Query 043557
Match_columns 334
No_of_seqs 266 out of 1902
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 06:13:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043557.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043557hhsearch_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 4.9E-36 1.1E-40 294.9 10.6 132 1-132 1-132 (459)
2 PLN03212 Transcription repress 100.0 1.5E-35 3.3E-40 273.7 9.6 127 3-129 14-140 (249)
3 KOG0048 Transcription factor, 100.0 7.3E-31 1.6E-35 244.8 11.1 115 9-123 4-118 (238)
4 KOG0048 Transcription factor, 100.0 5.9E-30 1.3E-34 238.7 0.5 103 63-165 5-114 (238)
5 PLN03212 Transcription repress 99.9 1.6E-24 3.4E-29 200.7 3.4 111 43-161 9-126 (249)
6 KOG0049 Transcription factor, 99.9 1.6E-22 3.5E-27 205.3 8.6 135 7-141 246-435 (939)
7 PLN03091 hypothetical protein; 99.9 4.3E-23 9.3E-28 203.7 1.9 105 59-163 6-117 (459)
8 KOG0049 Transcription factor, 99.8 7.4E-20 1.6E-24 186.1 5.0 110 1-111 347-460 (939)
9 PF13921 Myb_DNA-bind_6: Myb-l 99.6 1.7E-16 3.7E-21 117.3 2.7 60 17-78 1-60 (60)
10 COG5147 REB1 Myb superfamily p 99.5 1.5E-14 3.2E-19 147.1 6.2 109 8-117 14-122 (512)
11 PF13921 Myb_DNA-bind_6: Myb-l 99.5 8.4E-15 1.8E-19 108.2 3.3 60 70-129 1-60 (60)
12 KOG0050 mRNA splicing protein 99.5 8.1E-15 1.7E-19 146.8 2.2 106 12-119 5-110 (617)
13 KOG0051 RNA polymerase I termi 99.4 6.5E-14 1.4E-18 143.8 4.9 108 13-123 383-519 (607)
14 PF00249 Myb_DNA-binding: Myb- 99.4 5.6E-13 1.2E-17 94.7 4.7 46 67-112 1-48 (48)
15 PF00249 Myb_DNA-binding: Myb- 99.3 2.6E-13 5.7E-18 96.4 -0.3 48 14-61 1-48 (48)
16 KOG0051 RNA polymerase I termi 99.2 8.5E-12 1.8E-16 128.4 5.3 120 12-135 306-453 (607)
17 smart00717 SANT SANT SWI3, AD 99.1 8.4E-11 1.8E-15 81.3 5.2 47 67-113 1-48 (49)
18 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 6.5E-10 1.4E-14 75.7 5.3 44 69-112 1-45 (45)
19 smart00717 SANT SANT SWI3, AD 98.9 3.2E-10 7E-15 78.3 1.5 48 14-62 1-48 (49)
20 cd00167 SANT 'SWI3, ADA2, N-Co 98.8 1.7E-09 3.7E-14 73.5 1.2 44 16-60 1-44 (45)
21 COG5147 REB1 Myb superfamily p 98.7 3.1E-09 6.6E-14 108.7 0.2 96 64-159 17-118 (512)
22 KOG0050 mRNA splicing protein 98.4 1.6E-07 3.5E-12 95.0 4.0 77 65-141 5-82 (617)
23 TIGR01557 myb_SHAQKYF myb-like 97.7 1.5E-05 3.3E-10 59.0 1.5 48 14-61 3-54 (57)
24 TIGR01557 myb_SHAQKYF myb-like 97.7 9.8E-05 2.1E-09 54.7 5.6 46 67-112 3-54 (57)
25 KOG0457 Histone acetyltransfer 97.6 1.6E-05 3.5E-10 79.5 0.8 51 11-62 69-119 (438)
26 TIGR02894 DNA_bind_RsfA transc 97.5 0.00014 3.1E-09 64.2 4.4 53 65-118 2-61 (161)
27 KOG0457 Histone acetyltransfer 97.3 0.00032 6.9E-09 70.4 5.7 49 65-113 70-119 (438)
28 PF08914 Myb_DNA-bind_2: Rap1 97.0 0.0009 1.9E-08 50.9 4.3 50 67-116 2-61 (65)
29 PF13325 MCRS_N: N-terminal re 96.9 0.0013 2.8E-08 60.3 4.8 98 16-115 1-129 (199)
30 COG5259 RSC8 RSC chromatin rem 96.8 0.00037 8E-09 70.5 0.6 46 13-60 278-323 (531)
31 KOG1279 Chromatin remodeling f 96.7 0.0007 1.5E-08 69.9 1.4 47 12-60 251-297 (506)
32 COG5259 RSC8 RSC chromatin rem 96.7 0.0017 3.7E-08 65.8 4.0 44 67-110 279-322 (531)
33 KOG1279 Chromatin remodeling f 96.6 0.0023 5E-08 66.2 4.9 45 66-110 252-296 (506)
34 PF13837 Myb_DNA-bind_4: Myb/S 96.5 0.0023 4.9E-08 50.2 3.3 49 67-115 1-67 (90)
35 PRK13923 putative spore coat p 96.3 0.0044 9.4E-08 55.6 3.9 52 65-117 3-61 (170)
36 TIGR02894 DNA_bind_RsfA transc 95.8 0.0019 4.1E-08 57.2 -0.6 50 12-63 2-57 (161)
37 PF13873 Myb_DNA-bind_5: Myb/S 95.5 0.029 6.2E-07 43.2 5.0 50 67-116 2-73 (78)
38 PF13837 Myb_DNA-bind_4: Myb/S 95.5 0.0024 5.1E-08 50.1 -1.2 47 14-60 1-63 (90)
39 COG5114 Histone acetyltransfer 95.3 0.0037 8E-08 60.8 -0.6 46 16-62 65-110 (432)
40 COG5114 Histone acetyltransfer 95.1 0.019 4.1E-07 56.0 3.6 46 68-113 64-110 (432)
41 PF08914 Myb_DNA-bind_2: Rap1 95.0 0.0086 1.9E-07 45.5 0.6 52 14-65 2-61 (65)
42 PF13873 Myb_DNA-bind_5: Myb/S 93.9 0.011 2.3E-07 45.6 -1.1 49 13-61 1-69 (78)
43 PRK13923 putative spore coat p 93.6 0.01 2.3E-07 53.2 -1.7 50 11-62 2-57 (170)
44 PLN03142 Probable chromatin-re 93.6 0.15 3.3E-06 57.3 6.8 100 16-116 826-988 (1033)
45 COG5118 BDP1 Transcription ini 90.6 0.43 9.3E-06 47.8 5.2 44 69-112 367-410 (507)
46 KOG4282 Transcription factor G 89.8 0.55 1.2E-05 46.1 5.3 51 67-117 54-118 (345)
47 PF09111 SLIDE: SLIDE; InterP 88.4 1 2.2E-05 38.1 5.3 52 64-115 46-113 (118)
48 COG5118 BDP1 Transcription ini 84.6 0.89 1.9E-05 45.6 3.3 67 14-82 365-439 (507)
49 KOG2656 DNA methyltransferase 83.1 2.7 5.8E-05 42.4 5.9 84 36-120 75-189 (445)
50 PF12776 Myb_DNA-bind_3: Myb/S 81.4 3.4 7.4E-05 32.4 5.0 45 69-113 1-63 (96)
51 PF09111 SLIDE: SLIDE; InterP 80.1 1.3 2.8E-05 37.6 2.2 35 10-44 45-82 (118)
52 KOG4282 Transcription factor G 76.3 0.97 2.1E-05 44.4 0.5 47 14-60 54-112 (345)
53 KOG1194 Predicted DNA-binding 74.4 6.2 0.00013 40.6 5.6 48 66-113 186-233 (534)
54 PF11626 Rap1_C: TRF2-interact 70.4 4.1 8.8E-05 32.3 2.7 29 10-41 43-79 (87)
55 KOG4468 Polycomb-group transcr 69.8 11 0.00024 40.2 6.2 56 67-123 88-153 (782)
56 PF11626 Rap1_C: TRF2-interact 64.9 6.3 0.00014 31.2 2.7 17 63-79 43-59 (87)
57 PF08281 Sigma70_r4_2: Sigma-7 63.9 16 0.00035 25.5 4.5 41 72-113 12-52 (54)
58 PRK11179 DNA-binding transcrip 62.2 10 0.00022 32.8 3.8 46 72-118 8-54 (153)
59 smart00595 MADF subfamily of S 61.2 7.7 0.00017 30.0 2.6 25 88-113 29-53 (89)
60 PF12776 Myb_DNA-bind_3: Myb/S 60.9 2.7 5.8E-05 33.0 -0.1 44 16-59 1-60 (96)
61 PF13404 HTH_AsnC-type: AsnC-t 60.1 15 0.00033 25.2 3.6 37 73-110 3-40 (42)
62 KOG4167 Predicted DNA-binding 59.2 3.7 8E-05 44.5 0.6 42 15-58 620-661 (907)
63 PF01388 ARID: ARID/BRIGHT DNA 56.9 22 0.00047 27.9 4.5 38 77-114 40-90 (92)
64 PRK11169 leucine-responsive tr 55.8 11 0.00025 32.9 3.0 47 72-119 13-60 (164)
65 smart00501 BRIGHT BRIGHT, ARID 54.7 22 0.00048 28.1 4.3 39 77-115 36-87 (93)
66 PF13325 MCRS_N: N-terminal re 52.0 26 0.00057 32.4 4.8 44 69-113 1-47 (199)
67 KOG0384 Chromodomain-helicase 49.5 16 0.00034 42.1 3.4 75 13-94 1132-1207(1373)
68 KOG2656 DNA methyltransferase 48.6 9.3 0.0002 38.7 1.4 49 12-61 128-181 (445)
69 KOG2009 Transcription initiati 47.2 24 0.00051 37.6 4.2 45 66-110 408-452 (584)
70 PRK11179 DNA-binding transcrip 45.6 5.9 0.00013 34.3 -0.4 45 19-65 8-52 (153)
71 PF13404 HTH_AsnC-type: AsnC-t 45.3 4.5 9.8E-05 27.9 -1.0 38 20-59 3-40 (42)
72 KOG4167 Predicted DNA-binding 43.4 36 0.00078 37.3 4.8 45 67-111 619-663 (907)
73 KOG4468 Polycomb-group transcr 42.4 17 0.00036 38.8 2.2 46 14-61 88-143 (782)
74 PRK11169 leucine-responsive tr 40.7 6.3 0.00014 34.6 -1.0 45 19-65 13-57 (164)
75 KOG2009 Transcription initiati 33.2 26 0.00057 37.3 1.9 49 9-59 404-452 (584)
76 PF11035 SnAPC_2_like: Small n 33.2 77 0.0017 31.5 5.0 86 14-113 21-127 (344)
77 PF04545 Sigma70_r4: Sigma-70, 33.0 87 0.0019 21.5 4.1 41 73-114 7-47 (50)
78 PLN03162 golden-2 like transcr 32.3 3.1E+02 0.0067 28.1 9.0 45 68-112 238-287 (526)
79 PF09420 Nop16: Ribosome bioge 31.0 95 0.0021 27.4 4.9 47 66-112 113-163 (164)
80 KOG4329 DNA-binding protein [G 30.8 1.6E+02 0.0035 29.9 6.8 42 68-109 278-320 (445)
81 smart00344 HTH_ASNC helix_turn 29.8 84 0.0018 24.9 4.0 45 73-118 3-48 (108)
82 KOG0384 Chromodomain-helicase 29.6 30 0.00065 39.9 1.7 25 69-93 1135-1160(1373)
83 PLN03142 Probable chromatin-re 27.6 44 0.00096 38.1 2.6 34 11-44 923-956 (1033)
84 PF10545 MADF_DNA_bdg: Alcohol 25.4 57 0.0012 24.3 2.2 26 88-113 28-54 (85)
85 PF11035 SnAPC_2_like: Small n 25.3 2.3E+02 0.0049 28.3 6.6 44 67-110 21-68 (344)
86 PF12638 Staygreen: Staygreen 25.1 30 0.00065 30.7 0.6 22 310-331 105-126 (151)
87 PF09420 Nop16: Ribosome bioge 24.6 49 0.0011 29.2 1.9 45 12-57 112-159 (164)
88 smart00351 PAX Paired Box doma 23.4 1.2E+02 0.0026 25.4 4.0 72 13-86 14-92 (125)
89 TIGR02985 Sig70_bacteroi1 RNA 23.0 1.7E+02 0.0038 24.0 4.9 29 85-114 128-156 (161)
90 KOG1194 Predicted DNA-binding 22.7 42 0.00091 34.8 1.2 44 13-58 186-229 (534)
91 PF02954 HTH_8: Bacterial regu 22.2 1.4E+02 0.003 20.1 3.4 23 74-96 6-28 (42)
92 COG1168 MalY Bifunctional PLP- 21.8 97 0.0021 31.5 3.5 34 8-44 165-199 (388)
93 PF07750 GcrA: GcrA cell cycle 21.4 57 0.0012 29.0 1.7 41 17-60 3-43 (162)
94 PRK13858 type IV secretion sys 21.0 87 0.0019 27.7 2.7 80 3-96 17-96 (147)
95 PF01710 HTH_Tnp_IS630: Transp 20.6 65 0.0014 26.7 1.8 66 8-78 47-112 (119)
96 COG1522 Lrp Transcriptional re 20.4 1.4E+02 0.0031 25.0 3.9 46 73-119 8-54 (154)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=4.9e-36 Score=294.90 Aligned_cols=132 Identities=62% Similarity=1.211 Sum_probs=127.8
Q ss_pred CCCCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCCHHHHHHHHH
Q 043557 1 MGRPPCCDKSNVKRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYLRPDLRHASFAPHEEEIIIN 80 (334)
Q Consensus 1 mgR~~~~~kp~lkkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~ 80 (334)
|||++||.|++++||+||+|||++|+++|.+||..+|..||+.++++|+++|||+||.++|+|.+++++||+|||++|++
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 99999999999999999999999999999999999999999999779999999999999999999999999999999999
Q ss_pred HHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhHHHhhhCCCCCCCCchHHHH
Q 043557 81 LHKAIGSRWSLIAQQLPGRTDNDVKNFWNTKLKKKLMKLGIDPITHKPFSQI 132 (334)
Q Consensus 81 ~v~~~G~~W~~Ia~~l~gRt~~qcr~RW~~~Lr~~ikrg~~t~~E~~~l~~l 132 (334)
++++||.+|..||+.|+||++++||+||+.+|++.+++.+..+.+.+++...
