 Sum_probs=38.4
Q ss_pred CCCCHHHHHHHHHHHHH----hCCC-----chhcchhccc---CCCCHHHHHHHHHHHHHHHh
Q 021816 135 VPWTEEEHKLFLLGLKK----HGKG-----DWRNISRNFV---TSRTPTQVASHAQKYFIRQL 185 (307)
Q Consensus 135 ~pWT~EEd~llL~~l~k----yG~G-----~W~~Ia~~~v---~tRT~~Qv~sh~qky~~r~~ 185 (307)
..|+.+|=..||++..+ +..| .|..||+.+- --||+.||+..+.+..++.+
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 57999999999998766 3344 4999996232 35999999999877555543
No 72
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=72.40 E-value=6.1 Score=40.58 Aligned_cols=40 Identities=25% Similarity=0.438 Sum_probs=36.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHH
Q 021816 136 PWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHA 177 (307)
Q Consensus 136 pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~ 177 (307)
.||.||-.+|-.++..||+ ++.+|.+ .+|.|+-..+.-+|
T Consensus 189 ~WT~Ed~vlFe~aF~~~GK-~F~kIrq-~LP~rsLaSlvqyY 228 (534)
T KOG1194|consen 189 EWTAEDIVLFEQAFQFFGK-DFHKIRQ-ALPHRSLASLVQYY 228 (534)
T ss_pred cchHHHHHHHHHHHHHhcc-cHHHHHH-HccCccHHHHHHHH
Confidence 6999999999999999999 9999997 99999988877654
No 73
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=71.96 E-value=4.3 Score=36.49 Aligned_cols=50 Identities=16% Similarity=0.153 Sum_probs=37.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhcchh----cccCCCCHHHHHHHHHHHHHHH
Q 021816 135 VPWTEEEHKLFLLGLKKHGKGDWRNISR----NFVTSRTPTQVASHAQKYFIRQ 184 (307)
Q Consensus 135 ~pWT~EEd~llL~~l~kyG~G~W~~Ia~----~~v~tRT~~Qv~sh~qky~~r~ 184 (307)
..||.|||.+|-+.|-.|++-.=++++. .-.-+||..+|.-+|+.+.+++
T Consensus 6 dawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~rt~aac~fRwNs~vrk~ 59 (170)
T PRK13923 6 DAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALKRTAAACGFRWNSVVRKQ 59 (170)
T ss_pred hhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHhhhHHHHHhHHHHHHHHH
Confidence 3699999999988888887643344431 0135899999999998877765
No 74
>COG1549 Queuine tRNA-ribosyltransferases, contain PUA domain [Translation, ribosomal structure and biogenesis]
Probab=69.47 E-value=2.9 Score=43.25 Aligned_cols=50 Identities=26% Similarity=0.465 Sum_probs=39.1
Q ss_pred CcccccCCCcccCCCccccCCCCCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCC
Q 021816 3 WETEVISPASYISSSNWLLEESKSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPG 61 (307)
Q Consensus 3 ~~~~~~~p~~~~~~~~w~~~~~~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPG 61 (307)
|+.|.+||+.|+ --...+.|++||.+.....|+.|=+.+ +...|-+++||
T Consensus 287 RELE~tYPa~~Y-------Di~VtG~WseEE~~~v~~~l~~yl~k~--~~~~vIAhv~g 336 (519)
T COG1549 287 RELEETYPAAHY-------DIPVTGHWSEEEKEFVAELLKSYLEKT--DYRKVIAHVPG 336 (519)
T ss_pred HHHHhhCccccc-------CccccccccHHHHHHHHHHHHHHhhhc--CCceEEEEcCc
Confidence 678999999887 234567999999999999999887655 34566778999
No 75
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=68.77 E-value=2.5 Score=47.89 Aligned_cols=29 Identities=34% Similarity=0.834 Sum_probs=26.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCchhcch
Q 021816 133 KGVPWTEEEHKLFLLGLKKHGKGDWRNIS 161 (307)
Q Consensus 133 Kg~pWT~EEd~llL~~l~kyG~G~W~~Ia 161 (307)
...-|..|||..||.||-+||.|+|..|-
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir 1160 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIR 1160 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhc
Confidence 45679999999999999999999999996
No 76
>smart00426 TEA TEA domain.
