Query 046093
Match_columns 474
No_of_seqs 320 out of 1782
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 08:39:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046093.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046093hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03091 hypothetical protein; 100.0 1.2E-33 2.5E-38 292.3 11.0 124 1-124 1-124 (459)
2 PLN03212 Transcription repress 100.0 6.7E-33 1.5E-37 269.6 9.8 120 3-122 14-133 (249)
3 KOG0048 Transcription factor, 100.0 2.9E-29 6.3E-34 245.5 9.5 112 9-120 4-115 (238)
4 KOG0048 Transcription factor, 99.9 1.4E-28 3E-33 240.7 5.5 109 63-171 5-115 (238)
5 PLN03212 Transcription repress 99.9 3.4E-26 7.4E-31 222.9 9.3 121 44-172 10-132 (249)
6 PLN03091 hypothetical protein; 99.9 3E-24 6.5E-29 222.7 6.7 106 62-167 9-116 (459)
7 KOG0049 Transcription factor, 99.9 2E-22 4.4E-27 214.7 9.3 158 5-162 244-457 (939)
8 KOG0049 Transcription factor, 99.8 1.8E-19 4E-24 192.4 5.0 105 1-106 347-452 (939)
9 COG5147 REB1 Myb superfamily p 99.6 1.4E-15 3E-20 162.5 6.9 160 9-170 15-174 (512)
10 PF13921 Myb_DNA-bind_6: Myb-l 99.6 1E-15 2.2E-20 119.0 3.3 60 17-78 1-60 (60)
11 KOG0050 mRNA splicing protein 99.5 1E-14 2.2E-19 153.5 3.5 109 11-121 4-112 (617)
12 KOG0051 RNA polymerase I termi 99.4 6.7E-14 1.4E-18 151.2 5.7 147 13-162 383-566 (607)
13 PF13921 Myb_DNA-bind_6: Myb-l 99.4 1.1E-13 2.3E-18 107.6 3.7 59 70-128 1-59 (60)
14 PF00249 Myb_DNA-binding: Myb- 99.3 3.7E-12 8E-17 95.3 5.2 46 67-112 1-48 (48)
15 PF00249 Myb_DNA-binding: Myb- 99.2 1.3E-12 2.9E-17 97.7 0.6 48 14-61 1-48 (48)
16 KOG0051 RNA polymerase I termi 99.1 4E-11 8.7E-16 129.9 5.9 149 13-165 307-509 (607)
17 smart00717 SANT SANT SWI3, AD 99.1 3.2E-10 7E-15 82.1 6.1 48 67-114 1-49 (49)
18 COG5147 REB1 Myb superfamily p 99.1 5.9E-11 1.3E-15 127.3 2.7 101 64-164 17-118 (512)
19 cd00167 SANT 'SWI3, ADA2, N-Co 98.9 2.8E-09 6E-14 76.2 5.8 44 69-112 1-45 (45)
20 smart00717 SANT SANT SWI3, AD 98.9 7.1E-10 1.5E-14 80.4 2.0 48 14-62 1-48 (49)
21 KOG0050 mRNA splicing protein 98.9 6.9E-10 1.5E-14 117.6 2.3 98 65-163 5-103 (617)
22 cd00167 SANT 'SWI3, ADA2, N-Co 98.7 3.7E-09 8.1E-14 75.5 1.7 45 16-61 1-45 (45)
23 KOG0457 Histone acetyltransfer 97.4 0.0005 1.1E-08 72.8 8.1 50 64-113 69-119 (438)
24 TIGR01557 myb_SHAQKYF myb-like 97.2 0.00017 3.8E-09 56.6 2.1 49 13-61 2-54 (57)
25 KOG0457 Histone acetyltransfer 97.2 0.00015 3.3E-09 76.6 1.5 50 11-61 69-118 (438)
26 TIGR01557 myb_SHAQKYF myb-like 97.1 0.0012 2.7E-08 51.8 6.1 47 67-113 3-55 (57)
27 TIGR02894 DNA_bind_RsfA transc 97.0 0.00053 1.1E-08 64.2 3.7 51 66-117 3-60 (161)
28 COG5259 RSC8 RSC chromatin rem 96.4 0.0032 7E-08 67.3 4.5 45 67-111 279-323 (531)
29 COG5259 RSC8 RSC chromatin rem 96.4 0.0012 2.5E-08 70.6 1.1 46 13-60 278-323 (531)
30 KOG1279 Chromatin remodeling f 96.3 0.0052 1.1E-07 67.1 5.4 47 66-112 252-298 (506)
31 PF08914 Myb_DNA-bind_2: Rap1 96.2 0.0076 1.6E-07 48.6 4.5 51 67-117 2-62 (65)
32 PF13325 MCRS_N: N-terminal re 96.1 0.009 1.9E-07 58.0 5.3 99 16-116 1-130 (199)
33 KOG1279 Chromatin remodeling f 96.1 0.0026 5.6E-08 69.4 1.7 48 11-60 250-297 (506)
34 PF13837 Myb_DNA-bind_4: Myb/S 96.0 0.0041 8.9E-08 51.3 2.3 49 67-115 1-67 (90)
35 COG5114 Histone acetyltransfer 95.8 0.015 3.2E-07 59.9 5.5 47 67-113 63-110 (432)
36 PRK13923 putative spore coat p 95.3 0.015 3.2E-07 55.3 3.3 52 65-117 3-61 (170)
37 PF08914 Myb_DNA-bind_2: Rap1 94.9 0.011 2.5E-07 47.6 1.2 52 14-65 2-61 (65)
38 PF13837 Myb_DNA-bind_4: Myb/S 94.8 0.0043 9.3E-08 51.2 -1.5 47 14-60 1-63 (90)
39 PF13873 Myb_DNA-bind_5: Myb/S 93.8 0.089 1.9E-06 42.7 4.1 49 67-115 2-72 (78)
40 TIGR02894 DNA_bind_RsfA transc 93.7 0.017 3.7E-07 54.3 -0.3 49 12-62 2-56 (161)
41 PF13873 Myb_DNA-bind_5: Myb/S 93.3 0.022 4.9E-07 46.2 -0.1 49 13-61 1-69 (78)
42 COG5114 Histone acetyltransfer 92.0 0.046 1E-06 56.4 0.1 48 14-62 63-110 (432)
43 PRK13923 putative spore coat p 90.3 0.074 1.6E-06 50.6 -0.4 50 11-62 2-57 (170)
44 PLN03142 Probable chromatin-re 89.6 0.66 1.4E-05 55.1 6.6 99 16-115 826-987 (1033)
45 COG5118 BDP1 Transcription ini 89.1 0.55 1.2E-05 49.7 4.8 45 69-113 367-411 (507)
46 KOG4282 Transcription factor G 83.7 1.5 3.2E-05 45.5 4.7 49 67-115 54-116 (345)
47 PF13325 MCRS_N: N-terminal re 79.5 4.3 9.3E-05 39.7 5.9 93 69-162 1-125 (199)
48 PF09111 SLIDE: SLIDE; InterP 78.1 3.5 7.7E-05 37.0 4.5 51 64-114 46-112 (118)
49 PF12776 Myb_DNA-bind_3: Myb/S 77.1 5.2 0.00011 33.2 5.0 43 69-111 1-61 (96)
50 PF11626 Rap1_C: TRF2-interact 72.4 2.4 5.1E-05 35.8 1.8 30 10-42 43-80 (87)
51 KOG1194 Predicted DNA-binding 71.2 6.9 0.00015 42.6 5.3 45 66-110 186-230 (534)
52 KOG2656 DNA methyltransferase 70.4 3.5 7.5E-05 44.0 2.8 55 68-122 131-191 (445)
53 KOG4282 Transcription factor G 70.3 1.6 3.4E-05 45.3 0.3 46 15-60 55-112 (345)
54 PF09111 SLIDE: SLIDE; InterP 64.8 4.4 9.5E-05 36.4 2.0 34 11-44 46-82 (118)
55 PF13404 HTH_AsnC-type: AsnC-t 63.8 13 0.00028 27.3 4.0 38 73-111 3-41 (42)
56 COG5118 BDP1 Transcription ini 60.6 4.4 9.6E-05 43.1 1.4 63 15-79 366-436 (507)
57 PRK11179 DNA-binding transcrip 60.1 16 0.00034 33.5 4.8 45 73-118 9-54 (153)
58 KOG4167 Predicted DNA-binding 54.7 5.5 0.00012 45.6 1.0 43 15-59 620-662 (907)
59 PF01388 ARID: ARID/BRIGHT DNA 53.7 24 0.00052 29.3 4.5 38 77-114 40-90 (92)
60 PF08281 Sigma70_r4_2: Sigma-7 53.0 25 0.00054 26.1 4.1 41 72-113 12-52 (54)
61 PRK11169 leucine-responsive tr 51.3 20 0.00044 33.2 4.1 46 72-118 13-59 (164)
62 smart00501 BRIGHT BRIGHT, ARID 49.4 28 0.00061 29.2 4.3 39 77-115 36-87 (93)
63 KOG4167 Predicted DNA-binding 47.8 28 0.0006 40.2 5.0 44 67-110 619-662 (907)
64 smart00595 MADF subfamily of S 43.8 20 0.00043 29.4 2.5 24 88-112 29-52 (89)
65 KOG4468 Polycomb-group transcr 42.6 30 0.00064 39.2 4.2 50 67-116 88-147 (782)
66 PF11626 Rap1_C: TRF2-interact 39.7 27 0.00058 29.4 2.7 24 63-86 43-74 (87)
67 KOG4468 Polycomb-group transcr 38.8 18 0.00038 40.9 1.8 47 14-61 88-143 (782)
68 KOG2009 Transcription initiati 37.7 34 0.00074 38.5 3.8 46 66-111 408-453 (584)
69 PF13404 HTH_AsnC-type: AsnC-t 37.1 11 0.00025 27.6 0.0 38 20-59 3-40 (42)
70 KOG2656 DNA methyltransferase 34.3 20 0.00044 38.5 1.3 49 11-60 127-180 (445)
71 PRK11179 DNA-binding transcrip 33.1 16 0.00036 33.4 0.4 46 19-66 8-53 (153)
72 smart00344 HTH_ASNC helix_turn 32.1 93 0.002 26.2 4.9 45 73-118 3-48 (108)
73 KOG0384 Chromodomain-helicase 32.0 43 0.00093 40.9 3.6 76 14-96 1133-1209(1373)
74 PRK11169 leucine-responsive tr 30.6 15 0.00034 34.0 -0.2 46 19-66 13-58 (164)
75 PF11035 SnAPC_2_like: Small n 29.9 7E+02 0.015 26.5 12.8 92 67-162 21-125 (344)
76 PF11035 SnAPC_2_like: Small n 28.8 1.5E+02 0.0032 31.4 6.4 86 14-113 21-127 (344)
77 PF10545 MADF_DNA_bdg: Alcohol 27.9 47 0.001 26.3 2.2 25 88-112 28-53 (85)
78 PF04545 Sigma70_r4: Sigma-70, 25.7 1.1E+02 0.0024 22.4 3.8 41 73-114 7-47 (50)
79 PRK09413 IS2 repressor TnpA; R 25.1 1.2E+02 0.0026 26.8 4.4 50 7-61 4-53 (121)
80 TIGR02985 Sig70_bacteroi1 RNA 23.8 1.4E+02 0.003 26.1 4.6 36 78-114 121-156 (161)
81 PF09420 Nop16: Ribosome bioge 23.8 1.6E+02 0.0035 27.5 5.3 47 66-112 113-163 (164)
82 KOG1194 Predicted DNA-binding 22.9 38 0.00082 37.2 1.0 45 13-59 186-230 (534)
83 PF02954 HTH_8: Bacterial regu 22.1 1.8E+02 0.0038 21.0 4.1 36 73-109 5-40 (42)
84 PF09905 DUF2132: Uncharacteri 21.8 1E+02 0.0022 25.1 3.0 24 75-100 12-35 (64)
85 COG1522 Lrp Transcriptional re 21.1 1.5E+02 0.0033 26.3 4.5 45 73-118 8-53 (154)
86 KOG4329 DNA-binding protein [G 20.8 2.3E+02 0.0051 30.6 6.2 43 68-110 278-321 (445)
87 PLN03142 Probable chromatin-re 20.6 52 0.0011 39.7 1.6 33 12-44 924-956 (1033)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=1.2e-33 Score=292.28 Aligned_cols=124 Identities=57% Similarity=1.036 Sum_probs=117.4
Q ss_pred CCCCcccccCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCChHHHHHHHH
Q 046093 1 MGRTPCCEKVGLKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDLRRGNITTEEEETIIK 80 (474)
Q Consensus 1 mgR~~~~~kp~lkKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L~p~lkkg~WT~EED~~Ll~ 80 (474)
|||++||.|++++|++||+|||++|+++|.+||..+|..||+.++.+|+++|||+||.++|+|.+++++||+|||++|++
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999998745999999999999999999999999999999999
Q ss_pred HHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhccccccCCCCCC
Q 046093 81 LHASLGNRWSVIASHLPGRTDNELKNYWNTHLSKKIHTFQGPVG 124 (474)
Q Consensus 81 lV~~~G~~W~~IAk~lpgRT~~qcR~RW~~~Lrp~i~~~~~t~e 124 (474)
++.+||.+|..||+.|+|||+++||+||+.+|++.+++......