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~kpl~e~ 132 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPLSEV 132 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCCCCcccc
Confidence 9999999999999999999999999999999999999988998888888654
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=1.5e-35 Score=273.69 Aligned_cols=127 Identities=56% Similarity=1.166 Sum_probs=121.9
Q ss_pred CCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCCHHHHHHHHHHH
Q 043557 3 RPPCCDKSNVKRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYLRPDLRHASFAPHEEEIIINLH 82 (334)
Q Consensus 3 R~~~~~kp~lkkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~~v 82 (334)
|.|||.|+++++++||+|||++|+++|++||..+|..||+.++++|+++|||+||.++|+|.+++++||+|||++|++++
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 67999999999999999999999999999999999999999977999999999999999999999999999999999999
Q ss_pred HHhCCchhhhhhcCCCCCHHHHHHHHHHHhHHHhhhCCCCCCCCchH
Q 043557 83 KAIGSRWSLIAQQLPGRTDNDVKNFWNTKLKKKLMKLGIDPITHKPF 129 (334)
Q Consensus 83 ~~~G~~W~~Ia~~l~gRt~~qcr~RW~~~Lr~~ikrg~~t~~E~~~l 129 (334)
.+||++|..||+.|+|||+++||+||+.+|++.+++.+..+++.+++
T Consensus 94 ~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~~~kp~ 140 (249)
T PLN03212 94 RLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTHKPL 140 (249)
T ss_pred HhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCCCCCCC
Confidence 99999999999999999999999999999999999988888877654
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.97 E-value=7.3e-31 Score=244.76 Aligned_cols=115 Identities=60% Similarity=1.097 Sum_probs=108.7
Q ss_pred CCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCCHHHHHHHHHHHHHhCCc
Q 043557 9 KSNVKRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYLRPDLRHASFAPHEEEIIINLHKAIGSR 88 (334)
Q Consensus 9 kp~lkkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~~v~~~G~~ 88 (334)
++.+.||+||+|||++|+++|++||.++|..||+.+|++|++++||.||.|||+|+++||.||+|||.+|++++..+|++
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 34456899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhcCCCCCHHHHHHHHHHHhHHHhhhCCCCC
Q 043557 89 WSLIAQQLPGRTDNDVKNFWNTKLKKKLMKLGIDP 123 (334)
Q Consensus 89 W~~Ia~~l~gRt~~qcr~RW~~~Lr~~ikrg~~t~ 123 (334)
|+.||++|||||++.++++|+..|++.+......+
T Consensus 84 Ws~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~~~~ 118 (238)
T KOG0048|consen 84 WSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMGIDP 118 (238)
T ss_pred HHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcCCCC
Confidence 99999999999999999999999999988766433
No 4
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.95 E-value=5.9e-30 Score=238.65 Aligned_cols=103 Identities=17% Similarity=0.195 Sum_probs=96.0
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhC-CchhhhhhcCC-CCCHHHHHHHHHHHhHHHhhhCCCCCCCCchHHHHHHhhCCCC
Q 043557 63 PDLRHASFAPHEEEIIINLHKAIG-SRWSLIAQQLP-GRTDNDVKNFWNTKLKKKLMKLGIDPITHKPFSQIFSDYGNIS 140 (334)
Q Consensus 63 p~lkkg~WT~EED~~Ll~~v~~~G-~~W~~Ia~~l~-gRt~~qcr~RW~~~Lr~~ikrg~~t~~E~~~l~~l~~~~Gn~~ 140 (334)
+.+.||+||+|||.+|+++|++|| ++|..||+.++ +||+++||.||.|||+|.+|+|.||++|+..|+++|+.+||.|
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 445579999999999999999999 78999999996 9999999999999999999999999999999999999999976
Q ss_pred C-----CCCCCCCCCCCCcccccCCCCCch
Q 043557 141 G-----LSINTGNHFGKCINNSLMSKPEPY 165 (334)
Q Consensus 141 ~-----l~~rt~n~ikn~~Ns~l~kk~~~~ 165 (334)
. |||||||+||||||+++++|....
T Consensus 85 s~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~ 114 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHWNTHLKKKLLKM 114 (238)
T ss_pred HHHHhhCCCcCHHHHHHHHHHHHHHHHHHc
Confidence 5 999999999999999998875443
No 5
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.89 E-value=1.6e-24 Score=200.73 Aligned_cols=111 Identities=18% Similarity=0.306 Sum_probs=100.5
Q ss_pred ccCCcccccccccccccccCCCCCCCCCCHHHHHHHHHHHHHhC-CchhhhhhcC-CCCCHHHHHHHHHHHhHHHhhhCC
Q 043557 43 KAGLNRCGKSCRLRWTNYLRPDLRHASFAPHEEEIIINLHKAIG-SRWSLIAQQL-PGRTDNDVKNFWNTKLKKKLMKLG 120 (334)
Q Consensus 43 ~l~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~~v~~~G-~~W~~Ia~~l-~gRt~~qcr~RW~~~Lr~~ikrg~ 120 (334)
.++ +|+..-|.. +++++++||+|||++|+++|++|| .+|..||+.+ ++|+++|||.||.++|+|.++++.
T Consensus 9 ~~~-~~~~pcc~K-------~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgp 80 (249)
T PLN03212 9 PVS-KKTTPCCTK-------MGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGG 80 (249)
T ss_pred CCC-CCCCCCccc-------CCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCC
Confidence 345 566554443 689999999999999999999999 6899999998 799999999999999999999999
Q ss_pred CCCCCCchHHHHHHhhCCCCC-----CCCCCCCCCCCCcccccCCC
Q 043557 121 IDPITHKPFSQIFSDYGNISG-----LSINTGNHFGKCINNSLMSK 161 (334)
Q Consensus 121 ~t~~E~~~l~~l~~~~Gn~~~-----l~~rt~n~ikn~~Ns~l~kk 161 (334)
||.+|++.|+.++..||+.|. +++||++.+||+||+.++++
T Consensus 81 WT~EED~lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~ 126 (249)
T PLN03212 81 ITSDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKK 126 (249)
T ss_pred CChHHHHHHHHHHHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHH
Confidence 999999999999999999765 89999999999999998775
No 6
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.87 E-value=1.6e-22 Score=205.34 Aligned_cols=135 Identities=19% Similarity=0.368 Sum_probs=126.8
Q ss_pred CCCCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCccccccccc-------------------------------
Q 043557 7 CDKSNVKRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRL------------------------------- 55 (334)
Q Consensus 7 ~~kp~lkkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~------------------------------- 55 (334)
...|.++|..|+.|||++|+.+...++..+|.+||..+|++|+..||..
T Consensus 246 ~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~~~~ 325 (939)
T KOG0049|consen 246 ELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKITSI 325 (939)
T ss_pred hcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHhhc
Confidence 3679999999999999999999999999999999999997799999977
Q ss_pred -----------------------ccccccCCCCCCCCCCHHHHHHHHHHHHHhCCc-hhhhhhcCCCCCHHHHHHHHHHH
Q 043557 56 -----------------------RWTNYLRPDLRHASFAPHEEEIIINLHKAIGSR-WSLIAQQLPGRTDNDVKNFWNTK 111 (334)
Q Consensus 56 -----------------------Rw~~~L~p~lkkg~WT~EED~~Ll~~v~~~G~~-W~~Ia~~l~gRt~~qcr~RW~~~ 111 (334)
||...|+|++++|+||++||.+|+.+|.+||++ |.+|-..+|||+..|||.||.+.
T Consensus 326 nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nv 405 (939)
T KOG0049|consen 326 NSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNV 405 (939)
T ss_pred cCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHH
Confidence 888889999999999999999999999999965 99999999999999999999999
Q ss_pred hHHHhhhCCCCCCCCchHHHHHHhhCCCCC
Q 043557 112 LKKKLMKLGIDPITHKPFSQIFSDYGNISG 141 (334)
Q Consensus 112 Lr~~ikrg~~t~~E~~~l~~l~~~~Gn~~~ 141 (334)
|....|.+.|+-.|+..|+.+++.||---|
T Consensus 406 L~~s~K~~rW~l~edeqL~~~V~~YG~g~W 435 (939)
T KOG0049|consen 406 LNRSAKVERWTLVEDEQLLYAVKVYGKGNW 435 (939)
T ss_pred HHHhhccCceeecchHHHHHHHHHHccchH
Confidence 999999999999999999999999997433
No 7
>PLN03091 hypothetical protein; Provisional
Probab=99.86 E-value=4.3e-23 Score=203.71 Aligned_cols=105 Identities=20% Similarity=0.283 Sum_probs=97.0
Q ss_pred cccCCCCCCCCCCHHHHHHHHHHHHHhC-CchhhhhhcC-CCCCHHHHHHHHHHHhHHHhhhCCCCCCCCchHHHHHHhh
Q 043557 59 NYLRPDLRHASFAPHEEEIIINLHKAIG-SRWSLIAQQL-PGRTDNDVKNFWNTKLKKKLMKLGIDPITHKPFSQIFSDY 136 (334)
Q Consensus 59 ~~L~p~lkkg~WT~EED~~Ll~~v~~~G-~~W~~Ia~~l-~gRt~~qcr~RW~~~Lr~~ikrg~~t~~E~~~l~~l~~~~ 136 (334)
...+..++|++||+|||++|+++|.+|| .+|..||+.+ ++|+++|||.||.++|+|.++++.|+++|++.|+++++.|
T Consensus 6 Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~ 85 (459)
T PLN03091 6 CCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVL 85 (459)
T ss_pred cCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHh
Confidence 3444789999999999999999999999 6799999988 6999999999999999999999999999999999999999
Q ss_pred CCCCC-----CCCCCCCCCCCCcccccCCCCC
Q 043557 137 GNISG-----LSINTGNHFGKCINNSLMSKPE 163 (334)
Q Consensus 137 Gn~~~-----l~~rt~n~ikn~~Ns~l~kk~~ 163 (334)
|+.|. ++|||++.|||+|++.++++.+
T Consensus 86 GnKWskIAk~LPGRTDnqIKNRWnslLKKklr 117 (459)
T PLN03091 86 GNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLR 117 (459)
T ss_pred CcchHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 99776 8999999999999998887533
No 8
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.78 E-value=7.4e-20 Score=186.15 Aligned_cols=110 Identities=27% Similarity=0.435 Sum_probs=104.3
Q ss_pred CCCCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCCHHHHHHHHH
Q 043557 1 MGRPPCCDKSNVKRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYLRPDLRHASFAPHEEEIIIN 80 (334)
Q Consensus 1 mgR~~~~~kp~lkkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~ 80 (334)
+||+....+|++++|+||.+||.+|+.+|.+||..+|.+|-..+| ||+..|||+||.|+|+...|+|.||-.||+.|+.