Probab=67.59 E-value=7 Score=30.15 Aligned_cols=23 Identities=17% Similarity=0.227 Sum_probs=18.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCchh
Q 021816 136 PWTEEEHKLFLLGLKKHGKGDWR 158 (307)
Q Consensus 136 pWT~EEd~llL~~l~kyG~G~W~ 158 (307)
-|.++=+..|+++|..|-+-..+
T Consensus 5 vWp~~lE~Af~~aL~~~~~~g~~ 27 (68)
T smart00426 5 VWSPDIEQAFQEALAIYPPCGRR 27 (68)
T ss_pred cCcHHHHHHHHHHHHHcCccCcc
Confidence 59999999999999998753333
No 77
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=66.96 E-value=5.7 Score=41.87 Aligned_cols=48 Identities=19% Similarity=0.483 Sum_probs=43.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHH
Q 021816 22 EESKSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKE 73 (307)
Q Consensus 22 ~~~~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~ 73 (307)
.......||.+|-.+|..++..++.+ ...|++.+|+|+.++++..|..
T Consensus 405 k~~~~~~w~~se~e~fyka~~~~gs~----~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 405 KKLETDKWDASETELFYKALSERGSD----FSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred CccccCcccchhhHHhhhHHhhhccc----ccccccccccccHHHHHHHHhh
Confidence 44567789999999999999999976 7899999999999999999975
No 78
>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=66.67 E-value=6.8 Score=30.87 Aligned_cols=16 Identities=19% Similarity=0.565 Sum_probs=9.6
Q ss_pred CCCCCCCHHHHHHHHH
Q 021816 24 SKSTRWTAAENKMFEN 39 (307)
Q Consensus 24 ~~~~~WT~EEdk~Le~ 39 (307)
...+-||+|||+.|..
T Consensus 45 n~~GiWT~eDD~~L~~ 60 (87)
T PF11626_consen 45 NMPGIWTPEDDEMLRS 60 (87)
T ss_dssp T-TT---HHHHHHHTS
T ss_pred CCCCCcCHHHHHHHHc
Confidence 4567899999999944
No 79
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=65.41 E-value=15 Score=37.02 Aligned_cols=54 Identities=22% Similarity=0.300 Sum_probs=43.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCC------------ChhHHHHHhhCC-----CCCHHHHHHHHHHHHHh
Q 021816 24 SKSTRWTAAENKMFENALAVYDKDS------------PDRWQKVAAMIP-----GKTVVDVIKQYKELEAD 77 (307)
Q Consensus 24 ~~~~~WT~EEdk~Le~Ala~y~~~t------------pdRW~kIAa~vP-----GRT~~qc~~rY~~L~~d 77 (307)
...+.|+++=+..|.+||++|+... =.|-+.||.+|. .||.+||--|-+.|...
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarr 144 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARR 144 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHH
Confidence 4567899999999999999998532 137899999995 58999998887766543
No 80
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=64.77 E-value=10 Score=30.77 Aligned_cols=47 Identities=26% Similarity=0.459 Sum_probs=30.8
Q ss_pred CCCHHHHHHHHHHHHHh----CCC---chhcchhcccCCC-----CHHHHHHHHHHHHHH
Q 021816 136 PWTEEEHKLFLLGLKKH----GKG---DWRNISRNFVTSR-----TPTQVASHAQKYFIR 183 (307)
Q Consensus 136 pWT~EEd~llL~~l~ky----G~G---~W~~Ia~~~v~tR-----T~~Qv~sh~qky~~r 183 (307)
-||+|++-.||+||-.| |.. +|..... +|... |..|+...-.++-+|
T Consensus 6 ~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~-~vk~~l~~~~s~~Ql~~KirrLK~K 64 (98)
T PF04504_consen 6 LWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYD-FVKGSLSFDVSKNQLYDKIRRLKKK 64 (98)
T ss_pred CCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHH-HHHHHccCCCCHHHHHHHHHHHHHH
Confidence 59999999999999888 642 4544442 33322 667777765544333
No 81
>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=58.81 E-value=22 Score=30.61 Aligned_cols=36 Identities=19% Similarity=0.325 Sum_probs=27.8
Q ss_pred HhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHHHhhh
Q 021816 43 VYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELEADIS 79 (307)
Q Consensus 43 ~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~~dV~ 79 (307)
.|+...---|..||..+ ..+..+|+..+..+.++|.
T Consensus 93 ry~~r~~~TW~~IA~~l-~i~erta~r~~~~fK~~i~ 128 (130)
T PF05263_consen 93 RYDRRSRRTWYQIAQKL-HISERTARRWRDRFKNDIY 128 (130)
T ss_pred HHcccccchHHHHHHHh-CccHHHHHHHHHHHHHHhc
Confidence 34433223499999999 5999999999999988764
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=58.63 E-value=28 Score=30.55 Aligned_cols=51 Identities=14% Similarity=0.326 Sum_probs=43.5
Q ss_pred CCCHHHHHHHHHHHHHhCCC--chhcchhcccCCCCHHHHHHHHHHHHHHHhcC
Q 021816 136 PWTEEEHKLFLLGLKKHGKG--DWRNISRNFVTSRTPTQVASHAQKYFIRQLSG 187 (307)
Q Consensus 136 pWT~EEd~llL~~l~kyG~G--~W~~Ia~~~v~tRT~~Qv~sh~qky~~r~~s~ 187 (307)
-++..+-+.||.+|-.||-| +|.-+-. .+..+|..+++.+.--|+.++.-.