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~ 124 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPN 124 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCC
Confidence 99999999999999999999999999999999998876544333
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.98 E-value=6.7e-33 Score=269.62 Aligned_cols=120 Identities=63% Similarity=1.209 Sum_probs=113.6
Q ss_pred CCcccccCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCChHHHHHHHHHH
Q 046093 3 RTPCCEKVGLKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDLRRGNITTEEEETIIKLH 82 (474)
Q Consensus 3 R~~~~~kp~lkKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L~p~lkkg~WT~EED~~Ll~lV 82 (474)
|.+||.|++++|++||+|||++|+++|++||..+|..||+.++.+|+++|||+||.++|+|.+++++||+|||++|++++
T Consensus 14 ~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~ 93 (249)
T PLN03212 14 TTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLH 93 (249)
T ss_pred CCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHH
Confidence 67899999999999999999999999999998899999999964499999999999999999999999999999999999
Q ss_pred HHhCCChhHHhhhCCCCCHHHHHHHHHHhhccccccCCCC
Q 046093 83 ASLGNRWSVIASHLPGRTDNELKNYWNTHLSKKIHTFQGP 122 (474)
Q Consensus 83 ~~~G~~W~~IAk~lpgRT~~qcR~RW~~~Lrp~i~~~~~t 122 (474)
..||++|..||+.|||||+++||+||+.+|++.+.+....
T Consensus 94 ~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~ 133 (249)
T PLN03212 94 RLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGID 133 (249)
T ss_pred HhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCC
Confidence 9999999999999999999999999999999987764433
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.96 E-value=2.9e-29 Score=245.51 Aligned_cols=112 Identities=61% Similarity=1.006 Sum_probs=106.5
Q ss_pred cCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCChHHHHHHHHHHHHhCCC
Q 046093 9 KVGLKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDLRRGNITTEEEETIIKLHASLGNR 88 (474)
Q Consensus 9 kp~lkKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L~p~lkkg~WT~EED~~Ll~lV~~~G~~ 88 (474)
|+.++||+||+|||++|+++|++||.++|..||+.++.+|++++||.||.|||+|+++||.||+|||.+|++++..+|++
T Consensus 4 k~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNr 83 (238)
T KOG0048|consen 4 NPELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNR 83 (238)
T ss_pred CccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcH
Confidence 45567899999999999999999999999999999994499999999999999999999999999999999999999999
Q ss_pred hhHHhhhCCCCCHHHHHHHHHHhhccccccCC
Q 046093 89 WSVIASHLPGRTDNELKNYWNTHLSKKIHTFQ 120 (474)
Q Consensus 89 W~~IAk~lpgRT~~qcR~RW~~~Lrp~i~~~~ 120 (474)
|+.||++|||||++.+|++|+..|++++....
T Consensus 84 Ws~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 84 WSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 99999999999999999999999999987654
No 4
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.95 E-value=1.4e-28 Score=240.73 Aligned_cols=109 Identities=17% Similarity=0.145 Sum_probs=102.4
Q ss_pred CCCCCCCCChHHHHHHHHHHHHhC-CChhHHhhhCC-CCCHHHHHHHHHHhhccccccCCCCCCCcccCcchhhhcCCch
Q 046093 63 TDLRRGNITTEEEETIIKLHASLG-NRWSVIASHLP-GRTDNELKNYWNTHLSKKIHTFQGPVGGETLSLPKMVDVASAS 140 (474)
Q Consensus 63 p~lkkg~WT~EED~~Ll~lV~~~G-~~W~~IAk~lp-gRT~~qcR~RW~~~Lrp~i~~~~~t~eEd~lil~~~~~~G~~W 140 (474)
+.+.|||||+|||.+|+++|++|| ++|..||+.++ +|++++||.||.+||+|.|+++.||.+||.+|+.+|..+|++|
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrW 84 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRW 84 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHH
Confidence 445689999999999999999999 67999999997 9999999999999999999999999999999999999999999
Q ss_pred HHhhccCCCCCchhhhcchhhhhhhcccCCC
Q 046093 141 AAIDKRKAGKTSRCATKKNKSYIINKDDVTS 171 (474)
Q Consensus 141 s~IakrlpGRTdn~iknrw~s~~~~k~~~~~ 171 (474)
+.||++|||||||.|||+|+++++++.....
T Consensus 85 s~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 9999999999999999999999877765444
No 5
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.93 E-value=3.4e-26 Score=222.86 Aligned_cols=121 Identities=17% Similarity=0.201 Sum_probs=108.8
Q ss_pred cCCcccccccccccccccCCCCCCCCCChHHHHHHHHHHHHhC-CChhHHhhhC-CCCCHHHHHHHHHHhhccccccCCC
Q 046093 44 AGLLRCGKSCRLRWVNYLRTDLRRGNITTEEEETIIKLHASLG-NRWSVIASHL-PGRTDNELKNYWNTHLSKKIHTFQG 121 (474)
Q Consensus 44 l~~~Rt~kQCr~RW~n~L~p~lkkg~WT~EED~~Ll~lV~~~G-~~W~~IAk~l-pgRT~~qcR~RW~~~Lrp~i~~~~~ 121 (474)
+++ |++.-|. ++++++++||+|||++|+++|++|| .+|..||+.+ ++||++|||.||.++|+|.|++.+|
T Consensus 10 ~~~-~~~pcc~-------K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpW 81 (249)
T PLN03212 10 VSK-KTTPCCT-------KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGI 81 (249)
T ss_pred CCC-CCCCCcc-------cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCC
Confidence 455 6665554 3578999999999999999999999 6899999998 6999999999999999999999999
Q ss_pred CCCCcccCcchhhhcCCchHHhhccCCCCCchhhhcchhhhhhhcccCCCC
Q 046093 122 PVGGETLSLPKMVDVASASAAIDKRKAGKTSRCATKKNKSYIINKDDVTSN 172 (474)
Q Consensus 122 t~eEd~lil~~~~~~G~~Ws~IakrlpGRTdn~iknrw~s~~~~k~~~~~~ 172 (474)
|.+||.+++.++..+|++|+.||+.+||||+++|||||+++++++......
T Consensus 82 T~EED~lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i 132 (249)
T PLN03212 82 TSDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGI 132 (249)
T ss_pred ChHHHHHHHHHHHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCC
Confidence 999999999999999999999999999999999999999988776544433
No 6
>PLN03091 hypothetical protein; Provisional
Probab=99.90 E-value=3e-24 Score=222.71 Aligned_cols=106 Identities=18% Similarity=0.237 Sum_probs=100.5
Q ss_pred CCCCCCCCCChHHHHHHHHHHHHhC-CChhHHhhhC-CCCCHHHHHHHHHHhhccccccCCCCCCCcccCcchhhhcCCc
Q 046093 62 RTDLRRGNITTEEEETIIKLHASLG-NRWSVIASHL-PGRTDNELKNYWNTHLSKKIHTFQGPVGGETLSLPKMVDVASA 139 (474)
Q Consensus 62 ~p~lkkg~WT~EED~~Ll~lV~~~G-~~W~~IAk~l-pgRT~~qcR~RW~~~Lrp~i~~~~~t~eEd~lil~~~~~~G~~ 139 (474)
++.++|++||+|||++|+++|.+|| .+|..||+.+ ++|+++|||.||.++|+|.|++++|+.+||.+++.++..+|++
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnK 88 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcc
Confidence 4578999999999999999999999 6799999988 5999999999999999999999999999999999999999999
Q ss_pred hHHhhccCCCCCchhhhcchhhhhhhcc
Q 046093 140 SAAIDKRKAGKTSRCATKKNKSYIINKD 167 (474)
Q Consensus 140 Ws~IakrlpGRTdn~iknrw~s~~~~k~ 167 (474)
|+.||+.++|||++.|||||+.+++++.
T Consensus 89 WskIAk~LPGRTDnqIKNRWnslLKKkl 116 (459)
T PLN03091 89 WSQIAAQLPGRTDNEIKNLWNSCLKKKL 116 (459)
T ss_pred hHHHHHhcCCCCHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999876643
No 7
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.87 E-value=2e-22 Score=214.68 Aligned_cols=158 Identities=18% Similarity=0.251 Sum_probs=140.1
Q ss_pred cccccCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccc------------------------------
Q 046093 5 PCCEKVGLKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCR------------------------------ 54 (474)
Q Consensus 5 ~~~~kp~lkKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr------------------------------ 54 (474)
+..+.|.++|..|++|||++|+.+...++..+|..||..+++.|+..||.
T Consensus 244 ~n~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~~ 323 (939)
T KOG0049|consen 244 YNELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKIT 323 (939)
T ss_pred hhhcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHh
Confidence 45678888888888888888888888887778888888887777777776
Q ss_pred ------------------------cccccccCCCCCCCCCChHHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHH
Q 046093 55 ------------------------LRWVNYLRTDLRRGNITTEEEETIIKLHASLG-NRWSVIASHLPGRTDNELKNYWN 109 (474)
Q Consensus 55 ------------------------~RW~n~L~p~lkkg~WT~EED~~Ll~lV~~~G-~~W~~IAk~lpgRT~~qcR~RW~ 109 (474)
.||.+.|+|++++|+||.+||.+|+.+|.+|| ..|.+|-..+|+|+..|||.||.