T Consensus 347 I~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~ 425 (939)
T KOG0049|consen 347 ITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLY 425 (939)
T ss_pred hhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCceeecchHHHHH
Confidence 578889999999999999999999999999999999999999999 9999999999999999999999999999999999
Q ss_pred HHHHhC-CchhhhhhcCCCCCH---HHHHHHHHHH
Q 043557 81 LHKAIG-SRWSLIAQQLPGRTD---NDVKNFWNTK 111 (334)
Q Consensus 81 ~v~~~G-~~W~~Ia~~l~gRt~---~qcr~RW~~~ 111 (334)
+|++|| ++|.+||..+++|++ ..||.|+..+
T Consensus 426 ~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~~~ 460 (939)
T KOG0049|consen 426 AVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLIAA 460 (939)
T ss_pred HHHHHccchHHHHHHHccccchhHHHHHHHHHHHH
Confidence 999999 999999999999999 6677776544
No 9
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.62 E-value=1.7e-16 Score=117.30 Aligned_cols=60 Identities=38% Similarity=0.790 Sum_probs=55.4
Q ss_pred CCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCCHHHHHHH
Q 043557 17 WTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYLRPDLRHASFAPHEEEII 78 (334)
Q Consensus 17 WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~L 78 (334)
||+|||++|+.+|..||. +|..||+.|| +|++.||+.||.++|.|.+++++||+|||++|
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999997 9999999998 99999999999999999999999999999987
No 10
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.51 E-value=1.5e-14 Score=147.14 Aligned_cols=109 Identities=30% Similarity=0.511 Sum_probs=104.0
Q ss_pred CCCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCCHHHHHHHHHHHHHhCC
Q 043557 8 DKSNVKRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYLRPDLRHASFAPHEEEIIINLHKAIGS 87 (334)
Q Consensus 8 ~kp~lkkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~~v~~~G~ 87 (334)
....++.|.|+..||+.|..+|+++|+.+|..||..+. -|+++||+.||.++++|.++++.|+.|||..|+.+..++|.
T Consensus 14 ~~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~ 92 (512)
T COG5147 14 MQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGT 92 (512)
T ss_pred ccceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCc
Confidence 34567889999999999999999999999999999998 69999999999999999999999999999999999999999
Q ss_pred chhhhhhcCCCCCHHHHHHHHHHHhHHHhh
Q 043557 88 RWSLIAQQLPGRTDNDVKNFWNTKLKKKLM 117 (334)
Q Consensus 88 ~W~~Ia~~l~gRt~~qcr~RW~~~Lr~~ik 117 (334)
.|+.|+..+++|+..+|.+||.+.+....+
T Consensus 93 ~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 93 QWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 999999999999999999999999988776
No 11
>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=99.51 E-value=8.4e-15 Score=108.23 Aligned_cols=60 Identities=25% Similarity=0.507 Sum_probs=54.1
Q ss_pred CCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhHHHhhhCCCCCCCCchH
Q 043557 70 FAPHEEEIIINLHKAIGSRWSLIAQQLPGRTDNDVKNFWNTKLKKKLMKLGIDPITHKPF 129 (334)
Q Consensus 70 WT~EED~~Ll~~v~~~G~~W~~Ia~~l~gRt~~qcr~RW~~~Lr~~ikrg~~t~~E~~~l 129 (334)
||+|||.+|+.+|.+||.+|..||..|+.|+..+|+.||.++|++.+++++|+++|+..|
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999999999999999669999999999999999999999999988764
No 12
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.48 E-value=8.1e-15 Score=146.79 Aligned_cols=106 Identities=25% Similarity=0.563 Sum_probs=100.6
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCCHHHHHHHHHHHHHhCCchhh
Q 043557 12 VKRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYLRPDLRHASFAPHEEEIIINLHKAIGSRWSL 91 (334)
Q Consensus 12 lkkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~~v~~~G~~W~~ 91 (334)
++.|.|+.-||+.|..+|.+||.+.|.+|+..+. .++++||+.||..+++|.+++..|+.|||++|+.+...+...|..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrt 83 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRT 83 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccch
Confidence 5678999999999999999999999999999998 999999999999999999999999999999999999999999999
Q ss_pred hhhcCCCCCHHHHHHHHHHHhHHHhhhC
Q 043557 92 IAQQLPGRTDNDVKNFWNTKLKKKLMKL 119 (334)
Q Consensus 92 Ia~~l~gRt~~qcr~RW~~~Lr~~ikrg 119 (334)
|+..+ ||++.+|-.||.++|...+..+
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s~~ 110 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVSYH 110 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHhhh
Confidence 99999 9999999999999987666544
No 13
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.44 E-value=6.5e-14 Score=143.85 Aligned_cols=108 Identities=27% Similarity=0.535 Sum_probs=95.7
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCC--CCCCCCHHHHHHHHHHHH-------
Q 043557 13 KRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYLRPDL--RHASFAPHEEEIIINLHK------- 83 (334)
Q Consensus 13 kkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~l--kkg~WT~EED~~Ll~~v~------- 83 (334)
.+|+||+||++.|..+|..+|. +|..|++.|| |.+..|++||++|...+- ++|+||.||+++|+.+|.
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 KRGKWTPEEEEELKKLVVEHGN-DWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREAL 459 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc-cHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhh
Confidence 8999999999999999999998 9999999997 999999999999999985 999999999999999995
Q ss_pred Hh-------------------CCchhhhhhcCCCCCHHHHHHHHHHHhHHHhhh-CCCCC
Q 043557 84 AI-------------------GSRWSLIAQQLPGRTDNDVKNFWNTKLKKKLMK-LGIDP 123 (334)
Q Consensus 84 ~~-------------------G~~W~~Ia~~l~gRt~~qcr~RW~~~Lr~~ikr-g~~t~ 123 (334)
.+ +-.|..|++.+..|+..+||-+|..++...... +.+..
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~~~~~ 519 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKRQESK 519 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhcccccc
Confidence 23 136999999889999999999999988655544 44444
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=99.37 E-value=5.6e-13 Score=94.67 Aligned_cols=46 Identities=26% Similarity=0.580 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCc-hhhhhhcCC-CCCHHHHHHHHHHHh
Q 043557 67 HASFAPHEEEIIINLHKAIGSR-WSLIAQQLP-GRTDNDVKNFWNTKL 112 (334)
Q Consensus 67 kg~WT~EED~~Ll~~v~~~G~~-W~~Ia~~l~-gRt~~qcr~RW~~~L 112 (334)
|++||+|||++|+++|.+||.. |..||..++ +||..+|+.||+++|
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 6899999999999999999966 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=99.31 E-value=2.6e-13 Score=96.36 Aligned_cols=48 Identities=46% Similarity=0.789 Sum_probs=43.5
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCCccccccccccccccc
Q 043557 14 RGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYL 61 (334)
Q Consensus 14 kg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L 61 (334)
|++||+|||++|+++|.+||.++|..||..||.+||..||+.||.+++
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 689999999999999999999779999999998999999999998864
No 16
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.22 E-value=8.5e-12 Score=128.43 Aligned_cols=120 Identities=21% Similarity=0.232 Sum_probs=103.2
Q ss_pred CccCCCCHHHHHHHHHHHHHhCC-----------------------CCccccccccCCccccccccc---ccccccCCCC
Q 043557 12 VKRGLWTPEEDAKLLAHVANHGT-----------------------GNWTLVPKKAGLNRCGKSCRL---RWTNYLRPDL 65 (334)
Q Consensus 12 lkkg~WT~EED~~L~~lv~k~g~-----------------------~~W~~IA~~l~~~Rt~~QCr~---Rw~~~L~p~l 65 (334)
++-+.|+++||+.|...|..|-. +-|..|-..|| .|+...++. |-.+.|.+
T Consensus 306 ~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~-- 382 (607)
T KOG0051|consen 306 INLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFEN-- 382 (607)
T ss_pred hhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCcccc--
Confidence 34488999999999999998721 12567778888 699998887 43344444
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhHHHh--hhCCCCCCCCchHHHHHHh
Q 043557 66 RHASFAPHEEEIIINLHKAIGSRWSLIAQQLPGRTDNDVKNFWNTKLKKKL--MKLGIDPITHKPFSQIFSD 135 (334)
Q Consensus 66 kkg~WT~EED~~Ll~~v~~~G~~W~~Ia~~l~gRt~~qcr~RW~~~Lr~~i--krg~~t~~E~~~l~~l~~~ 135 (334)
++|.||+||++.|..+|.++|+.|..|+..+ ||.+..||.||++|....- +++.|+-+|...|++++..
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~ 453 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNE 453 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999 9999999999999999985 8999999999999999863
No 17
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.13 E-value=8.4e-11 Score=81.26 Aligned_cols=47 Identities=38% Similarity=0.784 Sum_probs=44.5
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHHHhH
Q 043557 67 HASFAPHEEEIIINLHKAIG-SRWSLIAQQLPGRTDNDVKNFWNTKLK 113 (334)
Q Consensus 67 kg~WT~EED~~Ll~~v~~~G-~~W~~Ia~~l~gRt~~qcr~RW~~~Lr 113 (334)
+++||++||.+|+.++..|| .+|..||..+++|+..+|+.||.++++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998764
No 18
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.00 E-value=6.5e-10 Score=75.65 Aligned_cols=44 Identities=32% Similarity=0.727 Sum_probs=41.8
Q ss_pred CCCHHHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHHHh
Q 043557 69 SFAPHEEEIIINLHKAIG-SRWSLIAQQLPGRTDNDVKNFWNTKL 112 (334)
Q Consensus 69 ~WT~EED~~Ll~~v~~~G-~~W~~Ia~~l~gRt~~qcr~RW~~~L 112 (334)
+||+|||..|+.++.+|| .+|..||..+++|+..+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 99999999999999999999998764
No 19
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.93 E-value=3.2e-10 Score=78.28 Aligned_cols=48 Identities=40% Similarity=0.810 Sum_probs=44.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccC
Q 043557 14 RGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYLR 62 (334)
Q Consensus 14 kg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~ 62 (334)
++.||++||++|+.++..||..+|..||..++ +|++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~-~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcC-CCCHHHHHHHHHHHcC
Confidence 46899999999999999999669999999999 9999999999988764
No 20
>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=98.79 E-value=1.7e-09 Score=73.55 Aligned_cols=44 Identities=43% Similarity=0.778 Sum_probs=41.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccc
Q 043557 16 LWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNY 60 (334)
Q Consensus 16 ~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~ 60 (334)
+||++||+.|+.++..||..+|..||+.++ +|++.+|+.||.++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~-~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcC-CCCHHHHHHHHHHh
Confidence 599999999999999999669999999999 89999999999765
No 21
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.69 E-value=3.1e-09 Score=108.68 Aligned_cols=96 Identities=22% Similarity=0.283 Sum_probs=85.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHHHhHHHhhhCCCCCCCCchHHHHHHhhCCCCC-
Q 043557 64 DLRHASFAPHEEEIIINLHKAIG-SRWSLIAQQLPGRTDNDVKNFWNTKLKKKLMKLGIDPITHKPFSQIFSDYGNISG- 141 (334)
Q Consensus 64 ~lkkg~WT~EED~~Ll~~v~~~G-~~W~~Ia~~l~gRt~~qcr~RW~~~Lr~~ikrg~~t~~E~~~l~~l~~~~Gn~~~- 141 (334)
.++.|.|+..||+.|..+|++|| ++|++||..+.-|++++|++||++++.|.++++.|+.+|+..++.+...+|+.|.