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 59999999999999999988 7888876 799999999999987666666533
No 83
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=57.73 E-value=26 Score=29.99 Aligned_cols=41 Identities=10% Similarity=0.153 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHHH
Q 021816 32 AENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELEA 76 (307)
Q Consensus 32 EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~~ 76 (307)
+-|.++..+|..-+.-+ |..||+.+ |-|...|.+|+++|.+
T Consensus 9 ~~D~~Il~~Lq~d~R~s---~~eiA~~l-glS~~tV~~Ri~rL~~ 49 (153)
T PRK11179 9 NLDRGILEALMENARTP---YAELAKQF-GVSPGTIHVRVEKMKQ 49 (153)
T ss_pred HHHHHHHHHHHHcCCCC---HHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 56788888888877654 99999999 8999999999999976
No 84
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=55.57 E-value=27 Score=28.30 Aligned_cols=51 Identities=10% Similarity=0.257 Sum_probs=34.3
Q ss_pred CCCCCHHHHHHHHHHHHHh----CCCCChhHHHHHhhCCC-----CCHHHHHHHHHHHHH
Q 021816 26 STRWTAAENKMFENALAVY----DKDSPDRWQKVAAMIPG-----KTVVDVIKQYKELEA 76 (307)
Q Consensus 26 ~~~WT~EEdk~Le~Ala~y----~~~tpdRW~kIAa~vPG-----RT~~qc~~rY~~L~~ 76 (307)
.+.||+||+-.|.++|+.| |......|..+...|-+ =|..|+.++...|..
T Consensus 4 qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~ 63 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKK 63 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHH
Confidence 4579999999999999987 33222346544444432 377888877777665
No 85
>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=53.11 E-value=64 Score=22.20 Aligned_cols=48 Identities=21% Similarity=0.242 Sum_probs=38.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHH
Q 021816 25 KSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKE 73 (307)
Q Consensus 25 ~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~ 73 (307)
....+|.+....|+..+...+.-+...-+.||+.+ |-+..+|..=+..
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 35679999999999999987655556678999998 7999998875543
No 86
>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=52.37 E-value=13 Score=37.87 Aligned_cols=46 Identities=26% Similarity=0.294 Sum_probs=29.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCch-------------hcchhccc-----CCCCHHHHHHHHHHH
Q 021816 134 GVPWTEEEHKLFLLGLKKHGKGDW-------------RNISRNFV-----TSRTPTQVASHAQKY 180 (307)
Q Consensus 134 g~pWT~EEd~llL~~l~kyG~G~W-------------~~Ia~~~v-----~tRT~~Qv~sh~qky 180 (307)
..-|+++=|..|++||..|.+--. +.|++ || ..||..||.||.|-+
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 346999999999999999865323 34554 44 469999999999955
No 87
>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=51.91 E-value=31 Score=23.87 Aligned_cols=41 Identities=12% Similarity=0.145 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHHHH
Q 021816 139 EEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKYFI 182 (307)
Q Consensus 139 ~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky~~ 182 (307)
+++++.++....-.|. .|..||. .-+.|+..|+.+.++-..