T Consensus 324 ~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~ 403 (939)
T KOG0049|consen 324 SINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYT 403 (939)
T ss_pred hccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHH
Confidence 78888999999999999999999999999999 45999999999999999999999
Q ss_pred HhhccccccCCCCCCCcccCcchhhhcC-CchHHhhccCCCCCchhhhcchhhh
Q 046093 110 THLSKKIHTFQGPVGGETLSLPKMVDVA-SASAAIDKRKAGKTSRCATKKNKSY 162 (474)
Q Consensus 110 ~~Lrp~i~~~~~t~eEd~lil~~~~~~G-~~Ws~IakrlpGRTdn~iknrw~s~ 162 (474)
+.|....+...|+..||..++.++..+| ..|++||..||.||.++...|...+
T Consensus 404 nvL~~s~K~~rW~l~edeqL~~~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~ 457 (939)
T KOG0049|consen 404 NVLNRSAKVERWTLVEDEQLLYAVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRL 457 (939)
T ss_pred HHHHHhhccCceeecchHHHHHHHHHHccchHHHHHHHccccchhHHHHHHHHH
Confidence 9999999999999999999999999998 5699999999999996665544333
No 8
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.77 E-value=1.8e-19 Score=192.36 Aligned_cols=105 Identities=25% Similarity=0.458 Sum_probs=100.6
Q ss_pred CCCCcccccCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCChHHHHHHHH
Q 046093 1 MGRTPCCEKVGLKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDLRRGNITTEEEETIIK 80 (474)
Q Consensus 1 mgR~~~~~kp~lkKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L~p~lkkg~WT~EED~~Ll~ 80 (474)
++||...+.|++++|+||.+||.+|..+|.+||.++|.+|-..+|+ |+..|||+||.|+|+...|++.||-.||.+|+.
T Consensus 347 I~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPn-RSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~ 425 (939)
T KOG0049|consen 347 ITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPN-RSDSQCRERYTNVLNRSAKVERWTLVEDEQLLY 425 (939)
T ss_pred hhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCC-ccHHHHHHHHHHHHHHhhccCceeecchHHHHH
Confidence 5899999999999999999999999999999999999999999999 999999999999999999999999999999999
Q ss_pred HHHHhC-CChhHHhhhCCCCCHHHHHH
Q 046093 81 LHASLG-NRWSVIASHLPGRTDNELKN 106 (474)
Q Consensus 81 lV~~~G-~~W~~IAk~lpgRT~~qcR~ 106 (474)
+|.+|| ++|.+||..||+||++|.+.
T Consensus 426 ~V~~YG~g~WakcA~~Lp~~t~~q~~r 452 (939)
T KOG0049|consen 426 AVKVYGKGNWAKCAMLLPKKTSRQLRR 452 (939)
T ss_pred HHHHHccchHHHHHHHccccchhHHHH
Confidence 999999 88999999999999955433
No 9
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.59 E-value=1.4e-15 Score=162.49 Aligned_cols=160 Identities=23% Similarity=0.320 Sum_probs=144.2
Q ss_pred cCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCChHHHHHHHHHHHHhCCC
Q 046093 9 KVGLKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDLRRGNITTEEEETIIKLHASLGNR 88 (474)
Q Consensus 9 kp~lkKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L~p~lkkg~WT~EED~~Ll~lV~~~G~~ 88 (474)
...++.|.|+..||+.|+.+|+.||..+|..||..+.. |+++||+.||.++++|.+++..|+.+||.+|+.+..++|..
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~-~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ 93 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLIS-STGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcc-cccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch
Confidence 35678899999999999999999999999999999997 99999999999999999999999999999999999999999
Q ss_pred hhHHhhhCCCCCHHHHHHHHHHhhccccccCCCCCCCcccCcchhhhcCCchHHhhccCCCCCchhhhcchhhhhhhccc
Q 046093 89 WSVIASHLPGRTDNELKNYWNTHLSKKIHTFQGPVGGETLSLPKMVDVASASAAIDKRKAGKTSRCATKKNKSYIINKDD 168 (474)
Q Consensus 89 W~~IAk~lpgRT~~qcR~RW~~~Lrp~i~~~~~t~eEd~lil~~~~~~G~~Ws~IakrlpGRTdn~iknrw~s~~~~k~~ 168 (474)
|..||..+++|+..+|.+||.+.+..... ..++.......+....+++..|++.....--+-.....|++.+++++...
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~s-~~~s~~~~~~~f~k~d~f~~~~~~~~~~~~~~~~~~~~N~~~~~~~~~~r 172 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLSS-THDSKLQRRNEFDKIDPFNENSARRPDIYEDELLEREVNREASYRLRVPR 172 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhhc-cccccccchhhccccCchhhhhhhhhhhhhcccchhhhhHHHHHHHHccc
Confidence 99999999999999999999999998877 67777778888888888898888888777777888888888887666544
Q ss_pred CC
Q 046093 169 VT 170 (474)
Q Consensus 169 ~~ 170 (474)
+.
T Consensus 173 v~ 174 (512)
T COG5147 173 VS 174 (512)
T ss_pred ch
Confidence 33
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=99.57 E-value=1e-15 Score=119.02 Aligned_cols=60 Identities=38% Similarity=0.812 Sum_probs=55.2
Q ss_pred CCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCChHHHHHH
Q 046093 17 WTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDLRRGNITTEEEETI 78 (474)
Q Consensus 17 WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L~p~lkkg~WT~EED~~L 78 (474)
||+|||++|+++|..|| .+|..||++|+. |++.||+.||.++|.|.+++++||++||++|
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~l~~-Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEHLGN-RTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHHSTT-S-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHHHCc-CCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 99999999999999999 789999999976 9999999999999999999999999999987
No 11
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.49 E-value=1e-14 Score=153.51 Aligned_cols=109 Identities=23% Similarity=0.506 Sum_probs=102.5
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCChHHHHHHHHHHHHhCCChh
Q 046093 11 GLKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDLRRGNITTEEEETIIKLHASLGNRWS 90 (474)
Q Consensus 11 ~lkKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L~p~lkkg~WT~EED~~Ll~lV~~~G~~W~ 90 (474)
-++.|-|+.-||++|+.+|.+||.+.|.+|++.+.. .+++||+.||..+|+|.+++..|+.+||.+|+.+...+...|.
T Consensus 4 ~~kggvwrntEdeilkaav~kyg~nqws~i~sll~~-kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwr 82 (617)
T KOG0050|consen 4 EIKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNR-KTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWR 82 (617)
T ss_pred EEecceecccHHHHHHHHHHHcchHHHHHHHHHHhh-cchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccc
Confidence 357889999999999999999999999999999997 9999999999999999999999999999999999999999999
Q ss_pred HHhhhCCCCCHHHHHHHHHHhhccccccCCC
Q 046093 91 VIASHLPGRTDNELKNYWNTHLSKKIHTFQG 121 (474)
Q Consensus 91 ~IAk~lpgRT~~qcR~RW~~~Lrp~i~~~~~ 121 (474)
.|+..| ||++.||-.||.++|.-.+.....
T Consensus 83 tIa~i~-gr~~~qc~eRy~~ll~~~~s~~~~ 112 (617)
T KOG0050|consen 83 TIADIM-GRTSQQCLERYNNLLDVYVSYHYH 112 (617)
T ss_pred hHHHHh-hhhHHHHHHHHHHHHHHHHhhhcc
Confidence 999988 999999999999999887765444
No 12
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.44 E-value=6.7e-14 Score=151.16 Aligned_cols=147 Identities=23% Similarity=0.428 Sum_probs=120.6
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCC--CCCCCChHHHHHHHHHHH-------
Q 046093 13 KKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDL--RRGNITTEEEETIIKLHA------- 83 (474)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L~p~l--kkg~WT~EED~~Ll~lV~------- 83 (474)
.+|.||+||++.|..+|..+| ..|.+|++.|+ |.+..|++||+++..++- ++++||.||.++|+++|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g-~~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~ 459 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHG-NDWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREAL 459 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhc-ccHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhh
Confidence 899999999999999999999 89999999997 999999999999999874 899999999999999995
Q ss_pred Hh-------------------CCChhHHhhhCCCCCHHHHHHHHHHhhcccc-ccCCCCCC-------CcccCcchhhhc
Q 046093 84 SL-------------------GNRWSVIASHLPGRTDNELKNYWNTHLSKKI-HTFQGPVG-------GETLSLPKMVDV 136 (474)
Q Consensus 84 ~~-------------------G~~W~~IAk~lpgRT~~qcR~RW~~~Lrp~i-~~~~~t~e-------Ed~lil~~~~~~ 136 (474)
++ +-+|..|++.+..|+.-|||-+|..++.... +..++... |....+.+....
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~~~~~~~~~v~l~ErL~dl~~~e~~ 539 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKRQESKGSDMVWLLERLSDLDLTEES 539 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhcccccccchhHHHHHHHHhcccccCC
Confidence 33 1259999998899999999999998876554 44555432 223333444445
Q ss_pred CCchHHhhccCCCCC-chhhhcchhhh
Q 046093 137 ASASAAIDKRKAGKT-SRCATKKNKSY 162 (474)
Q Consensus 137 G~~Ws~IakrlpGRT-dn~iknrw~s~ 162 (474)
.--|.-|+...||.. ..+++-+|..+
T Consensus 540 ~IDW~~l~~~~~g~~~~~e~r~q~~~l 566 (607)
T KOG0051|consen 540 PIDWKSLAEYAPGESTGEELRLQFERL 566 (607)
T ss_pred ccCHHHHHHhCCCCCcHHHHHHHHHhH
Confidence 567999999999998 66777666444
No 13
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.42 E-value=1.1e-13 Score=107.62 Aligned_cols=59 Identities=34% Similarity=0.513 Sum_probs=53.2
Q ss_pred CChHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhccccccCCCCCCCccc
Q 046093 70 ITTEEEETIIKLHASLGNRWSVIASHLPGRTDNELKNYWNTHLSKKIHTFQGPVGGETL 128 (474)
Q Consensus 70 WT~EED~~Ll~lV~~~G~~W~~IAk~lpgRT~~qcR~RW~~~Lrp~i~~~~~t~eEd~l 128 (474)
||++||++|+++|.+||.+|..||++|+.||+.||+.||.++|++.+.+.+|+.+|+..