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 35778999999999999999999 6799999999779999999999999999999999999999999999999999654
Q ss_pred ----CCCCCCCCCCCCcccccC
Q 043557 142 ----LSINTGNHFGKCINNSLM 159 (334)
Q Consensus 142 ----l~~rt~n~ikn~~Ns~l~ 159 (334)
.+++++....+.|+..+.
T Consensus 97 ia~~~d~rt~~~~~ery~~~~~ 118 (512)
T COG5147 97 IADYKDRRTAQQCVERYVNTLE 118 (512)
T ss_pred hccccCccchHHHHHHHHHHhh
Confidence 456888877777774443
No 22
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.42 E-value=1.6e-07 Score=95.05 Aligned_cols=77 Identities=17% Similarity=0.219 Sum_probs=71.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHHHhHHHhhhCCCCCCCCchHHHHHHhhCCCCC
Q 043557 65 LRHASFAPHEEEIIINLHKAIG-SRWSLIAQQLPGRTDNDVKNFWNTKLKKKLMKLGIDPITHKPFSQIFSDYGNISG 141 (334)
Q Consensus 65 lkkg~WT~EED~~Ll~~v~~~G-~~W~~Ia~~l~gRt~~qcr~RW~~~Lr~~ikrg~~t~~E~~~l~~l~~~~Gn~~~ 141 (334)
++.|-|+.-||+.|..+|.+|| +.|+.|+..+.-.+.++|++||..+|.|.+++-.|+-+|+..++.+...+-+-|.
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwr 82 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWR 82 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccc
Confidence 5678999999999999999999 6799999999999999999999999999999999999999999998888776543
No 23
>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=97.70 E-value=1.5e-05 Score=59.00 Aligned_cols=48 Identities=17% Similarity=0.342 Sum_probs=43.2
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCc---cccccccCCcc-ccccccccccccc
Q 043557 14 RGLWTPEEDAKLLAHVANHGTGNW---TLVPKKAGLNR-CGKSCRLRWTNYL 61 (334)
Q Consensus 14 kg~WT~EED~~L~~lv~k~g~~~W---~~IA~~l~~~R-t~~QCr~Rw~~~L 61 (334)
+-.||+||..+++++++.+|.++| ..|++.|+..| |..||+.+++.|.
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 557999999999999999999999 99999987667 9999999988764
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=97.69 E-value=9.8e-05 Score=54.70 Aligned_cols=46 Identities=11% Similarity=0.245 Sum_probs=41.0
Q ss_pred CCCCCHHHHHHHHHHHHHhC-Cch---hhhhhcC-CCC-CHHHHHHHHHHHh
Q 043557 67 HASFAPHEEEIIINLHKAIG-SRW---SLIAQQL-PGR-TDNDVKNFWNTKL 112 (334)
Q Consensus 67 kg~WT~EED~~Ll~~v~~~G-~~W---~~Ia~~l-~gR-t~~qcr~RW~~~L 112 (334)
+-.||+||..+++++|+.+| ++| ..|+..+ ..| |..+|+.+.+.|.
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 55799999999999999999 599 9999988 456 9999999998875
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.62 E-value=1.6e-05 Score=79.52 Aligned_cols=51 Identities=22% Similarity=0.501 Sum_probs=46.4
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccC
Q 043557 11 NVKRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYLR 62 (334)
Q Consensus 11 ~lkkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~ 62 (334)
.+-..-||++|+-+|++++..||.|||..||+++| .|+..+|+++|.+++-
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHHh
Confidence 34456799999999999999999999999999999 9999999999988753
No 26
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.46 E-value=0.00014 Score=64.24 Aligned_cols=53 Identities=19% Similarity=0.330 Sum_probs=45.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHh---CC----chhhhhhcCCCCCHHHHHHHHHHHhHHHhhh
Q 043557 65 LRHASFAPHEEEIIINLHKAI---GS----RWSLIAQQLPGRTDNDVKNFWNTKLKKKLMK 118 (334)
Q Consensus 65 lkkg~WT~EED~~Ll~~v~~~---G~----~W~~Ia~~l~gRt~~qcr~RW~~~Lr~~ikr 118 (334)
.+...||.|||.+|.+.|-+| |+ -+..+++.+ +||...|.-||+.++|+....
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~ 61 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEE 61 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHH
Confidence 356799999999999999988 53 388888888 999999999999999977544
No 27
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.33 E-value=0.00032 Score=70.42 Aligned_cols=49 Identities=18% Similarity=0.430 Sum_probs=44.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHHHhH
Q 043557 65 LRHASFAPHEEEIIINLHKAIG-SRWSLIAQQLPGRTDNDVKNFWNTKLK 113 (334)
Q Consensus 65 lkkg~WT~EED~~Ll~~v~~~G-~~W~~Ia~~l~gRt~~qcr~RW~~~Lr 113 (334)
+-...||.+|+.+|++++..|| |+|..||.++..|++..|+.+|.+++-
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHh
Confidence 4456899999999999999999 999999999988999999999987653
No 28
>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=97.04 E-value=0.0009 Score=50.89 Aligned_cols=50 Identities=14% Similarity=0.371 Sum_probs=33.4
Q ss_pred CCCCCHHHHHHHHHHHHHh---C----Cc--hhhhhhcCC-CCCHHHHHHHHHHHhHHHh
Q 043557 67 HASFAPHEEEIIINLHKAI---G----SR--WSLIAQQLP-GRTDNDVKNFWNTKLKKKL 116 (334)
Q Consensus 67 kg~WT~EED~~Ll~~v~~~---G----~~--W~~Ia~~l~-gRt~~qcr~RW~~~Lr~~i 116 (334)
|-+||.|||..|+.+|.++ | |+ |..+++..+ .+|-.+-|+||...|++..
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 4579999999999999664 2 33 999999887 8999999999999887653
No 29
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=96.88 E-value=0.0013 Score=60.32 Aligned_cols=98 Identities=18% Similarity=0.330 Sum_probs=71.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccC--CcccccccccccccccCC----------------C-----CCCCCCCH
Q 043557 16 LWTPEEDAKLLAHVANHGTGNWTLVPKKAG--LNRCGKSCRLRWTNYLRP----------------D-----LRHASFAP 72 (334)
Q Consensus 16 ~WT~EED~~L~~lv~k~g~~~W~~IA~~l~--~~Rt~~QCr~Rw~~~L~p----------------~-----lkkg~WT~ 72 (334)
+|++++|-+|+.+|..-. +-+.|+..+. ..-|...+..||...|.. . ..+-+||.
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 699999999999999743 5666665543 345667778899877632 2 24568999
Q ss_pred HHHHHHHHHHHHhC---Cchhhhh----hcC-CCCCHHHHHHHHHHHhHHH
Q 043557 73 HEEEIIINLHKAIG---SRWSLIA----QQL-PGRTDNDVKNFWNTKLKKK 115 (334)
Q Consensus 73 EED~~Ll~~v~~~G---~~W~~Ia----~~l-~gRt~~qcr~RW~~~Lr~~ 115 (334)
+|+++|........ ..+.+|- ..+ ++||+++...+|+...+..
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~ 129 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYH 129 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhc
Confidence 99999999776654 3476663 334 8899999999998655544
No 30
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.81 E-value=0.00037 Score=70.47 Aligned_cols=46 Identities=22% Similarity=0.513 Sum_probs=43.2
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccc
Q 043557 13 KRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNY 60 (334)
Q Consensus 13 kkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~ 60 (334)
+...||.+|..+|++.|+.||. +|.+||.++| +|+..||..|+.++
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 5568999999999999999999 9999999999 99999999999865
No 31
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.66 E-value=0.0007 Score=69.92 Aligned_cols=47 Identities=26% Similarity=0.552 Sum_probs=43.5
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccc
Q 043557 12 VKRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNY 60 (334)
Q Consensus 12 lkkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~ 60 (334)
--++.||.+|+.+|+++|..||. +|.+||.+++ +|+..||..++.+.
T Consensus 251 ~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 251 SARPNWTEQETLLLLEAIEMYGD-DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred cCCCCccHHHHHHHHHHHHHhcc-cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 34678999999999999999999 9999999999 99999999998764
No 32
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.66 E-value=0.0017 Score=65.82 Aligned_cols=44 Identities=11% Similarity=0.274 Sum_probs=41.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHH
Q 043557 67 HASFAPHEEEIIINLHKAIGSRWSLIAQQLPGRTDNDVKNFWNT 110 (334)
Q Consensus 67 kg~WT~EED~~Ll~~v~~~G~~W~~Ia~~l~gRt~~qcr~RW~~ 110 (334)
...||.+|..+|++.|+.||-.|.+||+++..|+..+|-.||.+
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~ 322 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQ 322 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHc
Confidence 44899999999999999999999999999999999999999964
No 33
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.64 E-value=0.0023 Score=66.18 Aligned_cols=45 Identities=9% Similarity=0.282 Sum_probs=41.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHH
Q 043557 66 RHASFAPHEEEIIINLHKAIGSRWSLIAQQLPGRTDNDVKNFWNT 110 (334)
Q Consensus 66 kkg~WT~EED~~Ll~~v~~~G~~W~~Ia~~l~gRt~~qcr~RW~~ 110 (334)
-++.||.+|..+|+++|+.||-+|.+|+.++.+|+..+|-.++..
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~ 296 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLR 296 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHh
Confidence 456899999999999999999999999999999999999999853
No 34
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.54 E-value=0.0023 Score=50.21 Aligned_cols=49 Identities=29% Similarity=0.519 Sum_probs=34.5
Q ss_pred CCCCCHHHHHHHHHHHHH------hC------C--chhhhhhcC----CCCCHHHHHHHHHHHhHHH
Q 043557 67 HASFAPHEEEIIINLHKA------IG------S--RWSLIAQQL----PGRTDNDVKNFWNTKLKKK 115 (334)
Q Consensus 67 kg~WT~EED~~Ll~~v~~------~G------~--~W~~Ia~~l----~gRt~~qcr~RW~~~Lr~~ 115 (334)
|-.||.+|...||.++.+ ++ + -|..||..| ..|++.||+.||.++.+.-
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 347999999999999877 21 1 399999876 3699999999998866544
No 35
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.29 E-value=0.0044 Score=55.56 Aligned_cols=52 Identities=13% Similarity=0.279 Sum_probs=42.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC--C--c---hhhhhhcCCCCCHHHHHHHHHHHhHHHhh
Q 043557 65 LRHASFAPHEEEIIINLHKAIG--S--R---WSLIAQQLPGRTDNDVKNFWNTKLKKKLM 117 (334)
Q Consensus 65 lkkg~WT~EED~~Ll~~v~~~G--~--~---W~~Ia~~l~gRt~~qcr~RW~~~Lr~~ik 117 (334)
.+...||.|||.+|-+.|-.|+ | . ...++..| +|+..+|..||+.++|....