T Consensus 12 ~~~~r~i~~l~~~~g~-s~~eIa~--~l~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 12 PERQREIFLLRYFQGM-SYAEIAE--ILGISESTVKRRLRRARK 52 (54)
T ss_dssp -HHHHHHHHHHHTS----HHHHHH--HCTS-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCc-CHHHHHH--HHCcCHHHHHHHHHHHHh
Confidence 3566677777777788 9999997 558999999998765443
No 88
>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=51.66 E-value=45 Score=32.96 Aligned_cols=51 Identities=18% Similarity=0.315 Sum_probs=39.0
Q ss_pred cCCCCCCHHHHHHHHHHHHHh-CCC--chhcchhcccCCCCHHHHHHHHHHHHHH
Q 021816 132 KKGVPWTEEEHKLFLLGLKKH-GKG--DWRNISRNFVTSRTPTQVASHAQKYFIR 183 (307)
Q Consensus 132 kKg~pWT~EEd~llL~~l~ky-G~G--~W~~Ia~~~v~tRT~~Qv~sh~qky~~r 183 (307)
.....||.-|-+.||.+|+-. |.- +-..|++ .+++|+..+|++.-|.+-.|
T Consensus 19 ~gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~-~l~~Rs~aEI~~fl~~LK~r 72 (344)
T PF11035_consen 19 TGPAAWSAREKRQLLRLLQARRGQPEPDAAELAK-ELPGRSEAEIRDFLQQLKGR 72 (344)
T ss_pred CCcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHh-hccCcCHHHHHHHHHHHHHH
Confidence 345689999999999999865 321 4557776 89999999999877765444
No 89
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=50.49 E-value=33 Score=29.77 Aligned_cols=42 Identities=14% Similarity=0.158 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHHH
Q 021816 31 AAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELEA 76 (307)
Q Consensus 31 ~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~~ 76 (307)
.+-|.++..+|..-+.-+ |..||+.+ |-|..-|.+|+++|++
T Consensus 13 D~~D~~IL~~Lq~d~R~s---~~eiA~~l-glS~~tv~~Ri~rL~~ 54 (164)
T PRK11169 13 DRIDRNILNELQKDGRIS---NVELSKRV-GLSPTPCLERVRRLER 54 (164)
T ss_pred HHHHHHHHHHhccCCCCC---HHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 345677777777766554 99999999 8999999999999987
No 90
>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=50.38 E-value=7.6 Score=34.84 Aligned_cols=26 Identities=35% Similarity=0.829 Sum_probs=24.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhcch
Q 021816 136 PWTEEEHKLFLLGLKKHGKGDWRNIS 161 (307)
Q Consensus 136 pWT~EEd~llL~~l~kyG~G~W~~Ia 161 (307)
-|-..-|-.||.|+.+||.|+|..|.
T Consensus 5 iw~r~hdywll~gi~~hgy~rwqdi~ 30 (173)
T PF08074_consen 5 IWHRRHDYWLLAGIVKHGYGRWQDIQ 30 (173)
T ss_pred hhhhhhhHHHHhHHhhccchhHHHHh
Confidence 58899999999999999999999997
No 91
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=47.81 E-value=83 Score=21.55 Aligned_cols=46 Identities=17% Similarity=0.206 Sum_probs=36.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHH
Q 021816 26 STRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYK 72 (307)
Q Consensus 26 ~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~ 72 (307)
...+|.++...|+..++..+.-+...-+.||+.+ |-+..+|..=+.
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 4569999999999999887654455677999988 789888876554
No 92
>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=47.78 E-value=55 Score=22.82 Aligned_cols=47 Identities=23% Similarity=0.280 Sum_probs=38.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHH
Q 021816 25 KSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYK 72 (307)
Q Consensus 25 ~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~ 72 (307)
....+|.++.+.|+......+.-+...-+.||..+ |-+..+|..=|.
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 35679999999999999985554456788999998 799999876554
No 93
>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=46.94 E-value=45 Score=29.23 Aligned_cols=48 Identities=29% Similarity=0.455 Sum_probs=39.0
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCchhcchhccc---CCCCHHHHHHHHHHH
Q 021816 132 KKGVPWTEEEHKLFLLGLKKHGKGDWRNISRNFV---TSRTPTQVASHAQKY 180 (307)
Q Consensus 132 kKg~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v---~tRT~~Qv~sh~qky 180 (307)
++..+=|+.|...+..+|++||. |+..+++..- --.|+.||+....+|
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 34557999999999999999998 9999995322 137999999988776
No 94
>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=46.87 E-value=21 Score=26.41 Aligned_cols=28 Identities=29% Similarity=0.451 Sum_probs=23.5
Q ss_pred hHHHHHhhCCC-CCHHHHHHHHHHHHHhh
Q 021816 51 RWQKVAAMIPG-KTVVDVIKQYKELEADI 78 (307)
Q Consensus 51 RW~kIAa~vPG-RT~~qc~~rY~~L~~dV 78 (307)
-|..||..++. -++.+|+++|..|....
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~y 56 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDRY 56 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHHH
Confidence 49999999964 58999999999987653
No 95
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=45.78 E-value=56 Score=30.13 Aligned_cols=51 Identities=10% Similarity=0.278 Sum_probs=37.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHh-----hCCCCCHHHHHHHHHHHHH
Q 021816 25 KSTRWTAAENKMFENALAVYDKDSPDRWQKVAA-----MIPGKTVVDVIKQYKELEA 76 (307)
Q Consensus 25 ~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa-----~vPGRT~~qc~~rY~~L~~ 76 (307)
....||.+|+.+|......... +.+.+++|=. +-++||+.+...||..+..