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~ 59 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQR 59 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhc
Confidence 99999999999999999999999999977999999999999999999999999988753
No 14
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.29 E-value=3.7e-12 Score=95.34 Aligned_cols=46 Identities=33% Similarity=0.644 Sum_probs=42.1
Q ss_pred CCCCChHHHHHHHHHHHHhCCC-hhHHhhhCC-CCCHHHHHHHHHHhh
Q 046093 67 RGNITTEEEETIIKLHASLGNR-WSVIASHLP-GRTDNELKNYWNTHL 112 (474)
Q Consensus 67 kg~WT~EED~~Ll~lV~~~G~~-W~~IAk~lp-gRT~~qcR~RW~~~L 112 (474)
|++||++||.+|+++|.+||.. |..||..|+ +||..||+.||+++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 5899999999999999999987 999999998 999999999999875
No 15
>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=99.24 E-value=1.3e-12 Score=97.75 Aligned_cols=48 Identities=35% Similarity=0.703 Sum_probs=42.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCCccccccccccccccc
Q 046093 14 KGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYL 61 (474)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L 61 (474)
|++||+|||++|+++|.+||.++|..||..|+++||+.||+.||.++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 689999999999999999996669999999993399999999999875
No 16
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.14 E-value=4e-11 Score=129.90 Aligned_cols=149 Identities=20% Similarity=0.205 Sum_probs=123.9
Q ss_pred ccCCCCHHHHHHHHHHHHHhC----C-----------C--------CccccccccCCccccccccc---ccccccCCCCC
Q 046093 13 KKGKWTAKEDEILTKYIQANG----I-----------E--------SWRSLPKKAGLLRCGKSCRL---RWVNYLRTDLR 66 (474)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG----~-----------~--------nW~~IAk~l~~~Rt~kQCr~---RW~n~L~p~lk 66 (474)
+-+.|+.+||++|.+.|..|- - . -|..|...||- |+.+.... |=++.+.+ +
T Consensus 307 ~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp~-R~~~siy~~~rR~y~~FE~--~ 383 (607)
T KOG0051|consen 307 NLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLPY-RDRKSIYHHLRRAYTPFEN--K 383 (607)
T ss_pred hhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcCc-ccchhHHHHHHhcCCcccc--c
Confidence 348899999999999998761 1 1 26788888898 99888876 43344444 8
Q ss_pred CCCCChHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhccc--cccCCCCCCCcccCcchhh--------h-
Q 046093 67 RGNITTEEEETIIKLHASLGNRWSVIASHLPGRTDNELKNYWNTHLSKK--IHTFQGPVGGETLSLPKMV--------D- 135 (474)
Q Consensus 67 kg~WT~EED~~Ll~lV~~~G~~W~~IAk~lpgRT~~qcR~RW~~~Lrp~--i~~~~~t~eEd~lil~~~~--------~- 135 (474)
+|.||++|++.|..+|.++|+.|..|++.| ||.+..||.||.++.... +++..|+.+|...++..+. +
T Consensus 384 rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q 462 (607)
T KOG0051|consen 384 RGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREALQPQ 462 (607)
T ss_pred cCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhhccc
Confidence 999999999999999999999999999999 999999999999999988 5899999999987777763 1
Q ss_pred -----------------cCCchHHhhccCCCCCchhhhcchhhhhhh
Q 046093 136 -----------------VASASAAIDKRKAGKTSRCATKKNKSYIIN 165 (474)
Q Consensus 136 -----------------~G~~Ws~IakrlpGRTdn~iknrw~s~~~~ 165 (474)
.+=.|..|++.+.-|+.-+++.+|+.++.+
T Consensus 463 ~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~ 509 (607)
T KOG0051|consen 463 ASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTS 509 (607)
T ss_pred ccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhh
Confidence 122599999988889999999999877644
No 17
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.06 E-value=3.2e-10 Score=82.15 Aligned_cols=48 Identities=42% Similarity=0.772 Sum_probs=45.0
Q ss_pred CCCCChHHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhhcc
Q 046093 67 RGNITTEEEETIIKLHASLG-NRWSVIASHLPGRTDNELKNYWNTHLSK 114 (474)
Q Consensus 67 kg~WT~EED~~Ll~lV~~~G-~~W~~IAk~lpgRT~~qcR~RW~~~Lrp 114 (474)
+++||++||.+|+.++.+|| .+|..||..|++||+.+|+.||..++++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~~ 49 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLKP 49 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcCC
Confidence 46899999999999999999 9999999999999999999999988753
No 18
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.05 E-value=5.9e-11 Score=127.34 Aligned_cols=101 Identities=21% Similarity=0.306 Sum_probs=95.6
Q ss_pred CCCCCCCChHHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhhccccccCCCCCCCcccCcchhhhcCCchHH
Q 046093 64 DLRRGNITTEEEETIIKLHASLG-NRWSVIASHLPGRTDNELKNYWNTHLSKKIHTFQGPVGGETLSLPKMVDVASASAA 142 (474)
Q Consensus 64 ~lkkg~WT~EED~~Ll~lV~~~G-~~W~~IAk~lpgRT~~qcR~RW~~~Lrp~i~~~~~t~eEd~lil~~~~~~G~~Ws~ 142 (474)
.++.|.|+..||..|..+|+.|| .+|+.||..|..|+++||+.||++++.|.+++..|+.+|+..++.+...+|+.|+.
T Consensus 17 ~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~wst 96 (512)
T COG5147 17 KRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWST 96 (512)
T ss_pred eecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCchhhh
Confidence 45788999999999999999999 67999999998899999999999999999999999999999999999999999999
Q ss_pred hhccCCCCCchhhhcchhhhhh
Q 046093 143 IDKRKAGKTSRCATKKNKSYII 164 (474)
Q Consensus 143 IakrlpGRTdn~iknrw~s~~~ 164 (474)
|+..++|||...+.+||.....
T Consensus 97 ia~~~d~rt~~~~~ery~~~~~ 118 (512)
T COG5147 97 IADYKDRRTAQQCVERYVNTLE 118 (512)
T ss_pred hccccCccchHHHHHHHHHHhh
Confidence 9999999999999999976643
No 19
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.91 E-value=2.8e-09 Score=76.17 Aligned_cols=44 Identities=36% Similarity=0.683 Sum_probs=41.9
Q ss_pred CCChHHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhh
Q 046093 69 NITTEEEETIIKLHASLG-NRWSVIASHLPGRTDNELKNYWNTHL 112 (474)
Q Consensus 69 ~WT~EED~~Ll~lV~~~G-~~W~~IAk~lpgRT~~qcR~RW~~~L 112 (474)
+||.+|+.+|+.++.+|| .+|..||+.+++||+.+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 699999999999999999 89999999999999999999998763
No 20
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.88 E-value=7.1e-10 Score=80.35 Aligned_cols=48 Identities=38% Similarity=0.826 Sum_probs=44.7
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccC
Q 046093 14 KGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLR 62 (474)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L~ 62 (474)
+++||++||.+|+.++..||..+|..||..+++ |++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~-rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPG-RTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCC-CCHHHHHHHHHHHcC
Confidence 478999999999999999998889999999997 999999999998764
No 21
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.87 E-value=6.9e-10 Score=117.59 Aligned_cols=98 Identities=21% Similarity=0.270 Sum_probs=92.5
Q ss_pred CCCCCCChHHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhhccccccCCCCCCCcccCcchhhhcCCchHHh
Q 046093 65 LRRGNITTEEEETIIKLHASLG-NRWSVIASHLPGRTDNELKNYWNTHLSKKIHTFQGPVGGETLSLPKMVDVASASAAI 143 (474)
Q Consensus 65 lkkg~WT~EED~~Ll~lV~~~G-~~W~~IAk~lpgRT~~qcR~RW~~~Lrp~i~~~~~t~eEd~lil~~~~~~G~~Ws~I 143 (474)
++.|.|+.-||++|..+|.+|| +.|+.|++.++..+.+||+.||..+|+|.|++..|+.++|..++.++....+.|..|
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrtI 84 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRTI 84 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccchH
Confidence 5678999999999999999999 569999999999999999999999999999999999999999999999999999999
Q ss_pred hccCCCCCchhhhcchhhhh
Q 046093 144 DKRKAGKTSRCATKKNKSYI 163 (474)
Q Consensus 144 akrlpGRTdn~iknrw~s~~ 163 (474)
+..+ |||.+++-.|++.+.
T Consensus 85 a~i~-gr~~~qc~eRy~~ll 103 (617)
T KOG0050|consen 85 ADIM-GRTSQQCLERYNNLL 103 (617)
T ss_pred HHHh-hhhHHHHHHHHHHHH
Confidence 9865 999999999987764
No 22
>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=98.74 E-value=3.7e-09 Score=75.50 Aligned_cols=45 Identities=38% Similarity=0.755 Sum_probs=42.1
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCCccccccccccccccc
Q 046093 16 KWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYL 61 (474)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L 61 (474)
+||++||..|++++..||..+|..||+.+++ |++.||+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~-rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPG-RTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCC-CCHHHHHHHHHHhC
Confidence 5999999999999999998899999999998 99999999998753
No 23
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.37 E-value=0.0005 Score=72.78 Aligned_cols=50 Identities=24% Similarity=0.421 Sum_probs=44.9
Q ss_pred CCCCCCCChHHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhhc
Q 046093 64 DLRRGNITTEEEETIIKLHASLG-NRWSVIASHLPGRTDNELKNYWNTHLS 113 (474)
Q Consensus 64 ~lkkg~WT~EED~~Ll~lV~~~G-~~W~~IAk~lpgRT~~qcR~RW~~~Lr 113 (474)
.+-...||.+|+.+|+++++.|| ++|..||.++..|+..+|+.+|.++.-
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHh
Confidence 34567899999999999999999 999999999999999999999886543
No 24
>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=97.22 E-value=0.00017 Score=56.59 Aligned_cols=49 Identities=12% Similarity=0.186 Sum_probs=42.4
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCc---cccccccCCcc-ccccccccccccc
Q 046093 13 KKGKWTAKEDEILTKYIQANGIESW---RSLPKKAGLLR-CGKSCRLRWVNYL 61 (474)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG~~nW---~~IAk~l~~~R-t~kQCr~RW~n~L 61 (474)
++-.||+||..+++.+|+.+|.++| +.|+..|...| |..||+.+++.|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 4567999999999999999997799 99999987546 9999998877653
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.16 E-value=0.00015 Score=76.58 Aligned_cols=50 Identities=18% Similarity=0.531 Sum_probs=46.1
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCccccccccccccccc
Q 046093 11 GLKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYL 61 (474)
Q Consensus 11 ~lkKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L 61 (474)
.+-...||++|+-+|++++..||-+||..||.+++. |+..+|+++|.+++
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGt-Ktkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGT-KTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcc-cchHHHHHHHHHHH
Confidence 445678999999999999999999999999999998 99999999999865
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=97.14 E-value=0.0012 Score=51.80 Aligned_cols=47 Identities=15% Similarity=0.205 Sum_probs=41.3
Q ss_pred CCCCChHHHHHHHHHHHHhCC-Ch---hHHhhhC-CCC-CHHHHHHHHHHhhc
Q 046093 67 RGNITTEEEETIIKLHASLGN-RW---SVIASHL-PGR-TDNELKNYWNTHLS 113 (474)
Q Consensus 67 kg~WT~EED~~Ll~lV~~~G~-~W---~~IAk~l-pgR-T~~qcR~RW~~~Lr 113 (474)
+-.||+||..+.++++..+|. +| ..|+..| ..| |..||+.+.+.|..
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 568999999999999999995 99 9999988 356 99999999887653
No 27
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.04 E-value=0.00053 Score=64.20 Aligned_cols=51 Identities=22% Similarity=0.303 Sum_probs=45.1
Q ss_pred CCCCCChHHHHHHHHHHHHh---CC----ChhHHhhhCCCCCHHHHHHHHHHhhccccc
Q 046093 66 RRGNITTEEEETIIKLHASL---GN----RWSVIASHLPGRTDNELKNYWNTHLSKKIH 117 (474)
Q Consensus 66 kkg~WT~EED~~Ll~lV~~~---G~----~W~~IAk~lpgRT~~qcR~RW~~~Lrp~i~ 117 (474)
+...||.+||.+|.+.|.+| |+ .+..|++.| +||+.+|.-||+.++|+...