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 4678999999999999998887 2 2 45555666 99999999999999997654
No 36
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=95.82 E-value=0.0019 Score=57.22 Aligned_cols=50 Identities=30% Similarity=0.590 Sum_probs=42.5
Q ss_pred CccCCCCHHHHHHHHHHHHHhCC------CCccccccccCCcccccccccccccccCC
Q 043557 12 VKRGLWTPEEDAKLLAHVANHGT------GNWTLVPKKAGLNRCGKSCRLRWTNYLRP 63 (334)
Q Consensus 12 lkkg~WT~EED~~L~~lv~k~g~------~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p 63 (334)
.|+..||.|||.+|.+.|-+|-. ..+.+|+..++ ||+..|.-||.-+++.
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VRk 57 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVRK 57 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHHH
Confidence 46788999999999999999822 15788999985 9999999999988763
No 37
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.48 E-value=0.029 Score=43.16 Aligned_cols=50 Identities=26% Similarity=0.460 Sum_probs=41.1
Q ss_pred CCCCCHHHHHHHHHHHHHhC----C-------------chhhhhhcC-----CCCCHHHHHHHHHHHhHHHh
Q 043557 67 HASFAPHEEEIIINLHKAIG----S-------------RWSLIAQQL-----PGRTDNDVKNFWNTKLKKKL 116 (334)
Q Consensus 67 kg~WT~EED~~Ll~~v~~~G----~-------------~W~~Ia~~l-----~gRt~~qcr~RW~~~Lr~~i 116 (334)
+..||++|...|+++|.+|. + -|..|+..+ +.|+..+|+.+|.++....-
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~K 73 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAK 73 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHH
Confidence 56799999999999999873 1 399998865 35999999999998876543
No 38
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.48 E-value=0.0024 Score=50.10 Aligned_cols=47 Identities=30% Similarity=0.590 Sum_probs=32.2
Q ss_pred cCCCCHHHHHHHHHHHHH--h----C--C-----CCcccccccc---CCcccccccccccccc
Q 043557 14 RGLWTPEEDAKLLAHVAN--H----G--T-----GNWTLVPKKA---GLNRCGKSCRLRWTNY 60 (334)
Q Consensus 14 kg~WT~EED~~L~~lv~k--~----g--~-----~~W~~IA~~l---~~~Rt~~QCr~Rw~~~ 60 (334)
+..||.+|...|++++.. + + . .-|..||..| |..|++.||+.||.++
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 357999999999999987 2 1 1 1499999776 5689999999999764
No 39
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.33 E-value=0.0037 Score=60.84 Aligned_cols=46 Identities=20% Similarity=0.460 Sum_probs=43.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccC
Q 043557 16 LWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYLR 62 (334)
Q Consensus 16 ~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~ 62 (334)
-|+++|+.+|++.....|-|||..||..+| .|+...|+.+|.+++.
T Consensus 65 ~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 65 GWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred CcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 599999999999999999999999999999 9999999999998765
No 40
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.14 E-value=0.019 Score=56.02 Aligned_cols=46 Identities=20% Similarity=0.452 Sum_probs=42.9
Q ss_pred CCCCHHHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHHHhH
Q 043557 68 ASFAPHEEEIIINLHKAIG-SRWSLIAQQLPGRTDNDVKNFWNTKLK 113 (334)
Q Consensus 68 g~WT~EED~~Ll~~v~~~G-~~W~~Ia~~l~gRt~~qcr~RW~~~Lr 113 (334)
..|+..|+.+|+++....| |+|..||.++..|+...||.+|..+..
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 4699999999999999999 999999999988999999999987664
No 41
>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=94.96 E-value=0.0086 Score=45.52 Aligned_cols=52 Identities=31% Similarity=0.368 Sum_probs=32.9
Q ss_pred cCCCCHHHHHHHHHHHHHhCC------C--CccccccccCCcccccccccccccccCCCC
Q 043557 14 RGLWTPEEDAKLLAHVANHGT------G--NWTLVPKKAGLNRCGKSCRLRWTNYLRPDL 65 (334)
Q Consensus 14 kg~WT~EED~~L~~lv~k~g~------~--~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~l 65 (334)
+-+||.|||+.|++.|..+.. | =|.++++.-++.+|-..-|+||.+.|.+..
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 457999999999999976532 2 388898887768888888999999887643
No 42
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=93.88 E-value=0.011 Score=45.59 Aligned_cols=49 Identities=20% Similarity=0.377 Sum_probs=39.4
Q ss_pred ccCCCCHHHHHHHHHHHHHhCC----------------CCcccccccc----CCccccccccccccccc
Q 043557 13 KRGLWTPEEDAKLLAHVANHGT----------------GNWTLVPKKA----GLNRCGKSCRLRWTNYL 61 (334)
Q Consensus 13 kkg~WT~EED~~L~~lv~k~g~----------------~~W~~IA~~l----~~~Rt~~QCr~Rw~~~L 61 (334)
|+..||.+|.+.|+++|.+|.. .-|..|+..| |..|+..||+.+|.++.
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 4678999999999999998831 1499998776 23799999999998753
No 43
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=93.63 E-value=0.01 Score=53.16 Aligned_cols=50 Identities=26% Similarity=0.513 Sum_probs=40.1
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCC------CccccccccCCcccccccccccccccC
Q 043557 11 NVKRGLWTPEEDAKLLAHVANHGTG------NWTLVPKKAGLNRCGKSCRLRWTNYLR 62 (334)
Q Consensus 11 ~lkkg~WT~EED~~L~~lv~k~g~~------~W~~IA~~l~~~Rt~~QCr~Rw~~~L~ 62 (334)
..|+..||.|||.+|.+.|-+|+.. ....++..| +|+..+|..||..+++
T Consensus 2 k~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L--~rt~aac~fRwNs~vr 57 (170)
T PRK13923 2 KTRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL--KRTAAACGFRWNSVVR 57 (170)
T ss_pred cchhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH--hhhHHHHHhHHHHHHH
Confidence 3578899999999999999988542 356666776 4999999999976665
No 44
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=93.56 E-value=0.15 Score=57.26 Aligned_cols=100 Identities=8% Similarity=0.247 Sum_probs=76.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCCccccccccc-------ccccc------c---------------------
Q 043557 16 LWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRL-------RWTNY------L--------------------- 61 (334)
Q Consensus 16 ~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~-------Rw~~~------L--------------------- 61 (334)
.|+..|=..++.+..+||..+...||..|. +++...++. ||..+ +
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~ 904 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG 904 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 488888888888899999888899999997 788877663 22110 0
Q ss_pred ----------------CCCCCCCCCCHHHHHHHHHHHHHhC-Cchhhhhhc------------CCCCCHHHHHHHHHHHh
Q 043557 62 ----------------RPDLRHASFAPHEEEIIINLHKAIG-SRWSLIAQQ------------LPGRTDNDVKNFWNTKL 112 (334)
Q Consensus 62 ----------------~p~lkkg~WT~EED~~Ll~~v~~~G-~~W~~Ia~~------------l~gRt~~qcr~RW~~~L 112 (334)
.+..++..||+|||..|+-++.+|| ++|..|-.. +..||...+..|...+|
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 1233445699999999999999999 889998321 25799999999998888
Q ss_pred HHHh
Q 043557 113 KKKL 116 (334)
Q Consensus 113 r~~i 116 (334)
+-..
T Consensus 985 ~~~~ 988 (1033)
T PLN03142 985 RLIE 988 (1033)
T ss_pred HHHH
Confidence 7553
No 45
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=90.57 E-value=0.43 Score=47.78 Aligned_cols=44 Identities=20% Similarity=0.317 Sum_probs=41.6
Q ss_pred CCCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHh
Q 043557 69 SFAPHEEEIIINLHKAIGSRWSLIAQQLPGRTDNDVKNFWNTKL 112 (334)
Q Consensus 69 ~WT~EED~~Ll~~v~~~G~~W~~Ia~~l~gRt~~qcr~RW~~~L 112 (334)
+||.+|-++...+....|..+..|+..+|.|..+|++.+|.+--
T Consensus 367 ~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Ee 410 (507)
T COG5118 367 RWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEE 410 (507)
T ss_pred cccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHh
Confidence 79999999999999999999999999999999999999997643
No 46
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=89.82 E-value=0.55 Score=46.15 Aligned_cols=51 Identities=16% Similarity=0.245 Sum_probs=40.2
Q ss_pred CCCCCHHHHHHHHHHHHHhC----------CchhhhhhcC----CCCCHHHHHHHHHHHhHHHhh
Q 043557 67 HASFAPHEEEIIINLHKAIG----------SRWSLIAQQL----PGRTDNDVKNFWNTKLKKKLM 117 (334)
Q Consensus 67 kg~WT~EED~~Ll~~v~~~G----------~~W~~Ia~~l----~gRt~~qcr~RW~~~Lr~~ik 117 (334)
...|+.+|-..||++..+.- .-|..||+++ .-|++.+|+.+|.++.+..-+
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~ 118 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKK 118 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Confidence 36899999999999986531 2399999965 349999999999887765533
No 47
>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=88.40 E-value=1 Score=38.12 Aligned_cols=52 Identities=19% Similarity=0.378 Sum_probs=39.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC----chhhhhhc------------CCCCCHHHHHHHHHHHhHHH
Q 043557 64 DLRHASFAPHEEEIIINLHKAIGS----RWSLIAQQ------------LPGRTDNDVKNFWNTKLKKK 115 (334)
Q Consensus 64 ~lkkg~WT~EED~~Ll~~v~~~G~----~W~~Ia~~------------l~gRt~~qcr~RW~~~Lr~~ 115 (334)
..++..||+|||..|+.++.+||- .|..|-.. +..||+..+..|...+++-.
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i 113 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLI 113 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHH
Confidence 566779999999999999999994 69888542 25689999999988877644
No 48
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=84.60 E-value=0.89 Score=45.60 Aligned_cols=67 Identities=18% Similarity=0.282 Sum_probs=52.1
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccc--cCCC------CCCCCCCHHHHHHHHHHH
Q 043557 14 RGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNY--LRPD------LRHASFAPHEEEIIINLH 82 (334)
Q Consensus 14 kg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~--L~p~------lkkg~WT~EED~~Ll~~v 82 (334)
.-+|+.+|.+++.++....|. ++..|+..+| +|..+|+..+|.+- .+|. ..+-|+..+|-.+|..++
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP-~R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k~~~~~ 439 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGT-DFSLISSLFP-NRERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNKLRSYL 439 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcc-hHHHHHHhcC-chhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhhHHHHH
Confidence 347999999999999999999 9999999999 99999999998753 2221 124466666666555444
No 49
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=83.07 E-value=2.7 Score=42.43 Aligned_cols=84 Identities=23% Similarity=0.347 Sum_probs=64.4
Q ss_pred CccccccccCCcccccccccccccccCCC-------------------------CCCCCCCHHHHHHHHHHHHHhCCchh
Q 043557 36 NWTLVPKKAGLNRCGKSCRLRWTNYLRPD-------------------------LRHASFAPHEEEIIINLHKAIGSRWS 90 (334)
Q Consensus 36 ~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~-------------------------lkkg~WT~EED~~Ll~~v~~~G~~W~ 90 (334)
.|..++=..+ -|...-...+|.+..++. ++-..||.||-.-|.++++.|.-+|-
T Consensus 75 ~W~w~pFtn~-aRkD~~~l~HWvr~~d~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf~ 153 (445)
T KOG2656|consen 75 PWKWVPFTNS-ARKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRFF 153 (445)
T ss_pred CceeeccCCc-cccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeEE
Confidence 5776664444 566666777888774332 23346999999999999999999999
Q ss_pred hhhhc-----CCC-CCHHHHHHHHHHHhHHHhhhCC
Q 043557 91 LIAQQ-----LPG-RTDNDVKNFWNTKLKKKLMKLG 120 (334)
Q Consensus 91 ~Ia~~-----l~g-Rt~~qcr~RW~~~Lr~~ikrg~ 120 (334)
.|+.. ++. ||=..++.||+.+-+..++-..