T Consensus 72 ~kalfS~~EE~lL~~v~s~~~p-~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkq 127 (199)
T PF13325_consen 72 SKALFSKEEEQLLGTVASSSQP-SLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQ 127 (199)
T ss_pred ccCCCCHHHHHHHHhhhhccCC-cHHHHHHHHHhChhhhccccCHHHHHHHHHHHHH
Confidence 4678999999999996554432 3456776644 3358999999999997543
No 96
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=43.39 E-value=38 Score=34.35 Aligned_cols=49 Identities=14% Similarity=0.199 Sum_probs=39.5
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhcchhcc----cCC-CCHHHHHHHHHHHHHHH
Q 021816 135 VPWTEEEHKLFLLGLKKHGKGDWRNISRNF----VTS-RTPTQVASHAQKYFIRQ 184 (307)
Q Consensus 135 ~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~----v~t-RT~~Qv~sh~qky~~r~ 184 (307)
..||.||-..|..+.++|-- +|--|+..| ++. ||...++.+|...-+.+
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 46999999999999999999 999999543 454 99999998876443333
No 97
>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=38.99 E-value=47 Score=22.75 Aligned_cols=39 Identities=13% Similarity=0.249 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHH
Q 021816 140 EEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKY 180 (307)
Q Consensus 140 EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky 180 (307)
+=|..||..|.+-|+-.|..||+ .-+=|...|..+.++.
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 45889999999999888999997 4577888888887753
No 98
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=34.68 E-value=1.1e+02 Score=23.94 Aligned_cols=41 Identities=20% Similarity=0.186 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHHH
Q 021816 32 AENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELEA 76 (307)
Q Consensus 32 EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~~ 76 (307)
+.|..+..+|...+.-+ +..||..+ |-+...|.++.+.|.+
T Consensus 3 ~~D~~il~~L~~~~~~~---~~~la~~l-~~s~~tv~~~l~~L~~ 43 (108)
T smart00344 3 EIDRKILEELQKDARIS---LAELAKKV-GLSPSTVHNRVKRLEE 43 (108)
T ss_pred HHHHHHHHHHHHhCCCC---HHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 45777778888766543 99999998 8999999999999877
No 99
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=33.90 E-value=49 Score=35.11 Aligned_cols=44 Identities=25% Similarity=0.424 Sum_probs=39.5
Q ss_pred cCCCCCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHH
Q 021816 132 KKGVPWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHA 177 (307)
Q Consensus 132 kKg~pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~ 177 (307)
....+||.+|=++|-.++...|. +...|+. .+++|+..||+-.+
T Consensus 407 ~~~~~w~~se~e~fyka~~~~gs-~~slis~-l~p~R~rk~iK~K~ 450 (584)
T KOG2009|consen 407 LETDKWDASETELFYKALSERGS-DFSLISN-LFPLRDRKQIKAKF 450 (584)
T ss_pred cccCcccchhhHHhhhHHhhhcc-ccccccc-ccccccHHHHHHHH
Confidence 34568999999999999999998 9999996 99999999999844
No 100
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=30.70 E-value=75 Score=27.13 Aligned_cols=39 Identities=10% Similarity=0.227 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHH
Q 021816 140 EEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKY 180 (307)
Q Consensus 140 EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky 180 (307)
+-|+.||..|++-|+-.|..||+ .-+-|+..|+.+.++.
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~--~lglS~~tV~~Ri~rL 47 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAK--QFGVSPGTIHVRVEKM 47 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHH--HHCcCHHHHHHHHHHH
Confidence 57999999999999989999997 4588999999987754
No 101
>smart00426 TEA TEA domain.
Probab=28.45 E-value=97 Score=23.92 Aligned_cols=22 Identities=27% Similarity=0.555 Sum_probs=19.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCCC
Q 021816 26 STRWTAAENKMFENALAVYDKD 47 (307)
Q Consensus 26 ~~~WT~EEdk~Le~Ala~y~~~ 47 (307)
...|.++=+..|.+||+.|+..