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~ 60 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYE 60 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHH
Confidence 56789999999999999988 32 399999999 99999999999999997754
No 28
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.42 E-value=0.0032 Score=67.31 Aligned_cols=45 Identities=16% Similarity=0.218 Sum_probs=42.4
Q ss_pred CCCCChHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHh
Q 046093 67 RGNITTEEEETIIKLHASLGNRWSVIASHLPGRTDNELKNYWNTH 111 (474)
Q Consensus 67 kg~WT~EED~~Ll~lV~~~G~~W~~IAk~lpgRT~~qcR~RW~~~ 111 (474)
...||.+|-.+|++.|+.||..|.+||+++.+||..||-.|+.++
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 448999999999999999999999999999999999999999854
No 29
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.40 E-value=0.0012 Score=70.60 Aligned_cols=46 Identities=20% Similarity=0.577 Sum_probs=43.0
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccc
Q 046093 13 KKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNY 60 (474)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~ 60 (474)
+...||.+|-.+|++.|+.|| .+|.+||.++++ |+..||..||.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~yg-DdW~kVA~HVgt-Kt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYG-DDWDKVARHVGT-KTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhh-hhHHHHHHHhCC-CCHHHHHHHHHcC
Confidence 566999999999999999999 789999999998 9999999999875
No 30
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.30 E-value=0.0052 Score=67.05 Aligned_cols=47 Identities=17% Similarity=0.273 Sum_probs=43.5
Q ss_pred CCCCCChHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhh
Q 046093 66 RRGNITTEEEETIIKLHASLGNRWSVIASHLPGRTDNELKNYWNTHL 112 (474)
Q Consensus 66 kkg~WT~EED~~Ll~lV~~~G~~W~~IAk~lpgRT~~qcR~RW~~~L 112 (474)
-+..||.+|..+|+++|+.||-.|.+||.++.+||..||-.++..+-
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~LP 298 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRLP 298 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhcC
Confidence 35689999999999999999999999999999999999999998653
No 31
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.19 E-value=0.0076 Score=48.62 Aligned_cols=51 Identities=18% Similarity=0.370 Sum_probs=33.3
Q ss_pred CCCCChHHHHHHHHHHHHh---C----CC--hhHHhhhCC-CCCHHHHHHHHHHhhccccc
Q 046093 67 RGNITTEEEETIIKLHASL---G----NR--WSVIASHLP-GRTDNELKNYWNTHLSKKIH 117 (474)
Q Consensus 67 kg~WT~EED~~Ll~lV~~~---G----~~--W~~IAk~lp-gRT~~qcR~RW~~~Lrp~i~ 117 (474)
+.+||.+||++|+..|..+ | ++ |..+++.-+ .+|-.+.|+||...|++...
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~ 62 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR 62 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence 4689999999999999664 2 22 999999887 89999999999999987744
No 32
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=96.10 E-value=0.009 Score=58.04 Aligned_cols=99 Identities=16% Similarity=0.296 Sum_probs=70.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccC--CcccccccccccccccC-CCC--------------------CCCCCCh
Q 046093 16 KWTAKEDEILTKYIQANGIESWRSLPKKAG--LLRCGKSCRLRWVNYLR-TDL--------------------RRGNITT 72 (474)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~--~~Rt~kQCr~RW~n~L~-p~l--------------------kkg~WT~ 72 (474)
+|+++.|-.|+.+|..-. +-..|+.-+. ..-|-....+||+..|. |.+ .+.+||.
T Consensus 1 rW~~~DDl~Li~av~~~~--~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~ 78 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN--DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSK 78 (199)
T ss_pred CCCchhhHHHHHHHHHhc--CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCH
Confidence 699999999999998643 4445544332 22455667789988753 322 3679999
Q ss_pred HHHHHHHHHHHHhCC---ChhHHhh----hC-CCCCHHHHHHHHHHhhcccc
Q 046093 73 EEEETIIKLHASLGN---RWSVIAS----HL-PGRTDNELKNYWNTHLSKKI 116 (474)
Q Consensus 73 EED~~Ll~lV~~~G~---~W~~IAk----~l-pgRT~~qcR~RW~~~Lrp~i 116 (474)
+|+++|......... .+.+|-. .+ ++||++++..+|..+.+..+
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~L 130 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHL 130 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhch
Confidence 999999997766543 3666632 34 78999999999997544443
No 33
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.08 E-value=0.0026 Score=69.36 Aligned_cols=48 Identities=21% Similarity=0.580 Sum_probs=43.7
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccc
Q 046093 11 GLKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNY 60 (474)
Q Consensus 11 ~lkKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~ 60 (474)
.-.++.||.+|+.+|+.+|+.|| .+|.+||.++++ |+..||..++.+.
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~-ddW~kVa~hVg~-ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYG-DDWNKVADHVGT-KSQEQCILKFLRL 297 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhc-ccHHHHHhccCC-CCHHHHHHHHHhc
Confidence 34577899999999999999999 789999999998 9999999998764
No 34
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.03 E-value=0.0041 Score=51.34 Aligned_cols=49 Identities=33% Similarity=0.491 Sum_probs=34.2
Q ss_pred CCCCChHHHHHHHHHHHH------hC--C------ChhHHhhhC----CCCCHHHHHHHHHHhhccc
Q 046093 67 RGNITTEEEETIIKLHAS------LG--N------RWSVIASHL----PGRTDNELKNYWNTHLSKK 115 (474)
Q Consensus 67 kg~WT~EED~~Ll~lV~~------~G--~------~W~~IAk~l----pgRT~~qcR~RW~~~Lrp~ 115 (474)
+..||.+|...||.++.. ++ + -|..||..| ..||+.||+.||.++.+.-
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Y 67 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKY 67 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Confidence 357999999999999877 21 1 299999987 3699999999999955443
No 35
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.78 E-value=0.015 Score=59.89 Aligned_cols=47 Identities=23% Similarity=0.383 Sum_probs=43.4
Q ss_pred CCCCChHHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhhc
Q 046093 67 RGNITTEEEETIIKLHASLG-NRWSVIASHLPGRTDNELKNYWNTHLS 113 (474)
Q Consensus 67 kg~WT~EED~~Ll~lV~~~G-~~W~~IAk~lpgRT~~qcR~RW~~~Lr 113 (474)
-..|+..|+.+|++.....| ++|..||.++..|+...||.+|..+..
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 44799999999999999999 999999999999999999999987665
No 36
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.31 E-value=0.015 Score=55.27 Aligned_cols=52 Identities=17% Similarity=0.235 Sum_probs=44.0
Q ss_pred CCCCCCChHHHHHHHHHHHHhCC-------ChhHHhhhCCCCCHHHHHHHHHHhhccccc
Q 046093 65 LRRGNITTEEEETIIKLHASLGN-------RWSVIASHLPGRTDNELKNYWNTHLSKKIH 117 (474)
Q Consensus 65 lkkg~WT~EED~~Ll~lV~~~G~-------~W~~IAk~lpgRT~~qcR~RW~~~Lrp~i~ 117 (474)
.++..||.|+|.+|.+.|..|+. -...++..| +||..+|..||+.++++...
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Ye 61 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQ 61 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHH
Confidence 35679999999999999988872 167777877 99999999999999998753
No 37
>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=94.92 E-value=0.011 Score=47.63 Aligned_cols=52 Identities=25% Similarity=0.394 Sum_probs=33.1
Q ss_pred cCCCCHHHHHHHHHHHHHhCC------C--CccccccccCCcccccccccccccccCCCC
Q 046093 14 KGKWTAKEDEILTKYIQANGI------E--SWRSLPKKAGLLRCGKSCRLRWVNYLRTDL 65 (474)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~------~--nW~~IAk~l~~~Rt~kQCr~RW~n~L~p~l 65 (474)
|.++|.+||+.|+..|..+.. + =|++++..-++++|-..-|+||.+.|.+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~ 61 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRP 61 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence 468999999999999976531 1 299999998855888888999999887644
No 38
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=94.84 E-value=0.0043 Score=51.24 Aligned_cols=47 Identities=21% Similarity=0.590 Sum_probs=33.0
Q ss_pred cCCCCHHHHHHHHHHHHH--h----C---C----CCccccccccC---Ccccccccccccccc
Q 046093 14 KGKWTAKEDEILTKYIQA--N----G---I----ESWRSLPKKAG---LLRCGKSCRLRWVNY 60 (474)
Q Consensus 14 Kg~WT~EEDe~L~~lV~k--y----G---~----~nW~~IAk~l~---~~Rt~kQCr~RW~n~ 60 (474)
|..||.+|...|+.++.. + + . .-|..||..|. -.|++.||+.||.++
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 458999999999999977 1 1 1 14999999974 239999999999875
No 39
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=93.78 E-value=0.089 Score=42.71 Aligned_cols=49 Identities=31% Similarity=0.500 Sum_probs=40.4
Q ss_pred CCCCChHHHHHHHHHHHHh-----C--C----------ChhHHhhhC-----CCCCHHHHHHHHHHhhccc
Q 046093 67 RGNITTEEEETIIKLHASL-----G--N----------RWSVIASHL-----PGRTDNELKNYWNTHLSKK 115 (474)
Q Consensus 67 kg~WT~EED~~Ll~lV~~~-----G--~----------~W~~IAk~l-----pgRT~~qcR~RW~~~Lrp~ 115 (474)
+..||.+|...|+++|.+| | . .|..|+..| +.||..++|.+|.++....
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~ 72 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKA 72 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHH
Confidence 4689999999999999886 2 0 399999876 3599999999999876554
No 40
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=93.71 E-value=0.017 Score=54.30 Aligned_cols=49 Identities=22% Similarity=0.565 Sum_probs=41.8
Q ss_pred CccCCCCHHHHHHHHHHHHHhCC------CCccccccccCCcccccccccccccccC
Q 046093 12 LKKGKWTAKEDEILTKYIQANGI------ESWRSLPKKAGLLRCGKSCRLRWVNYLR 62 (474)
Q Consensus 12 lkKg~WT~EEDe~L~~lV~kyG~------~nW~~IAk~l~~~Rt~kQCr~RW~n~L~ 62 (474)
.+.-.||.|||.+|...|-+|-. ....+|+..++ ||+..|.-||+-++.
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VR 56 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVR 56 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHH
Confidence 46778999999999999998831 24889999987 999999999998875
No 41
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=93.32 E-value=0.022 Score=46.25 Aligned_cols=49 Identities=20% Similarity=0.440 Sum_probs=39.6
Q ss_pred ccCCCCHHHHHHHHHHHHHhCC----------------CCccccccccC----Cccccccccccccccc
Q 046093 13 KKGKWTAKEDEILTKYIQANGI----------------ESWRSLPKKAG----LLRCGKSCRLRWVNYL 61 (474)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG~----------------~nW~~IAk~l~----~~Rt~kQCr~RW~n~L 61 (474)
++..||.+|...|+.+|.+|.. .-|..|+..|. +.|+..|++.+|.++.
T Consensus 1 R~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 1 RKPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 4568999999999999998721 24999999872 2499999999998854
No 42
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=92.00 E-value=0.046 Score=56.37 Aligned_cols=48 Identities=17% Similarity=0.477 Sum_probs=44.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccC
Q 046093 14 KGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLR 62 (474)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L~ 62 (474)
--.|+..|+-+|++.....|-++|..||..++. |+...|+.+|..++.
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGs-r~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGS-RAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhh-hhhHHHHHHHHHHHh
Confidence 446999999999999999999999999999997 999999999988765
No 43
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=90.26 E-value=0.074 Score=50.57 Aligned_cols=50 Identities=20% Similarity=0.494 Sum_probs=39.3
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCC------CccccccccCCcccccccccccccccC
Q 046093 11 GLKKGKWTAKEDEILTKYIQANGIE------SWRSLPKKAGLLRCGKSCRLRWVNYLR 62 (474)
Q Consensus 11 ~lkKg~WT~EEDe~L~~lV~kyG~~------nW~~IAk~l~~~Rt~kQCr~RW~n~L~ 62 (474)
..++..||.|+|.+|...|-.|+.. ....++..|. |++.+|..||+-++.