T Consensus 154 VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~ 189 (445)
T KOG2656|consen 154 VIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARA 189 (445)
T ss_pred EEeeccchhhccccccHHHHHHHHHHHHHHHHHccC
Confidence 99987 544 9999999999988887766543
No 50
>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=81.41 E-value=3.4 Score=32.43 Aligned_cols=45 Identities=31% Similarity=0.601 Sum_probs=33.5
Q ss_pred CCCHHHHHHHHHHHHHh---C-----C-----chhhhhhcC---CC--CCHHHHHHHHHHHhH
Q 043557 69 SFAPHEEEIIINLHKAI---G-----S-----RWSLIAQQL---PG--RTDNDVKNFWNTKLK 113 (334)
Q Consensus 69 ~WT~EED~~Ll~~v~~~---G-----~-----~W~~Ia~~l---~g--Rt~~qcr~RW~~~Lr 113 (334)
.||++++..|++++.+. | + .|..|+..| .+ .+..+|++||..+.+
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~ 63 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKK 63 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHH
Confidence 49999999999998543 2 1 389998876 23 478999999865444
No 51
>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=80.07 E-value=1.3 Score=37.56 Aligned_cols=35 Identities=31% Similarity=0.559 Sum_probs=29.1
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCC---CCcccccccc
Q 043557 10 SNVKRGLWTPEEDAKLLAHVANHGT---GNWTLVPKKA 44 (334)
Q Consensus 10 p~lkkg~WT~EED~~L~~lv~k~g~---~~W~~IA~~l 44 (334)
|+-++..||.+||.-|+-.+.+||. +.|..|-..+
T Consensus 45 ~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 45 PNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp STSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 3667888999999999999999999 8999997665
No 52
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=76.26 E-value=0.97 Score=44.41 Aligned_cols=47 Identities=26% Similarity=0.451 Sum_probs=37.4
Q ss_pred cCCCCHHHHHHHHHHHHHh---------CCCCccccccc---cCCcccccccccccccc
Q 043557 14 RGLWTPEEDAKLLAHVANH---------GTGNWTLVPKK---AGLNRCGKSCRLRWTNY 60 (334)
Q Consensus 14 kg~WT~EED~~L~~lv~k~---------g~~~W~~IA~~---l~~~Rt~~QCr~Rw~~~ 60 (334)
...|+.+|-..|+++..+. ...-|..||+. .|..|++.||+.||.++
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl 112 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENL 112 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence 3789999999999988744 12259999974 35579999999999764
No 53
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=74.42 E-value=6.2 Score=40.62 Aligned_cols=48 Identities=15% Similarity=0.232 Sum_probs=42.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhH
Q 043557 66 RHASFAPHEEEIIINLHKAIGSRWSLIAQQLPGRTDNDVKNFWNTKLK 113 (334)
Q Consensus 66 kkg~WT~EED~~Ll~~v~~~G~~W~~Ia~~l~gRt~~qcr~RW~~~Lr 113 (334)
....||.||-.++-.+...||.++.+|-+.||.|+-.++...|+...+
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK 233 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKK 233 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHH
Confidence 456799999999999999999999999999999999999998865443
No 54
>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=70.41 E-value=4.1 Score=32.32 Aligned_cols=29 Identities=31% Similarity=0.649 Sum_probs=16.5
Q ss_pred CCCccCCCCHHHHHHH--------HHHHHHhCCCCccccc
Q 043557 10 SNVKRGLWTPEEDAKL--------LAHVANHGTGNWTLVP 41 (334)
Q Consensus 10 p~lkkg~WT~EED~~L--------~~lv~k~g~~~W~~IA 41 (334)
|.-..|-||+|+|+.| ..++++||. ..|+
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG~---~~i~ 79 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHGE---ERIE 79 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH-H---HHHH
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhCH---HHHH
Confidence 5556888999999999 456677764 4454
No 55
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=69.75 E-value=11 Score=40.17 Aligned_cols=56 Identities=14% Similarity=0.421 Sum_probs=45.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchhhhhh----------cCCCCCHHHHHHHHHHHhHHHhhhCCCCC
Q 043557 67 HASFAPHEEEIIINLHKAIGSRWSLIAQ----------QLPGRTDNDVKNFWNTKLKKKLMKLGIDP 123 (334)
Q Consensus 67 kg~WT~EED~~Ll~~v~~~G~~W~~Ia~----------~l~gRt~~qcr~RW~~~Lr~~ikrg~~t~ 123 (334)
|..||-.|..-...+++++|.++.+|-. ...-++..++|.+|+..++.+.+-- |.+
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~-F~~ 153 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLL-FGP 153 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhh-ccc
Confidence 6689999999999999999999988822 2233577899999999998887664 555
No 56
>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=64.86 E-value=6.3 Score=31.21 Aligned_cols=17 Identities=24% Similarity=0.575 Sum_probs=10.2
Q ss_pred CCCCCCCCCHHHHHHHH
Q 043557 63 PDLRHASFAPHEEEIII 79 (334)
Q Consensus 63 p~lkkg~WT~EED~~Ll 79 (334)
|....|-||+|+|..|.
T Consensus 43 P~n~~GiWT~eDD~~L~ 59 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLR 59 (87)
T ss_dssp -TT-TT---HHHHHHHT
T ss_pred CCCCCCCcCHHHHHHHH
Confidence 56678999999999993
No 57
>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=63.94 E-value=16 Score=25.54 Aligned_cols=41 Identities=27% Similarity=0.316 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhH
Q 043557 72 PHEEEIIINLHKAIGSRWSLIAQQLPGRTDNDVKNFWNTKLK 113 (334)
Q Consensus 72 ~EED~~Ll~~v~~~G~~W~~Ia~~l~gRt~~qcr~RW~~~Lr 113 (334)
++++..++.++...|-.|..||..+ |.+...++.+....++
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 4677788888888889999999999 8999999988766554
No 58
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=62.20 E-value=10 Score=32.80 Aligned_cols=46 Identities=9% Similarity=0.118 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHHHhHHHhhh
Q 043557 72 PHEEEIIINLHKAIG-SRWSLIAQQLPGRTDNDVKNFWNTKLKKKLMK 118 (334)
Q Consensus 72 ~EED~~Ll~~v~~~G-~~W~~Ia~~l~gRt~~qcr~RW~~~Lr~~ikr 118 (334)
.+-|.+|+.+.++-| ..|+.||+.+ |-+...|+.|+..+....+-+
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 357899999999998 6699999999 999999999998888766554
No 59
>smart00595 MADF subfamily of SANT domain.
Probab=61.23 E-value=7.7 Score=30.03 Aligned_cols=25 Identities=28% Similarity=0.586 Sum_probs=20.8
Q ss_pred chhhhhhcCCCCCHHHHHHHHHHHhH
Q 043557 88 RWSLIAQQLPGRTDNDVKNFWNTKLK 113 (334)
Q Consensus 88 ~W~~Ia~~l~gRt~~qcr~RW~~~Lr 113 (334)
-|..|+..+ +-+...|+.+|.++-.
T Consensus 29 aW~~Ia~~l-~~~~~~~~~kw~~LR~ 53 (89)
T smart00595 29 AWEEIAEEL-GLSVEECKKRWKNLRD 53 (89)
T ss_pred HHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 499999999 4499999999976643
No 60
>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=60.89 E-value=2.7 Score=33.04 Aligned_cols=44 Identities=32% Similarity=0.668 Sum_probs=31.1
Q ss_pred CCCHHHHHHHHHHHHHh---C----CC-----Ccccccccc----CCccccccccccccc
Q 043557 16 LWTPEEDAKLLAHVANH---G----TG-----NWTLVPKKA----GLNRCGKSCRLRWTN 59 (334)
Q Consensus 16 ~WT~EED~~L~~lv~k~---g----~~-----~W~~IA~~l----~~~Rt~~QCr~Rw~~ 59 (334)
.||+++++.|++++... | .+ .|..|++.| +...+..||+.||..
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~ 60 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKT 60 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHH
Confidence 59999999999988654 1 11 377787665 345566788887754
No 61
>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=60.11 E-value=15 Score=25.18 Aligned_cols=37 Identities=19% Similarity=0.341 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHH
Q 043557 73 HEEEIIINLHKAIG-SRWSLIAQQLPGRTDNDVKNFWNT 110 (334)
Q Consensus 73 EED~~Ll~~v~~~G-~~W~~Ia~~l~gRt~~qcr~RW~~ 110 (334)
+=|.+|+....+-| ..|..||+.+ |=+...|..|+..
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~l-glS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEEL-GLSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHH-TS-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHH-CcCHHHHHHHHHH
Confidence 45889999999998 5699999999 8899999999865
No 62
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=59.20 E-value=3.7 Score=44.48 Aligned_cols=42 Identities=17% Similarity=0.275 Sum_probs=38.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccc
Q 043557 15 GLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWT 58 (334)
Q Consensus 15 g~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~ 58 (334)
.+||+.|..++.+++..|.. ++..|++.++ ++|.+||-+-|.
T Consensus 620 d~WTp~E~~lF~kA~y~~~K-DF~~v~km~~-~KtVaqCVeyYY 661 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSK-DFIFVQKMVK-SKTVAQCVEYYY 661 (907)
T ss_pred ccccHHHHHHHHHHHHHhcc-cHHHHHHHhc-cccHHHHHHHHH
Confidence 47999999999999999977 9999999999 999999988664
No 63
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=56.86 E-value=22 Score=27.86 Aligned_cols=38 Identities=16% Similarity=0.316 Sum_probs=28.7
Q ss_pred HHHHHHHHhCC--------chhhhhhcCC-CC--C--HHHHHHHHHHHhHH
Q 043557 77 IIINLHKAIGS--------RWSLIAQQLP-GR--T--DNDVKNFWNTKLKK 114 (334)
Q Consensus 77 ~Ll~~v~~~G~--------~W~~Ia~~l~-gR--t--~~qcr~RW~~~Lr~ 114 (334)
+|..+|.+.|| .|..|++.+. .. + ...++..|..+|.+
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 58888999985 5999999882 22 1 36788889888865
No 64
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=55.75 E-value=11 Score=32.93 Aligned_cols=47 Identities=9% Similarity=0.034 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHHHhHHHhhhC
Q 043557 72 PHEEEIIINLHKAIG-SRWSLIAQQLPGRTDNDVKNFWNTKLKKKLMKL 119 (334)
Q Consensus 72 ~EED~~Ll~~v~~~G-~~W~~Ia~~l~gRt~~qcr~RW~~~Lr~~ikrg 119 (334)
.+-|.+|+.+.++-| -.|..||+.+ |=+...|+.|+..+....+-++
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI~~ 60 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFIQG 60 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCeEE
Confidence 467889999999998 5699999999 9999999999998887776543
No 65
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=54.66 E-value=22 Score=28.13 Aligned_cols=39 Identities=18% Similarity=0.319 Sum_probs=30.2
Q ss_pred HHHHHHHHhCC--------chhhhhhcCCC-----CCHHHHHHHHHHHhHHH
Q 043557 77 IIINLHKAIGS--------RWSLIAQQLPG-----RTDNDVKNFWNTKLKKK 115 (334)
Q Consensus 77 ~Ll~~v~~~G~--------~W~~Ia~~l~g-----Rt~~qcr~RW~~~Lr~~ 115 (334)
+|..+|.+.|| .|..|++.+.- .....++..|.++|.+-
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 58888999885 59999998822 23577888898888765
No 66
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=51.96 E-value=26 Score=32.37 Aligned_cols=44 Identities=14% Similarity=0.271 Sum_probs=33.9
Q ss_pred CCCHHHHHHHHHHHHHhCCchhhhhhcC--CC-CCHHHHHHHHHHHhH
Q 043557 69 SFAPHEEEIIINLHKAIGSRWSLIAQQL--PG-RTDNDVKNFWNTKLK 113 (334)
Q Consensus 69 ~WT~EED~~Ll~~v~~~G~~W~~Ia~~l--~g-Rt~~qcr~RW~~~Lr 113 (334)
.|++++|.+|+.+|.. |+.-..|+.-+ .. -|-.-+..||+.+|.