T Consensus 3 ~~vWp~~lE~Af~~aL~~~~~~ 24 (68)
T smart00426 3 EGVWSPDIEQAFQEALAIYPPC 24 (68)
T ss_pred CCcCcHHHHHHHHHHHHHcCcc
Confidence 4579999999999999999854
No 102
>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=27.84 E-value=81 Score=27.85 Aligned_cols=42 Identities=19% Similarity=0.239 Sum_probs=32.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHH
Q 021816 28 RWTAAENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKEL 74 (307)
Q Consensus 28 ~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L 74 (307)
.||+|+..+|.++... |.. -..||+.|+|.|.--|+-+...|
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 6999999999985542 222 56999999878888888777654
No 103
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=27.29 E-value=81 Score=34.97 Aligned_cols=48 Identities=29% Similarity=0.484 Sum_probs=42.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHHHHHHh
Q 021816 136 PWTEEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKYFIRQL 185 (307)
Q Consensus 136 pWT~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky~~r~~ 185 (307)
.||.-+=..|+.+..+||+++-..|++ -+.+ |+..|..++.-+|-|++
T Consensus 797 ~w~k~df~~fi~a~eKygr~di~~ia~-~~e~-~~eev~~y~rvfwer~~ 844 (971)
T KOG0385|consen 797 NWTKRDFNQFIKANEKYGRDDIENIAA-EVEG-TPEEVGEYARVFWERLE 844 (971)
T ss_pred chhhhhHHHHHHHhhccCcchhhhhHH-hhcC-CHHHHHHHHHHHHHHHH
Confidence 499999999999999999999999997 6666 99999999887777763
No 104
>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=26.71 E-value=1.1e+02 Score=30.91 Aligned_cols=51 Identities=16% Similarity=0.321 Sum_probs=38.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCC--------CCCHHHHHHHHHHHHHhhh
Q 021816 24 SKSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIP--------GKTVVDVIKQYKELEADIS 79 (307)
Q Consensus 24 ~~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vP--------GRT~~qc~~rY~~L~~dV~ 79 (307)
..+..||.||...+++.++.++.. |..|.. +| +-...+-++.|+..+.++.
T Consensus 35 p~gevW~~~~i~~~k~~ie~~GL~----~~vvEs-~pv~e~Ik~g~~~rd~~Ienyk~~irNla 93 (394)
T TIGR00695 35 PNGEVWEKEEIRKRKEYIESAGLH----WSVVES-VPVHEAIKTGTGNYGRWIENYKQTLRNLA 93 (394)
T ss_pred CCCCCCCHHHHHHHHHHHHHcCCe----EEEEeC-CCccHHHHcCCCcHHHHHHHHHHHHHHHH
Confidence 356689999999999999999865 777643 33 3456667788888777654
No 105
>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=26.28 E-value=61 Score=26.38 Aligned_cols=27 Identities=15% Similarity=0.324 Sum_probs=20.0
Q ss_pred HHHHHHHHHHhCCCCChhHHHHHhhCC
Q 021816 34 NKMFENALAVYDKDSPDRWQKVAAMIP 60 (307)
Q Consensus 34 dk~Le~Ala~y~~~tpdRW~kIAa~vP 60 (307)
.+.|.+.++.-|......|+.||..+.
T Consensus 44 ~kfl~eIi~~~P~~d~~~Wd~IA~~mN 70 (108)
T PF00674_consen 44 MKFLKEIIEVKPGVDMKKWDIIASRMN 70 (108)
T ss_pred HHHHHHHHhcCCCCCcccHHHHHHHHH
Confidence 456666666666656788999999884
No 106
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=25.91 E-value=82 Score=27.26 Aligned_cols=40 Identities=18% Similarity=0.257 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHhCCCchhcchhcccCCCCHHHHHHHHHHH
Q 021816 139 EEEHKLFLLGLKKHGKGDWRNISRNFVTSRTPTQVASHAQKY 180 (307)
Q Consensus 139 ~EEd~llL~~l~kyG~G~W~~Ia~~~v~tRT~~Qv~sh~qky 180 (307)
.+-|..||..|++-|+=.|..||+ .-+=|...|+.|.++.
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 567899999999999989999997 5588888999988765
No 107
>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=25.49 E-value=74 Score=32.54 Aligned_cols=50 Identities=22% Similarity=0.311 Sum_probs=34.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCC----------ChhHHHHHhhCC-----CCCHHHHHHHHHHH
Q 021816 25 KSTRWTAAENKMFENALAVYDKDS----------PDRWQKVAAMIP-----GKTVVDVIKQYKEL 74 (307)
Q Consensus 25 ~~~~WT~EEdk~Le~Ala~y~~~t----------pdRW~kIAa~vP-----GRT~~qc~~rY~~L 74 (307)
....|+++=+..|.+||++|+... ..|-+.||.+|- .||.+||--|-+.|
T Consensus 48 ~~~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~~yi~~~tg~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 48 GEGVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELISDYIKLKTGKTRTRKQVSSHIQVL 112 (431)
T ss_dssp GS--S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHHHHHHHHHS----SHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHHHHHHHHhCcccchhHHHHHHHHH
Confidence 457899999999999999998642 346678888774 38999999998887
No 108
>PRK03906 mannonate dehydratase; Provisional
Probab=24.52 E-value=1.3e+02 Score=30.27 Aligned_cols=51 Identities=16% Similarity=0.321 Sum_probs=37.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCC--------CCCHHHHHHHHHHHHHhhh
Q 021816 24 SKSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIP--------GKTVVDVIKQYKELEADIS 79 (307)
Q Consensus 24 ~~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vP--------GRT~~qc~~rY~~L~~dV~ 79 (307)
..+..||.||.+.+++.|+.++.. |..|.. +| +-...+-++.|++.+.++.