T Consensus 2 k~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 2 KTRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred cchhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 3477899999999999999888642 2556666665 999999999966553
No 44
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=89.58 E-value=0.66 Score=55.10 Aligned_cols=99 Identities=13% Similarity=0.275 Sum_probs=74.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccc-----------------------------------------
Q 046093 16 KWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCR----------------------------------------- 54 (474)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr----------------------------------------- 54 (474)
.||.-+=..++.+..+||..+-..||..|.+ ++....+
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~-k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~ 904 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEMEG-KTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG 904 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhcC-CCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4888888888889999998889999999976 6654443
Q ss_pred -------cccccc-c-CCCCCCCCCChHHHHHHHHHHHHhC-CChhHHhhhC------------CCCCHHHHHHHHHHhh
Q 046093 55 -------LRWVNY-L-RTDLRRGNITTEEEETIIKLHASLG-NRWSVIASHL------------PGRTDNELKNYWNTHL 112 (474)
Q Consensus 55 -------~RW~n~-L-~p~lkkg~WT~EED~~Ll~lV~~~G-~~W~~IAk~l------------pgRT~~qcR~RW~~~L 112 (474)
.-|... + .+.-++..+|.+||..|+-.+.+|| ++|..|-..+ ..||+..+..|...++
T Consensus 905 ~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~ 984 (1033)
T PLN03142 905 KKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI 984 (1033)
T ss_pred HHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence 222111 1 1223345699999999999999999 7899984432 3699999999998877
Q ss_pred ccc
Q 046093 113 SKK 115 (474)
Q Consensus 113 rp~ 115 (474)
+--
T Consensus 985 ~~~ 987 (1033)
T PLN03142 985 RLI 987 (1033)
T ss_pred HHH
Confidence 654
No 45
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=89.07 E-value=0.55 Score=49.70 Aligned_cols=45 Identities=22% Similarity=0.325 Sum_probs=42.3
Q ss_pred CCChHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhc
Q 046093 69 NITTEEEETIIKLHASLGNRWSVIASHLPGRTDNELKNYWNTHLS 113 (474)
Q Consensus 69 ~WT~EED~~Ll~lV~~~G~~W~~IAk~lpgRT~~qcR~RW~~~Lr 113 (474)
+||..|-.+..++...+|..+..|+..+|.|..+|++.+|.+--+
T Consensus 367 ~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek 411 (507)
T COG5118 367 RWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEK 411 (507)
T ss_pred cccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhh
Confidence 899999999999999999999999999999999999999986443
No 46
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=83.65 E-value=1.5 Score=45.48 Aligned_cols=49 Identities=20% Similarity=0.304 Sum_probs=39.1
Q ss_pred CCCCChHHHHHHHHHHHHh----------CCChhHHhhhC----CCCCHHHHHHHHHHhhccc
Q 046093 67 RGNITTEEEETIIKLHASL----------GNRWSVIASHL----PGRTDNELKNYWNTHLSKK 115 (474)
Q Consensus 67 kg~WT~EED~~Ll~lV~~~----------G~~W~~IAk~l----pgRT~~qcR~RW~~~Lrp~ 115 (474)
...|+.+|-..||++.... +.-|..||+.+ --||+.|||.||.++.++-
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Y 116 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKY 116 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence 3689999999999887653 12399999955 3499999999999976554
No 47
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=79.49 E-value=4.3 Score=39.73 Aligned_cols=93 Identities=11% Similarity=0.043 Sum_probs=64.1
Q ss_pred CCChHHHHHHHHHHHHhCCChhHHhhhC---CCCCHHHHHHHHHHhh----------------ccc-----cccCCCCCC
Q 046093 69 NITTEEEETIIKLHASLGNRWSVIASHL---PGRTDNELKNYWNTHL----------------SKK-----IHTFQGPVG 124 (474)
Q Consensus 69 ~WT~EED~~Ll~lV~~~G~~W~~IAk~l---pgRT~~qcR~RW~~~L----------------rp~-----i~~~~~t~e 124 (474)
.|++.+|..|+.+|.. |..-..|++.+ -.-|-..+..||+.+| .|. -.+..|+.+
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~~ 79 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSKE 79 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCHH
Confidence 5999999999999875 55677776654 3458899999999544 221 234668888
Q ss_pred CcccCcchhhhcCCchHHhh--------ccCCCCCchhhhcchhhh
Q 046093 125 GETLSLPKMVDVASASAAID--------KRKAGKTSRCATKKNKSY 162 (474)
Q Consensus 125 Ed~lil~~~~~~G~~Ws~Ia--------krlpGRTdn~iknrw~s~ 162 (474)
|+.++........+.-.... -+.++||......+|+.+
T Consensus 80 EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lm 125 (199)
T PF13325_consen 80 EEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLM 125 (199)
T ss_pred HHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHH
Confidence 88777665544433332222 234699999999999754
No 48
>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=78.11 E-value=3.5 Score=37.04 Aligned_cols=51 Identities=22% Similarity=0.365 Sum_probs=39.5
Q ss_pred CCCCCCCChHHHHHHHHHHHHhCC----ChhHHhhhC------------CCCCHHHHHHHHHHhhcc
Q 046093 64 DLRRGNITTEEEETIIKLHASLGN----RWSVIASHL------------PGRTDNELKNYWNTHLSK 114 (474)
Q Consensus 64 ~lkkg~WT~EED~~Ll~lV~~~G~----~W~~IAk~l------------pgRT~~qcR~RW~~~Lrp 114 (474)
.-++..||.+||.-|+-.+.+||- .|..|-..+ ..||+..+..|-..+++-
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~ 112 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKL 112 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHH
Confidence 456779999999999999999995 598886543 359999999999887754
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=77.09 E-value=5.2 Score=33.23 Aligned_cols=43 Identities=30% Similarity=0.489 Sum_probs=32.9
Q ss_pred CCChHHHHHHHHHHHHh---C-----C-----ChhHHhhhCC-----CCCHHHHHHHHHHh
Q 046093 69 NITTEEEETIIKLHASL---G-----N-----RWSVIASHLP-----GRTDNELKNYWNTH 111 (474)
Q Consensus 69 ~WT~EED~~Ll~lV~~~---G-----~-----~W~~IAk~lp-----gRT~~qcR~RW~~~ 111 (474)
.||++.+..|++++... | + .|..|+..|. ..+..||++||..+
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~l 61 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTL 61 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHH
Confidence 49999999999988553 1 1 2999988772 24789999998764
No 50
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=72.41 E-value=2.4 Score=35.76 Aligned_cols=30 Identities=27% Similarity=0.555 Sum_probs=17.5
Q ss_pred CCCccCCCCHHHHHHH--------HHHHHHhCCCCcccccc
Q 046093 10 VGLKKGKWTAKEDEIL--------TKYIQANGIESWRSLPK 42 (474)
Q Consensus 10 p~lkKg~WT~EEDe~L--------~~lV~kyG~~nW~~IAk 42 (474)
|.-..|-||+|+|+.| .+++++|| +..|+.
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG---~~~i~~ 80 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHG---EERIER 80 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH----HHHHHH
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC---HHHHHH
Confidence 3345788999999999 55677888 555554
No 51
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=71.18 E-value=6.9 Score=42.61 Aligned_cols=45 Identities=20% Similarity=0.261 Sum_probs=41.4
Q ss_pred CCCCCChHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHH
Q 046093 66 RRGNITTEEEETIIKLHASLGNRWSVIASHLPGRTDNELKNYWNT 110 (474)
Q Consensus 66 kkg~WT~EED~~Ll~lV~~~G~~W~~IAk~lpgRT~~qcR~RW~~ 110 (474)
....||.||--++-++...||.++.+|-+.||.|+-.+++..|..
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYS 230 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHH
Confidence 356899999999999999999999999999999999999988774
No 52
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=70.42 E-value=3.5 Score=44.04 Aligned_cols=55 Identities=22% Similarity=0.271 Sum_probs=46.8
Q ss_pred CCCChHHHHHHHHHHHHhCCChhHHhhh-----CCC-CCHHHHHHHHHHhhccccccCCCC
Q 046093 68 GNITTEEEETIIKLHASLGNRWSVIASH-----LPG-RTDNELKNYWNTHLSKKIHTFQGP 122 (474)
Q Consensus 68 g~WT~EED~~Ll~lV~~~G~~W~~IAk~-----lpg-RT~~qcR~RW~~~Lrp~i~~~~~t 122 (474)
..||.+|-.-|..+.+.|.-+|-.||.. ++. ||-..+|+||+...+.-++...-+
T Consensus 131 n~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~s 191 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARAPS 191 (445)
T ss_pred ccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHccCCC
Confidence 4699999999999999999999999887 554 999999999998877776654433
No 53
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=70.34 E-value=1.6 Score=45.31 Aligned_cols=46 Identities=20% Similarity=0.372 Sum_probs=36.5
Q ss_pred CCCCHHHHHHHHHHHHHh----C-----CCCccccccccC---Ccccccccccccccc
Q 046093 15 GKWTAKEDEILTKYIQAN----G-----IESWRSLPKKAG---LLRCGKSCRLRWVNY 60 (474)
Q Consensus 15 g~WT~EEDe~L~~lV~ky----G-----~~nW~~IAk~l~---~~Rt~kQCr~RW~n~ 60 (474)
..|+.+|-..|+.+.... . ..-|..||+.+. ..|++.||+.||.++
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl 112 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENL 112 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence 689999999999998632 1 135999999553 239999999999874
No 54
>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=64.82 E-value=4.4 Score=36.44 Aligned_cols=34 Identities=21% Similarity=0.406 Sum_probs=28.8
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCC---CCcccccccc
Q 046093 11 GLKKGKWTAKEDEILTKYIQANGI---ESWRSLPKKA 44 (474)
Q Consensus 11 ~lkKg~WT~EEDe~L~~lV~kyG~---~nW~~IAk~l 44 (474)
.-++..||.+||.-|+-++.+||- +.|..|...+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 566788999999999999999998 7899998776
No 55
>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=63.79 E-value=13 Score=27.29 Aligned_cols=38 Identities=18% Similarity=0.354 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHh
Q 046093 73 EEEETIIKLHASLG-NRWSVIASHLPGRTDNELKNYWNTH 111 (474)
Q Consensus 73 EED~~Ll~lV~~~G-~~W~~IAk~lpgRT~~qcR~RW~~~ 111 (474)
+=|.+|+.+.+..| ..|..||+.+ |=+...|+.|+..+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~l-glS~~~v~~Ri~rL 41 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEEL-GLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHH-TS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHH-CcCHHHHHHHHHHh
Confidence 45889999999988 5699999999 88999999998753
No 56
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=60.58 E-value=4.4 Score=43.14 Aligned_cols=63 Identities=14% Similarity=0.201 Sum_probs=48.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccc--cCCCC------CCCCCChHHHHHHH
Q 046093 15 GKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNY--LRTDL------RRGNITTEEEETII 79 (474)
Q Consensus 15 g~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~--L~p~l------kkg~WT~EED~~Ll 79 (474)
-+||.+|-++..++....| .+...|+..+|. |..+|+..+|.+- .+|.. .+-|+..+|=-+|.
T Consensus 366 ~~Ws~~e~ekFYKALs~wG-tdF~LIs~lfP~-R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k~~ 436 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWG-TDFSLISSLFPN-RERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNKLR 436 (507)
T ss_pred CcccHHHHHHHHHHHHHhc-chHHHHHHhcCc-hhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhhHH
Confidence 4699999999999999999 789999999999 9999999998763 22211 24466666644433
No 57
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=60.13 E-value=16 Score=33.51 Aligned_cols=45 Identities=11% Similarity=0.124 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhhcccccc
Q 046093 73 EEEETIIKLHASLG-NRWSVIASHLPGRTDNELKNYWNTHLSKKIHT 118 (474)
Q Consensus 73 EED~~Ll~lV~~~G-~~W~~IAk~lpgRT~~qcR~RW~~~Lrp~i~~ 118 (474)
+-|.+|+.+.++.| ..|..||+.+ |-+...|+.|+..+....+-+
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 57899999999988 5799999999 999999999999988887554
No 58
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=54.67 E-value=5.5 Score=45.59 Aligned_cols=43 Identities=16% Similarity=0.290 Sum_probs=39.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccccccccCCccccccccccccc
Q 046093 15 GKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVN 59 (474)
Q Consensus 15 g~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n 59 (474)
-.||+.|-.+..+++-.|. ++...|++++++ +|.+||-+-|+.