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~lly 47 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLY 47 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHc
Confidence 5999999999999864 56666666644 33 478899999998774
No 67
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=49.47 E-value=16 Score=42.12 Aligned_cols=75 Identities=16% Similarity=0.258 Sum_probs=47.0
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCCHHHHHHHHHHHHHh-CCchhh
Q 043557 13 KRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYLRPDLRHASFAPHEEEIIINLHKAI-GSRWSL 91 (334)
Q Consensus 13 kkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~~v~~~-G~~W~~ 91 (334)
.-.-|..+||..|+-.|-+||.++|..|---= .-|... ...+...+-.+.|=..+-..|+.++..+ +++|..
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp------~L~l~d-Ki~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~ 1204 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLDP------DLGLTD-KIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPK 1204 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccCc------cccchh-hhcccccCCchHHHHHHHHHHHHHHhhcccCCCch
Confidence 34569999999999999999999999995211 111110 0011111445566666777777777776 456655
Q ss_pred hhh
Q 043557 92 IAQ 94 (334)
Q Consensus 92 Ia~ 94 (334)
...
T Consensus 1205 ~~~ 1207 (1373)
T KOG0384|consen 1205 KLK 1207 (1373)
T ss_pred hhh
Confidence 443
No 68
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=48.63 E-value=9.3 Score=38.68 Aligned_cols=49 Identities=12% Similarity=0.238 Sum_probs=41.4
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCccccccc-----cCCccccccccccccccc
Q 043557 12 VKRGLWTPEEDAKLLAHVANHGTGNWTLVPKK-----AGLNRCGKSCRLRWTNYL 61 (334)
Q Consensus 12 lkkg~WT~EED~~L~~lv~k~g~~~W~~IA~~-----l~~~Rt~~QCr~Rw~~~L 61 (334)
++-..||++|.+.|.+++++|.- .|-.||.+ ++..||.....+||..+.
T Consensus 128 l~dn~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 128 LNDNSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred hccccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 44467999999999999999987 89999987 675699999999987543
No 69
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=47.21 E-value=24 Score=37.62 Aligned_cols=45 Identities=22% Similarity=0.371 Sum_probs=41.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHH
Q 043557 66 RHASFAPHEEEIIINLHKAIGSRWSLIAQQLPGRTDNDVKNFWNT 110 (334)
Q Consensus 66 kkg~WT~EED~~Ll~~v~~~G~~W~~Ia~~l~gRt~~qcr~RW~~ 110 (334)
..++|+.+|-++......+.|.+.+.|+..+++|..+++|.++..
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhh
Confidence 456899999999999999999999999999999999999998854
No 70
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=45.60 E-value=5.9 Score=34.32 Aligned_cols=45 Identities=11% Similarity=0.182 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCC
Q 043557 19 PEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYLRPDL 65 (334)
Q Consensus 19 ~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~l 65 (334)
.+-|.+|+++..+.|...|.+||+.+| -+...|+.|+.+....++
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 357899999999999999999999997 888899999988766654
No 71
>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=45.29 E-value=4.5 Score=27.86 Aligned_cols=38 Identities=21% Similarity=0.331 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHhCCCCccccccccCCccccccccccccc
Q 043557 20 EEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTN 59 (334)
Q Consensus 20 EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~ 59 (334)
+=|.+|+.+..+.+...|.+||+.+| =+...|+.|+.+
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 44788999999999889999999997 677777777643
No 72
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=43.44 E-value=36 Score=37.26 Aligned_cols=45 Identities=9% Similarity=0.217 Sum_probs=40.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHH
Q 043557 67 HASFAPHEEEIIINLHKAIGSRWSLIAQQLPGRTDNDVKNFWNTK 111 (334)
Q Consensus 67 kg~WT~EED~~Ll~~v~~~G~~W~~Ia~~l~gRt~~qcr~RW~~~ 111 (334)
...||+.|-.+.-+++..|..++..|++.+++++=.+|-..|+..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHH
Confidence 347999999999999999999999999999999999998876543
No 73
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=42.42 E-value=17 Score=38.84 Aligned_cols=46 Identities=13% Similarity=0.331 Sum_probs=35.2
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccc----------cCCccccccccccccccc
Q 043557 14 RGLWTPEEDAKLLAHVANHGTGNWTLVPKK----------AGLNRCGKSCRLRWTNYL 61 (334)
Q Consensus 14 kg~WT~EED~~L~~lv~k~g~~~W~~IA~~----------l~~~Rt~~QCr~Rw~~~L 61 (334)
|..||..|.+-...+++.+|. +++.|-.. .. -++-.|+|.+|.+.+
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~-~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQ-SKTKDQVRHYYYRLV 143 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchh-hhhhHHHHHHHHHHH
Confidence 567999999999999999998 88888222 22 455668888876554
No 74
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=40.75 E-value=6.3 Score=34.58 Aligned_cols=45 Identities=18% Similarity=0.240 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCC
Q 043557 19 PEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYLRPDL 65 (334)
Q Consensus 19 ~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~l 65 (334)
.+-|.+|+.+..+.|.-.|.+||+.+| -+...|+.|+.+..+.++
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 567899999999999999999999997 788889999988766654
No 75
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=33.20 E-value=26 Score=37.31 Aligned_cols=49 Identities=12% Similarity=0.337 Sum_probs=43.6
Q ss_pred CCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCccccccccccccc
Q 043557 9 KSNVKRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTN 59 (334)
Q Consensus 9 kp~lkkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~ 59 (334)
.+....++|+..|-++...+....|. +...|+..++ +|..+|++.++..
T Consensus 404 sk~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p-~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 404 SKKLETDKWDASETELFYKALSERGS-DFSLISNLFP-LRDRKQIKAKFKK 452 (584)
T ss_pred cCccccCcccchhhHHhhhHHhhhcc-cccccccccc-cccHHHHHHHHhh
Confidence 35566789999999999999999999 8999999999 9999999988753
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=33.20 E-value=77 Score=31.46 Aligned_cols=86 Identities=15% Similarity=0.273 Sum_probs=58.0
Q ss_pred cCCCCHHHHHHHHHHHHHhCCC---CccccccccCCcccccccccccccccCCCCCCCCCCHHHHHHHHHHHHH-h-CC-
Q 043557 14 RGLWTPEEDAKLLAHVANHGTG---NWTLVPKKAGLNRCGKSCRLRWTNYLRPDLRHASFAPHEEEIIINLHKA-I-GS- 87 (334)
Q Consensus 14 kg~WT~EED~~L~~lv~k~g~~---~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~~v~~-~-G~- 87 (334)
-..||..|...|+.+....... +-.+|++.++ +|+..++++ |.+.|+ +..+.++|++ | |+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g~ 86 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRD-FLQQLK------------GRVAREAIQKVHPGGL 86 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHH-HHHHHH------------HHHHHHHHHHhccccc
Confidence 3469999999999998876433 4457788888 899988876 333333 3456666665 2 11
Q ss_pred ---------------chhhhhhcCCCCCHHHHHHHHHHHhH
Q 043557 88 ---------------RWSLIAQQLPGRTDNDVKNFWNTKLK 113 (334)
Q Consensus 88 ---------------~W~~Ia~~l~gRt~~qcr~RW~~~Lr 113 (334)
-|..+|.++.|.-...+-.-|-..|.
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 38888888877777666666655553
No 77
>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=33.00 E-value=87 Score=21.51 Aligned_cols=41 Identities=29% Similarity=0.357 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHhCCchhhhhhcCCCCCHHHHHHHHHHHhHH
Q 043557 73 HEEEIIINLHKAIGSRWSLIAQQLPGRTDNDVKNFWNTKLKK 114 (334)
Q Consensus 73 EED~~Ll~~v~~~G~~W~~Ia~~l~gRt~~qcr~RW~~~Lr~ 114 (334)
+++..++.+.-..|-.+..||..+ |-+...++.+-...+++
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 344555555554456799999999 77888888877766654
No 78
>PLN03162 golden-2 like transcription factor; Provisional
Probab=32.26 E-value=3.1e+02 Score=28.05 Aligned_cols=45 Identities=11% Similarity=0.161 Sum_probs=35.5
Q ss_pred CCCCHHHHHHHHHHHHHhCCc---hhhhhhcC--CCCCHHHHHHHHHHHh
Q 043557 68 ASFAPHEEEIIINLHKAIGSR---WSLIAQQL--PGRTDNDVKNFWNTKL 112 (334)
Q Consensus 68 g~WT~EED~~Ll~~v~~~G~~---W~~Ia~~l--~gRt~~qcr~RW~~~L 112 (334)
-.||+|--++.+++|.+.|.. =+.|-+.| +|=|...++.+.+.|.
T Consensus 238 LrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYR 287 (526)
T PLN03162 238 VDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYR 287 (526)
T ss_pred ccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHH
Confidence 479999999999999999932 45565655 6778999988876654
No 79
>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=31.03 E-value=95 Score=27.36 Aligned_cols=47 Identities=15% Similarity=0.138 Sum_probs=38.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhhhhhcC----CCCCHHHHHHHHHHHh
Q 043557 66 RHASFAPHEEEIIINLHKAIGSRWSLIAQQL----PGRTDNDVKNFWNTKL 112 (334)
Q Consensus 66 kkg~WT~EED~~Ll~~v~~~G~~W~~Ia~~l----~gRt~~qcr~RW~~~L 112 (334)
....-|+.|..-|..+|++||.++.+.+.-. -..|..+|+.+...+.
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 3456889999999999999999999998743 2479999998876654
No 80
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=30.85 E-value=1.6e+02 Score=29.91 Aligned_cols=42 Identities=12% Similarity=0.240 Sum_probs=37.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhhhhh-cCCCCCHHHHHHHHH
Q 043557 68 ASFAPHEEEIIINLHKAIGSRWSLIAQ-QLPGRTDNDVKNFWN 109 (334)
Q Consensus 68 g~WT~EED~~Ll~~v~~~G~~W~~Ia~-~l~gRt~~qcr~RW~ 109 (334)
..|+++|=...-+.++.||.++..|-+ +++.|+-.-|-..|+
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYY 320 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYY 320 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHH
Confidence 379999999999999999999999966 569999999988764
No 81
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=29.81 E-value=84 Score=24.92 Aligned_cols=45 Identities=13% Similarity=0.133 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHHHhHHHhhh
Q 043557 73 HEEEIIINLHKAIG-SRWSLIAQQLPGRTDNDVKNFWNTKLKKKLMK 118 (334)
Q Consensus 73 EED~~Ll~~v~~~G-~~W~~Ia~~l~gRt~~qcr~RW~~~Lr~~ikr 118 (334)
+.|.+|+.++.+.| -.+..|++.+ |-+...|+.|...+....+-+
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 57889999999988 5699999999 899999999998777655433
No 82
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=29.58 E-value=30 Score=39.95 Aligned_cols=25 Identities=12% Similarity=0.364 Sum_probs=23.4
Q ss_pred CCCHHHHHHHHHHHHHhC-Cchhhhh
Q 043557 69 SFAPHEEEIIINLHKAIG-SRWSLIA 93 (334)
Q Consensus 69 ~WT~EED~~Ll~~v~~~G-~~W~~Ia 93 (334)
.|..++|.+|+-.|-+|| ++|.+|-
T Consensus 1135 ~W~~e~Ds~LLiGI~khGygswe~Ir 1160 (1373)
T KOG0384|consen 1135 DWGSEDDSMLLIGIFKHGYGSWEAIR 1160 (1373)
T ss_pred CCCchhhhhHhhhhhhcccccHHHhc
Confidence 599999999999999999 9999884
No 83
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=27.59 E-value=44 Score=38.14 Aligned_cols=34 Identities=29% Similarity=0.405 Sum_probs=28.9
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCcccccccc
Q 043557 11 NVKRGLWTPEEDAKLLAHVANHGTGNWTLVPKKA 44 (334)
Q Consensus 11 ~lkkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l 44 (334)
+-++..+|.|||..|+-.+.+||.++|.+|-..+
T Consensus 923 ~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i 956 (1033)
T PLN03142 923 QNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAF 956 (1033)
T ss_pred CCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHH
Confidence 4445569999999999999999999999996554
No 84
>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=25.42 E-value=57 Score=24.27 Aligned_cols=26 Identities=27% Similarity=0.475 Sum_probs=20.2
Q ss_pred chhhhhhcCC-CCCHHHHHHHHHHHhH
Q 043557 88 RWSLIAQQLP-GRTDNDVKNFWNTKLK 113 (334)
Q Consensus 88 ~W~~Ia~~l~-gRt~~qcr~RW~~~Lr 113 (334)
-|..|+..+. .-+...|+.||.++..