T Consensus 35 ~~g~~W~~~~i~~~~~~ie~~Gl~----~~vvEs-~pv~~~Ik~g~~~rd~~ie~y~~sirnlg 93 (385)
T PRK03906 35 PVGEVWPVEEILARKAEIEAAGLE----WSVVES-VPVHEDIKTGTPNRDRYIENYKQTLRNLA 93 (385)
T ss_pred CCCCCCCHHHHHHHHHHHHHcCCe----EEEEeC-CCccHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence 356789999999999999999965 776643 33 4566667777877766543
No 109
>COG5269 ZUO1 Ribosome-associated chaperone zuotin [Translation, ribosomal structure and biogenesis / Posttranslational modification, protein turnover, chaperones]
Probab=23.83 E-value=99 Score=30.30 Aligned_cols=51 Identities=16% Similarity=0.262 Sum_probs=39.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCC-ChhHHHHHhhCCC-----CCHHHHHHHHHHHHH
Q 021816 26 STRWTAAENKMFENALAVYDKDS-PDRWQKVAAMIPG-----KTVVDVIKQYKELEA 76 (307)
Q Consensus 26 ~~~WT~EEdk~Le~Ala~y~~~t-pdRW~kIAa~vPG-----RT~~qc~~rY~~L~~ 76 (307)
.+.|++|+-..++.+++.+++.. ..+|+.+|+.+-+ |..+++++...+...
T Consensus 245 ~rkWereagar~~a~aa~k~kae~k~kae~ea~a~asa~a~kkkaKE~~kka~k~~K 301 (379)
T COG5269 245 IRKWEREAGARLKALAALKGKAEAKNKAEIEAEALASATAVKKKAKEVMKKALKMEK 301 (379)
T ss_pred HhccchhhhhhHHHHHHHhhhhHHHhHHHHHHHHhhhhHHHHHhHHHHHHHHHHHHH
Confidence 46899999999999999988654 5689999988764 566666666655443
No 110
>COG1312 UxuA D-mannonate dehydratase [Carbohydrate transport and metabolism]
Probab=23.81 E-value=1.3e+02 Score=30.05 Aligned_cols=54 Identities=17% Similarity=0.278 Sum_probs=38.5
Q ss_pred cCCCCCCCCCHHHHHHHHHHHHHhCCCCChhHHHHHhhCC--------CCCHHHHHHHHHHHHHhhh
Q 021816 21 LEESKSTRWTAAENKMFENALAVYDKDSPDRWQKVAAMIP--------GKTVVDVIKQYKELEADIS 79 (307)
Q Consensus 21 ~~~~~~~~WT~EEdk~Le~Ala~y~~~tpdRW~kIAa~vP--------GRT~~qc~~rY~~L~~dV~ 79 (307)
++...+..|..||...+++.|..++.. |..|-. +| +.+..+-++.|+.....+.
T Consensus 32 h~iP~g~~W~~~~I~~~k~~ie~~Gl~----~~vvES-vPvhedIK~g~~~rd~~Ieny~~tirnLa 93 (362)
T COG1312 32 HHIPAGEVWPVEEILKRKEEIESAGLT----WSVVES-VPVHEDIKLGTPTRDRYIENYKQTIRNLA 93 (362)
T ss_pred CCCCCCCcCcHHHHHHHHHHHHHcCce----EEeecC-CCHHHHHHhcCCcHHHHHHHHHHHHHHHH
Confidence 344567799999999999999999965 655543 33 4566666666776666544
No 111
>PF02509 Rota_NS35: Rotavirus non-structural protein 35; InterPro: IPR003668 Rotavirus non-structural protein 2 (NSP2) is a basic protein which possesses RNA-binding activity and is essential for genome replication []. It may also be important for viral RNA packaging.; GO: 0003723 RNA binding, 0019079 viral genome replication; PDB: 2GU0_B 2R8F_A 2R7P_A 2R7C_A 1L9V_A 2R7J_A.