T Consensus 620 d~WTp~E~~lF~kA~y~~~-KDF~~v~km~~~-KtVaqCVeyYYt 662 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYS-KDFIFVQKMVKS-KTVAQCVEYYYT 662 (907)
T ss_pred ccccHHHHHHHHHHHHHhc-ccHHHHHHHhcc-ccHHHHHHHHHH
Confidence 4699999999999999999 899999999999 999999987653
No 59
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=53.70 E-value=24 Score=29.32 Aligned_cols=38 Identities=21% Similarity=0.329 Sum_probs=29.1
Q ss_pred HHHHHHHHhCC--------ChhHHhhhCCC-C--C--HHHHHHHHHHhhcc
Q 046093 77 TIIKLHASLGN--------RWSVIASHLPG-R--T--DNELKNYWNTHLSK 114 (474)
Q Consensus 77 ~Ll~lV~~~G~--------~W~~IAk~lpg-R--T--~~qcR~RW~~~Lrp 114 (474)
+|..+|.++|+ .|..||+.|.- . + +.++|..|..+|.+
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 48888888885 59999999822 1 1 36899999998864
No 60
>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=53.01 E-value=25 Score=26.12 Aligned_cols=41 Identities=22% Similarity=0.263 Sum_probs=29.5
Q ss_pred hHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhc
Q 046093 72 TEEEETIIKLHASLGNRWSVIASHLPGRTDNELKNYWNTHLS 113 (474)
Q Consensus 72 ~EED~~Ll~lV~~~G~~W~~IAk~lpgRT~~qcR~RW~~~Lr 113 (474)
++++..++.++-..|-.|.+||..+ |.+...++.+....++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARK 52 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHh
Confidence 3566777778778888999999999 8999999998776543
No 61
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=51.32 E-value=20 Score=33.24 Aligned_cols=46 Identities=7% Similarity=-0.026 Sum_probs=39.9
Q ss_pred hHHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhhcccccc
Q 046093 72 TEEEETIIKLHASLG-NRWSVIASHLPGRTDNELKNYWNTHLSKKIHT 118 (474)
Q Consensus 72 ~EED~~Ll~lV~~~G-~~W~~IAk~lpgRT~~qcR~RW~~~Lrp~i~~ 118 (474)
.+-|.+|+.+.++.| ..|..||+.+ |-+...|+.|++.+.+..+-+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCeE
Confidence 456889999998888 5799999999 899999999999998887643
No 62
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=49.38 E-value=28 Score=29.24 Aligned_cols=39 Identities=21% Similarity=0.327 Sum_probs=30.0
Q ss_pred HHHHHHHHhCC--------ChhHHhhhCCC-----CCHHHHHHHHHHhhccc
Q 046093 77 TIIKLHASLGN--------RWSVIASHLPG-----RTDNELKNYWNTHLSKK 115 (474)
Q Consensus 77 ~Ll~lV~~~G~--------~W~~IAk~lpg-----RT~~qcR~RW~~~Lrp~ 115 (474)
+|..+|.+.|+ .|..||+.|.- ....++|..|..+|.|-
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~y 87 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPF 87 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHH
Confidence 48888888885 59999999832 23678899999888763
No 63
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=47.84 E-value=28 Score=40.23 Aligned_cols=44 Identities=14% Similarity=0.159 Sum_probs=40.8
Q ss_pred CCCCChHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHH
Q 046093 67 RGNITTEEEETIIKLHASLGNRWSVIASHLPGRTDNELKNYWNT 110 (474)
Q Consensus 67 kg~WT~EED~~Ll~lV~~~G~~W~~IAk~lpgRT~~qcR~RW~~ 110 (474)
...||+.|..+..+++-.|...+-.|++.++++|-+||-..|+.
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHH
Confidence 45899999999999999999999999999999999999988764
No 64
>smart00595 MADF subfamily of SANT domain.
Probab=43.80 E-value=20 Score=29.37 Aligned_cols=24 Identities=29% Similarity=0.477 Sum_probs=20.5
Q ss_pred ChhHHhhhCCCCCHHHHHHHHHHhh
Q 046093 88 RWSVIASHLPGRTDNELKNYWNTHL 112 (474)
Q Consensus 88 ~W~~IAk~lpgRT~~qcR~RW~~~L 112 (474)
-|..||..|. -+...|+.+|+++-
T Consensus 29 aW~~Ia~~l~-~~~~~~~~kw~~LR 52 (89)
T smart00595 29 AWEEIAEELG-LSVEECKKRWKNLR 52 (89)
T ss_pred HHHHHHHHHC-cCHHHHHHHHHHHH
Confidence 3999999994 49999999999753
No 65
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=42.61 E-value=30 Score=39.16 Aligned_cols=50 Identities=14% Similarity=0.361 Sum_probs=40.6
Q ss_pred CCCCChHHHHHHHHHHHHhCCChhHHhhh----------CCCCCHHHHHHHHHHhhcccc
Q 046093 67 RGNITTEEEETIIKLHASLGNRWSVIASH----------LPGRTDNELKNYWNTHLSKKI 116 (474)
Q Consensus 67 kg~WT~EED~~Ll~lV~~~G~~W~~IAk~----------lpgRT~~qcR~RW~~~Lrp~i 116 (474)
|..||-+|..-...++.+||..+..|-++ ..-+|..|+|.+|+..+++.-
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~ 147 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMN 147 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHH
Confidence 67899999999999999999999998332 233577899999988776553
No 66
>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=39.72 E-value=27 Score=29.35 Aligned_cols=24 Identities=29% Similarity=0.350 Sum_probs=13.4
Q ss_pred CCCCCCCCChHHHHHHH--------HHHHHhC
Q 046093 63 TDLRRGNITTEEEETII--------KLHASLG 86 (474)
Q Consensus 63 p~lkkg~WT~EED~~Ll--------~lV~~~G 86 (474)
|.-..|-||+++|..|. +++++||
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG 74 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHG 74 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH-
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC
Confidence 55568899999999994 4555665
No 67
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=38.78 E-value=18 Score=40.85 Aligned_cols=47 Identities=15% Similarity=0.271 Sum_probs=36.5
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCCc---------cccccccccccccc
Q 046093 14 KGKWTAKEDEILTKYIQANGIESWRSLPKKAGLL---------RCGKSCRLRWVNYL 61 (474)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~---------Rt~kQCr~RW~n~L 61 (474)
|..||..|......+++.+| ++...|-+.+..+ ++..|.|++|++.+
T Consensus 88 ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV 143 (782)
T ss_pred ccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence 66899999999999999999 8898884444332 44567888877654
No 68
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=37.72 E-value=34 Score=38.54 Aligned_cols=46 Identities=20% Similarity=0.327 Sum_probs=42.5
Q ss_pred CCCCCChHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHh
Q 046093 66 RRGNITTEEEETIIKLHASLGNRWSVIASHLPGRTDNELKNYWNTH 111 (474)
Q Consensus 66 kkg~WT~EED~~Ll~lV~~~G~~W~~IAk~lpgRT~~qcR~RW~~~ 111 (474)
..++|+..|-.+-..+....|...+.|+..+|+|..+|+|.++..-
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~e 453 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKE 453 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhh
Confidence 3568999999999999999999999999999999999999998753
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=37.08 E-value=11 Score=27.62 Aligned_cols=38 Identities=21% Similarity=0.337 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHhCCCCccccccccCCccccccccccccc
Q 046093 20 KEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVN 59 (474)
Q Consensus 20 EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n 59 (474)
+=|.+|+.+++..+...|.+||+.++ =+...|..|+.+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg--lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG--LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT--S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC--cCHHHHHHHHHH
Confidence 45888999999999889999999998 588889888754
No 70
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=34.29 E-value=20 Score=38.47 Aligned_cols=49 Identities=12% Similarity=0.201 Sum_probs=41.7
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCccccccc-----cCCcccccccccccccc
Q 046093 11 GLKKGKWTAKEDEILTKYIQANGIESWRSLPKK-----AGLLRCGKSCRLRWVNY 60 (474)
Q Consensus 11 ~lkKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~-----l~~~Rt~kQCr~RW~n~ 60 (474)
.+.-..||.+|-+.|..+.++|. -.|-.||.. ++..||-...++||+.+
T Consensus 127 ~l~dn~WskeETD~LF~lck~fD-LRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 127 HLNDNSWSKEETDYLFDLCKRFD-LRFFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred hhccccccHHHHHHHHHHHHhcC-eeEEEEeeccchhhccccccHHHHHHHHHHH
Confidence 34557899999999999999998 679999988 55558999999999865
No 71
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=33.15 E-value=16 Score=33.40 Aligned_cols=46 Identities=13% Similarity=0.142 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCC
Q 046093 19 AKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDLR 66 (474)
Q Consensus 19 ~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L~p~lk 66 (474)
.+-|.+|+.+.++.|...|.+||+.++ -+...|+.|+.+....++-
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 357999999999999889999999997 6999999999887665543
No 72
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=32.08 E-value=93 Score=26.22 Aligned_cols=45 Identities=11% Similarity=0.091 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhhcccccc
Q 046093 73 EEEETIIKLHASLG-NRWSVIASHLPGRTDNELKNYWNTHLSKKIHT 118 (474)
Q Consensus 73 EED~~Ll~lV~~~G-~~W~~IAk~lpgRT~~qcR~RW~~~Lrp~i~~ 118 (474)
+.|.+|+.+....| ..+..||+.+ +-+...|+.|...+....+-+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 56888999999888 5699999999 889999999999988877544
No 73
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=32.04 E-value=43 Score=40.88 Aligned_cols=76 Identities=12% Similarity=0.163 Sum_probs=47.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCChHHHHHHHHHHHHh-CCChhHH
Q 046093 14 KGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDLRRGNITTEEEETIIKLHASL-GNRWSVI 92 (474)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L~p~lkkg~WT~EED~~Ll~lV~~~-G~~W~~I 92 (474)
-.-|..++|..|+-.|-+||.++|..|-.- +.-|... ...+...+-.++|=..+-..|+.++..+ +.+|...
T Consensus 1133 ~~~W~~e~Ds~LLiGI~khGygswe~Ir~D------p~L~l~d-Ki~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~~ 1205 (1373)
T KOG0384|consen 1133 DCDWGSEDDSMLLIGIFKHGYGSWEAIRLD------PDLGLTD-KIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPKK 1205 (1373)
T ss_pred ccCCCchhhhhHhhhhhhcccccHHHhccC------ccccchh-hhcccccCCchHHHHHHHHHHHHHHhhcccCCCchh
Confidence 345999999999999999999999988421 1111110 1111112334566666677777777766 4556655
Q ss_pred hhhC
Q 046093 93 ASHL 96 (474)
Q Consensus 93 Ak~l 96 (474)
.+..
T Consensus 1206 ~~~~ 1209 (1373)
T KOG0384|consen 1206 LKRE 1209 (1373)
T ss_pred hhcc
Confidence 5443
No 74
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=30.60 E-value=15 Score=34.02 Aligned_cols=46 Identities=22% Similarity=0.216 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCC
Q 046093 19 AKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYLRTDLR 66 (474)
Q Consensus 19 ~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L~p~lk 66 (474)
.+-|.+|+.+.++.|.-.|.+||+.++ -+...|+.|+.+..+.++-
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~GvI 58 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGFI 58 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 567999999999999889999999998 6999999999887766553
No 75
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=29.88 E-value=7e+02 Score=26.52 Aligned_cols=92 Identities=17% Similarity=0.329 Sum_probs=57.9
Q ss_pred CCCCChHHHHHHHHHHHHh-CCC---hhHHhhhCCCCCHHHHHHHHHHhhccc-----cccCC--CCCCCc--ccCcchh
Q 046093 67 RGNITTEEEETIIKLHASL-GNR---WSVIASHLPGRTDNELKNYWNTHLSKK-----IHTFQ--GPVGGE--TLSLPKM 133 (474)
Q Consensus 67 kg~WT~EED~~Ll~lV~~~-G~~---W~~IAk~lpgRT~~qcR~RW~~~Lrp~-----i~~~~--~t~eEd--~lil~~~ 133 (474)
-..||.-|...|+++.+.. |.. -..|++.+++|+..+|++.-.. |+.+ |.+.. |..... ...++.
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~-LK~rvareaiqkv~~~g~~~~R~~e~q~pa- 98 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQ-LKGRVAREAIQKVHPGGLKGPRRREAQPPA- 98 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHH-HHHHHHHHHHHHhcccccccccccccCCCc-
Confidence 4589999999999998765 433 5689999999999999875443 3333 22200 110000 011111
Q ss_pred hhcCCchHHhhccCCCCCchhhhcchhhh
Q 046093 134 VDVASASAAIDKRKAGKTSRCATKKNKSY 162 (474)
Q Consensus 134 ~~~G~~Ws~IakrlpGRTdn~iknrw~s~ 162 (474)
---.|...+..+.|.-...+.--|-..
T Consensus 99 --PIEvW~dla~k~tg~~ee~~t~afsq~ 125 (344)
T PF11035_consen 99 --PIEVWMDLAEKVTGPLEEALTAAFSQV 125 (344)
T ss_pred --cHHHHHHHHHHhcCchHHHHHHHHHHH
Confidence 112499999999998888777666433
No 76
>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=28.82 E-value=1.5e+02 Score=31.41 Aligned_cols=86 Identities=20% Similarity=0.298 Sum_probs=59.7
Q ss_pred cCCCCHHHHHHHHHHHHHhCCC---CccccccccCCcccccccccccccccCCCCCCCCCChHHHHHHHHHHHH-h----
Q 046093 14 KGKWTAKEDEILTKYIQANGIE---SWRSLPKKAGLLRCGKSCRLRWVNYLRTDLRRGNITTEEEETIIKLHAS-L---- 85 (474)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~~---nW~~IAk~l~~~Rt~kQCr~RW~n~L~p~lkkg~WT~EED~~Ll~lV~~-~---- 85 (474)
-..||.-|...|+++.+..... +-.+|++.+++ |+..++++ |.+.|+ +..+.++|++ |
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~-Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g~ 86 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPG-RSEAEIRD-FLQQLK------------GRVAREAIQKVHPGGL 86 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccC-cCHHHHHH-HHHHHH------------HHHHHHHHHHhccccc
Confidence 4579999999999999865323 34578888988 98888776 445443 3445566655 2
Q ss_pred -CC------------ChhHHhhhCCCCCHHHHHHHHHHhhc
Q 046093 86 -GN------------RWSVIASHLPGRTDNELKNYWNTHLS 113 (474)
Q Consensus 86 -G~------------~W~~IAk~lpgRT~~qcR~RW~~~Lr 113 (474)
|. -|..+|+.+.|.-...+---|-..|.
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 11 18888888888777777776666553
No 77
>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=27.89 E-value=47 Score=26.29 Aligned_cols=25 Identities=24% Similarity=0.434 Sum_probs=20.2
Q ss_pred ChhHHhhhCC-CCCHHHHHHHHHHhh
Q 046093 88 RWSVIASHLP-GRTDNELKNYWNTHL 112 (474)
Q Consensus 88 ~W~~IAk~lp-gRT~~qcR~RW~~~L 112 (474)
-|..||..|. .-+...|+.||.++.
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr 53 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLR 53 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHH
Confidence 3999999994 357889999999754
No 78
>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=25.68 E-value=1.1e+02 Score=22.37 Aligned_cols=41 Identities=24% Similarity=0.321 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhcc
Q 046093 73 EEEETIIKLHASLGNRWSVIASHLPGRTDNELKNYWNTHLSK 114 (474)
Q Consensus 73 EED~~Ll~lV~~~G~~W~~IAk~lpgRT~~qcR~RW~~~Lrp 114 (474)
+++..++.++-..|-.+.+||..| |-+...++.+-...+++
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~k 47 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKK 47 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHH
Confidence 344455555444456799999999 77888888887766654
No 79
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=25.06 E-value=1.2e+02 Score=26.79 Aligned_cols=50 Identities=14% Similarity=0.161 Sum_probs=33.1
Q ss_pred cccCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCccccccccccccccc
Q 046093 7 CEKVGLKKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVNYL 61 (474)
Q Consensus 7 ~~kp~lkKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n~L 61 (474)
|.-| .++..||.|+-..++..+...| ..=..||+.++- ..+-..+|.+.+
T Consensus 4 ~~~~-~~rr~ys~EfK~~aV~~~~~~g-~sv~evA~e~gI---s~~tl~~W~r~y 53 (121)
T PRK09413 4 VLGP-EKRRRRTTQEKIAIVQQSFEPG-MTVSLVARQHGV---AASQLFLWRKQY 53 (121)
T ss_pred cCCC-CCCCCCCHHHHHHHHHHHHcCC-CCHHHHHHHHCc---CHHHHHHHHHHH
Confidence 4444 3457899999888777777666 456788888864 333345576654
No 80
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=23.80 E-value=1.4e+02 Score=26.13 Aligned_cols=36 Identities=22% Similarity=0.257 Sum_probs=26.3
Q ss_pred HHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhcc
Q 046093 78 IIKLHASLGNRWSVIASHLPGRTDNELKNYWNTHLSK 114 (474)
Q Consensus 78 Ll~lV~~~G~~W~~IAk~lpgRT~~qcR~RW~~~Lrp 114 (474)
++.+.-..|-.+.+||+.+ |.+...++.+....+++
T Consensus 121 il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 121 IFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3333333467899999998 88999999998875443
No 81
>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=23.75 E-value=1.6e+02 Score=27.50 Aligned_cols=47 Identities=17% Similarity=0.181 Sum_probs=38.8
Q ss_pred CCCCCChHHHHHHHHHHHHhCCChhHHhhhCC----CCCHHHHHHHHHHhh
Q 046093 66 RRGNITTEEEETIIKLHASLGNRWSVIASHLP----GRTDNELKNYWNTHL 112 (474)
Q Consensus 66 kkg~WT~EED~~Ll~lV~~~G~~W~~IAk~lp----gRT~~qcR~RW~~~L 112 (474)
...+-|..|..-|..||.+||.++..++.-.. -.|..||+.+...+.
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~k 163 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKYK 163 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHhc
Confidence 34578999999999999999999999987442 379999999887664
No 82
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=22.91 E-value=38 Score=37.19 Aligned_cols=45 Identities=16% Similarity=0.203 Sum_probs=39.0
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCccccccccCCccccccccccccc
Q 046093 13 KKGKWTAKEDEILTKYIQANGIESWRSLPKKAGLLRCGKSCRLRWVN 59 (474)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCr~RW~n 59 (474)
..-.||.||--++-++...|| ++..+|-+.|+- |+-...++-|+.
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~G-K~F~kIrq~LP~-rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFG-KDFHKIRQALPH-RSLASLVQYYYS 230 (534)
T ss_pred CcccchHHHHHHHHHHHHHhc-ccHHHHHHHccC-ccHHHHHHHHHH
Confidence 455799999999999999999 899999999997 888887776554
No 83
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=22.09 E-value=1.8e+02 Score=20.96 Aligned_cols=36 Identities=22% Similarity=0.133 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHH
Q 046093 73 EEEETIIKLHASLGNRWSVIASHLPGRTDNELKNYWN 109 (474)
Q Consensus 73 EED~~Ll~lV~~~G~~W~~IAk~lpgRT~~qcR~RW~ 109 (474)
-|...|.++...++++-...|+.| |=+...++.|-.
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~klk 40 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRKLK 40 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHHH
Confidence 367788999999999999999988 666666665543
No 84
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=21.78 E-value=1e+02 Score=25.11 Aligned_cols=24 Identities=17% Similarity=0.397 Sum_probs=19.7
Q ss_pred HHHHHHHHHHhCCChhHHhhhCCCCC
Q 046093 75 EETIIKLHASLGNRWSVIASHLPGRT 100 (474)
Q Consensus 75 D~~Ll~lV~~~G~~W~~IAk~lpgRT 100 (474)
+.+|.++|..|| |...++.+.-|+
T Consensus 12 e~il~~Lv~~yG--W~~L~~~i~i~C 35 (64)
T PF09905_consen 12 ETILTELVEHYG--WEELGERININC 35 (64)
T ss_dssp HHHHHHHHHHT---HHHHHHHTTSSS
T ss_pred HHHHHHHHHHhC--HHHHHhhccccc
Confidence 578899999998 999999997664
No 85
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=21.13 E-value=1.5e+02 Score=26.31 Aligned_cols=45 Identities=9% Similarity=0.084 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhhcccccc
Q 046093 73 EEEETIIKLHASLG-NRWSVIASHLPGRTDNELKNYWNTHLSKKIHT 118 (474)
Q Consensus 73 EED~~Ll~lV~~~G-~~W~~IAk~lpgRT~~qcR~RW~~~Lrp~i~~ 118 (474)
+-|.+|+++.+..+ ..+..||+.+ |-+...|+.|-..+.+..+-+
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI~ 53 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVIK 53 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCcee
Confidence 56888999998888 5699999999 899999999999988887544
No 86
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=20.75 E-value=2.3e+02 Score=30.57 Aligned_cols=43 Identities=19% Similarity=0.261 Sum_probs=38.3
Q ss_pred CCCChHHHHHHHHHHHHhCCChhHHhh-hCCCCCHHHHHHHHHH
Q 046093 68 GNITTEEEETIIKLHASLGNRWSVIAS-HLPGRTDNELKNYWNT 110 (474)
Q Consensus 68 g~WT~EED~~Ll~lV~~~G~~W~~IAk-~lpgRT~~qcR~RW~~ 110 (474)
..|+++|=...-+.++.||..+..|.+ .++.|+-..|-..|+.
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYl 321 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYL 321 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHH
Confidence 479999999999999999999999955 6799999999887764
No 87
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=20.56 E-value=52 Score=39.72 Aligned_cols=33 Identities=15% Similarity=0.250 Sum_probs=29.0
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCcccccccc
Q 046093 12 LKKGKWTAKEDEILTKYIQANGIESWRSLPKKA 44 (474)
Q Consensus 12 lkKg~WT~EEDe~L~~lV~kyG~~nW~~IAk~l 44 (474)
-++..+|.|||.-|+-.+.+||.++|.+|-..+
T Consensus 924 ~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i 956 (1033)
T PLN03142 924 NKGKLYNEECDRFMLCMVHKLGYGNWDELKAAF 956 (1033)
T ss_pred CCCCcCCHHHHHHHHHHHHHhccchHHHHHHHH
Confidence 345569999999999999999999999997766
Done!