Probab=23.15 E-value=72 Score=30.92 Aligned_cols=52 Identities=29% Similarity=0.442 Sum_probs=32.8
Q ss_pred CCCHHHHHHHHHHHHH---------hCCCchhcchhcccCCCCHHHHHHHHHHHHHHHhcCCCCCCCCC
Q 021816 136 PWTEEEHKLFLLGLKK---------HGKGDWRNISRNFVTSRTPTQVASHAQKYFIRQLSGGKDKRRAS 195 (307)
Q Consensus 136 pWT~EEd~llL~~l~k---------yG~G~W~~Ia~~~v~tRT~~Qv~sh~qky~~r~~s~~k~~~r~s 195 (307)
|=.+-+.+.|..-|+= ||+|.|+-+-- .||.+||.+.|...++..|..+..+
T Consensus 196 pi~d~~~kelvAelrwqyNkFAvItHGkgHyRvV~y--------s~v~nHAdRv~at~ks~~K~~~~~~ 256 (316)
T PF02509_consen 196 PISDSNVKELVAELRWQYNKFAVITHGKGHYRVVKY--------SSVANHADRVYATFKSNKKTGSQFS 256 (316)
T ss_dssp ---HHHHHHHHHHHHHHTTTEEEEESSSSCEEEEEG--------GGHHHHHHHHHHHHCTTCCTT----
T ss_pred CCchHHHHHHHHHHHHhhcceEEEeccCceEEEEeh--------HHhhhhHHHHHHHHhcccccCCccc
Confidence 4555555555544432 78888887752 5899999999999998776654333
No 112
>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=21.97 E-value=69 Score=24.47 Aligned_cols=21 Identities=29% Similarity=0.442 Sum_probs=17.4
Q ss_pred HHHHHhhCCCCCHHHHHHHHH
Q 021816 52 WQKVAAMIPGKTVVDVIKQYK 72 (307)
Q Consensus 52 W~kIAa~vPGRT~~qc~~rY~ 72 (307)
-..||..+-|||+.++++.+.
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 468999999999999999884
No 113
>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=21.60 E-value=2.7e+02 Score=18.86 Aligned_cols=27 Identities=15% Similarity=0.198 Sum_probs=22.2
Q ss_pred hHHHHHhhCCCCCHHHHHHHHHHHHHhh
Q 021816 51 RWQKVAAMIPGKTVVDVIKQYKELEADI 78 (307)
Q Consensus 51 RW~kIAa~vPGRT~~qc~~rY~~L~~dV 78 (307)
.+..||..+ |-|...|.++.......+
T Consensus 22 t~~eIa~~l-g~s~~~V~~~~~~al~kL 48 (50)
T PF04545_consen 22 TLEEIAERL-GISRSTVRRILKRALKKL 48 (50)
T ss_dssp SHHHHHHHH-TSCHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHH-CCcHHHHHHHHHHHHHHh
Confidence 399999998 799999999887766544
No 114
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=21.18 E-value=2.5e+02 Score=23.23 Aligned_cols=41 Identities=17% Similarity=0.182 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHhCCCCChhHHHHHhhCCCCCHHHHHHHHHHHHH
Q 021816 32 AENKMFENALAVYDKDSPDRWQKVAAMIPGKTVVDVIKQYKELEA 76 (307)
Q Consensus 32 EEdk~Le~Ala~y~~~tpdRW~kIAa~vPGRT~~qc~~rY~~L~~ 76 (307)
+-|.++.++|..-+.- -+..||+.+ |.|...|.+|=++|++
T Consensus 8 ~~D~~IL~~L~~d~r~---~~~eia~~l-glS~~~v~~Ri~~L~~ 48 (154)
T COG1522 8 DIDRRILRLLQEDARI---SNAELAERV-GLSPSTVLRRIKRLEE 48 (154)
T ss_pred HHHHHHHHHHHHhCCC---CHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3455666666665543 499999999 7999999999999987
No 115
>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.
Probab=20.10 E-value=4.6e+02 Score=21.79 Aligned_cols=49 Identities=16% Similarity=0.224 Sum_probs=34.5
Q ss_pred CCHHHHHHHHHHHHHhC--------CCC-------------------ChhHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 021816 29 WTAAENKMFENALAVYD--------KDS-------------------PDRWQKVAAMIPGKTVVDVIKQYKELEAD 77 (307)
Q Consensus 29 WT~EEdk~Le~Ala~y~--------~~t-------------------pdRW~kIAa~vPGRT~~qc~~rY~~L~~d 77 (307)
.|++||-.|..+|..|- .++ -.=+...|+..|.-|...=++||.+++.+
T Consensus 2 fTA~dDY~Lc~~i~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~fF~~~~~~~p~HT~~sWRDR~RKfv~~ 77 (105)
T PF09197_consen 2 FTADDDYALCKAIKKQFYRDIYQKDPDTGSSLISDGDSKEFIPKRDMRSFFKDLARKNPRHTENSWRDRYRKFVSE 77 (105)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHSB-TTSS-B----------------TTHHHHHHHHTTTS-HHHHHHHHHHTHHH
T ss_pred CChHHHHHHHHHHHHHHHHHHHhhCcccccccccCCCccccccchhhHHHHHHHHHcCCccchhHHHHHHHHHHHH
Confidence 69999999999887641 100 01256778888999999999999987765
Done!