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~ 54 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRD 54 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHH
Confidence 4999999984 3577899999987543
No 85
>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=25.26 E-value=2.3e+02 Score=28.30 Aligned_cols=44 Identities=25% Similarity=0.568 Sum_probs=34.8
Q ss_pred CCCCCHHHHHHHHHHHHHh-CC---chhhhhhcCCCCCHHHHHHHHHH
Q 043557 67 HASFAPHEEEIIINLHKAI-GS---RWSLIAQQLPGRTDNDVKNFWNT 110 (334)
Q Consensus 67 kg~WT~EED~~Ll~~v~~~-G~---~W~~Ia~~l~gRt~~qcr~RW~~ 110 (334)
-..||.-|...|+.+.+.. |. .-..|++.+++|+...+++--..
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~ 68 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQ 68 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHH
Confidence 3479999999999998776 43 35678889999999999885443
No 86
>PF12638 Staygreen: Staygreen protein; InterPro: IPR024438 This domain is found in a family of proteins have been implicated in chlorophyll degradation [, ]. Intriguingly members of this family are also found in non-photosynthetic bacteria.
Probab=25.13 E-value=30 Score=30.65 Aligned_cols=22 Identities=27% Similarity=0.240 Sum_probs=20.5
Q ss_pred HHHhhccCccccccchhhhccc
Q 043557 310 VDAILSKDSEMSSQSFELLDES 331 (334)
Q Consensus 310 ~~~~~~~~~~~~~~~~~~~~~~ 331 (334)
+++|.-.|+.+|..+|+|++.+
T Consensus 105 L~Ai~yGD~~lf~~~P~L~~a~ 126 (151)
T PF12638_consen 105 LKAIRYGDRSLFAEHPELDDAP 126 (151)
T ss_pred HHHHhhccHHHHHhChhhcCCC
Confidence 7899999999999999999975
No 87
>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=24.59 E-value=49 Score=29.21 Aligned_cols=45 Identities=13% Similarity=0.158 Sum_probs=32.4
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCccccccccCC---ccccccccccc
Q 043557 12 VKRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGL---NRCGKSCRLRW 57 (334)
Q Consensus 12 lkkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~---~Rt~~QCr~Rw 57 (334)
.+..+-+..|.+-|..+|.+||. |+..++.-..+ ..|+.||+.+.
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGd-Dy~aMarD~KLN~~Q~T~~qlrrki 159 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGD-DYKAMARDRKLNYMQHTPGQLRRKI 159 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCc-cHHHHhccCCCCcccCCHHHHHHHH
Confidence 45667899999999999999998 88888754331 34555555443
No 88
>smart00351 PAX Paired Box domain.
Probab=23.40 E-value=1.2e+02 Score=25.43 Aligned_cols=72 Identities=11% Similarity=0.122 Sum_probs=44.8
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCccccccccCCccc-cccccccccc--ccCCCC----CCCCCCHHHHHHHHHHHHHh
Q 043557 13 KRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRC-GKSCRLRWTN--YLRPDL----RHASFAPHEEEIIINLHKAI 85 (334)
Q Consensus 13 kkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt-~~QCr~Rw~~--~L~p~l----kkg~WT~EED~~Ll~~v~~~ 85 (334)
...+.+.++-++++.++. -|. .-.+||+.++..|. ...+..||.. .+.|.- +...=+++++..|+.++.++
T Consensus 14 ~~~~~s~~~R~riv~~~~-~G~-s~~~iA~~~gvs~~tV~kwi~r~~~~G~~~pk~~gg~rp~~~~~~~~~~I~~~~~~~ 91 (125)
T smart00351 14 NGRPLPDEERQRIVELAQ-NGV-RPCDISRQLCVSHGCVSKILGRYYETGSIRPGAIGGSKPKVATPKVVKKIADYKQEN 91 (125)
T ss_pred CCCCCCHHHHHHHHHHHH-cCC-CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCcCCCCCCCCccCHHHHHHHHHHHHHC
Confidence 344589999999988886 343 67999999985443 4445555542 344422 22234556666677677665
Q ss_pred C
Q 043557 86 G 86 (334)
Q Consensus 86 G 86 (334)
+
T Consensus 92 p 92 (125)
T smart00351 92 P 92 (125)
T ss_pred C
Confidence 4
No 89
>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=23.03 E-value=1.7e+02 Score=24.03 Aligned_cols=29 Identities=28% Similarity=0.379 Sum_probs=23.6
Q ss_pred hCCchhhhhhcCCCCCHHHHHHHHHHHhHH
Q 043557 85 IGSRWSLIAQQLPGRTDNDVKNFWNTKLKK 114 (334)
Q Consensus 85 ~G~~W~~Ia~~l~gRt~~qcr~RW~~~Lr~ 114 (334)
.|-.+..||+.+ |.+...++.++...++.
T Consensus 128 ~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 128 EGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466899999988 88999999998776543
No 90
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=22.68 E-value=42 Score=34.81 Aligned_cols=44 Identities=14% Similarity=0.114 Sum_probs=38.4
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccc
Q 043557 13 KRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWT 58 (334)
Q Consensus 13 kkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~ 58 (334)
..-.||.||--++..+...||. ++.+|-+.|+ .|+-..++.-|.
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK-~F~kIrq~LP-~rsLaSlvqyYy 229 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGK-DFHKIRQALP-HRSLASLVQYYY 229 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcc-cHHHHHHHcc-CccHHHHHHHHH
Confidence 3456999999999999999999 9999999999 999888777554
No 91
>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=22.16 E-value=1.4e+02 Score=20.05 Aligned_cols=23 Identities=26% Similarity=0.267 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHhCCchhhhhhcC
Q 043557 74 EEEIIINLHKAIGSRWSLIAQQL 96 (334)
Q Consensus 74 ED~~Ll~~v~~~G~~W~~Ia~~l 96 (334)
|...|..+++.+|++....|+.+
T Consensus 6 E~~~i~~aL~~~~gn~~~aA~~L 28 (42)
T PF02954_consen 6 EKQLIRQALERCGGNVSKAARLL 28 (42)
T ss_dssp HHHHHHHHHHHTTT-HHHHHHHH
T ss_pred HHHHHHHHHHHhCCCHHHHHHHH
Confidence 67788999999999999999988
No 92
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=21.84 E-value=97 Score=31.49 Aligned_cols=34 Identities=24% Similarity=0.431 Sum_probs=25.6
Q ss_pred CCCCCccC-CCCHHHHHHHHHHHHHhCCCCcccccccc
Q 043557 8 DKSNVKRG-LWTPEEDAKLLAHVANHGTGNWTLVPKKA 44 (334)
Q Consensus 8 ~kp~lkkg-~WT~EED~~L~~lv~k~g~~~W~~IA~~l 44 (334)
+.|+--.| -||+||-.+|.+++.+||. ..|+..+
T Consensus 165 CnPHNP~Grvwt~eeL~~i~elc~kh~v---~VISDEI 199 (388)
T COG1168 165 CNPHNPTGRVWTKEELRKIAELCLRHGV---RVISDEI 199 (388)
T ss_pred eCCCCCCCccccHHHHHHHHHHHHHcCC---EEEeecc
Confidence 34555455 4999999999999999987 5565444
No 93
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=21.44 E-value=57 Score=28.98 Aligned_cols=41 Identities=17% Similarity=0.223 Sum_probs=0.0
Q ss_pred CCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccc
Q 043557 17 WTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNY 60 (334)
Q Consensus 17 WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~ 60 (334)
||.|+.++|.++... |. .=.+||+.|| +.+...+.-+.+++
T Consensus 3 Wtde~~~~L~~lw~~-G~-SasqIA~~lg-~vsRnAViGk~hRl 43 (162)
T PF07750_consen 3 WTDERVERLRKLWAE-GL-SASQIARQLG-GVSRNAVIGKAHRL 43 (162)
T ss_pred CCHHHHHHHHHHHHc-CC-CHHHHHHHhC-Ccchhhhhhhhhcc
No 94
>PRK13858 type IV secretion system T-DNA border endonuclease VirD1; Provisional
Probab=21.05 E-value=87 Score=27.67 Aligned_cols=80 Identities=14% Similarity=0.049 Sum_probs=58.4
Q ss_pred CCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCCHHHHHHHHHHH
Q 043557 3 RPPCCDKSNVKRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYLRPDLRHASFAPHEEEIIINLH 82 (334)
Q Consensus 3 R~~~~~kp~lkkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~Ll~~v 82 (334)
|+|+-+.|.+-+-+.|++|=..|..-....|. ...++-+.+- .+-. +.++-..-|.|+-..|+.-+
T Consensus 17 ~~~~~~~~kvVsvRLTe~Ey~~L~~rA~~aGl-S~SEfIRqAi-~~~~------------g~V~v~r~T~e~~~~lir~l 82 (147)
T PRK13858 17 ESAKVEGFKVVSTRLRSAEYESFSAQARLLGL-SDSMAIRVAV-RRIG------------GFLEIDAETREKMEAILQSI 82 (147)
T ss_pred cCccccCCeEEEEecCHHHHHHHHHHHHHcCC-CHHHHHHHHH-HhcC------------CeEeecccCHHHHHHHHHHH
Confidence 34556667888889999999999999999987 5555443332 1111 12223567888888899888
Q ss_pred HHhCCchhhhhhcC
Q 043557 83 KAIGSRWSLIAQQL 96 (334)
Q Consensus 83 ~~~G~~W~~Ia~~l 96 (334)
...|++-.+|++.+
T Consensus 83 ~gianNLNQLAr~a 96 (147)
T PRK13858 83 GTLSSNIAALLSAY 96 (147)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999999999988
No 95
>PF01710 HTH_Tnp_IS630: Transposase; InterPro: IPR002622 Transposase proteins are necessary for efficient DNA transposition. This entry includes insertion sequences from Synechocystis sp. (strain PCC 6803) three of which are characterised as homologous to bacterial IS5- and IS4- and to several members of the IS630-Tc1-mariner superfamily []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=20.58 E-value=65 Score=26.72 Aligned_cols=66 Identities=11% Similarity=0.070 Sum_probs=45.2
Q ss_pred CCCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCCcccccccccccccccCCCCCCCCCCHHHHHHH
Q 043557 8 DKSNVKRGLWTPEEDAKLLAHVANHGTGNWTLVPKKAGLNRCGKSCRLRWTNYLRPDLRHASFAPHEEEII 78 (334)
Q Consensus 8 ~kp~lkkg~WT~EED~~L~~lv~k~g~~~W~~IA~~l~~~Rt~~QCr~Rw~~~L~p~lkkg~WT~EED~~L 78 (334)
..+..+.++ +=+.+.|.++|..++...-.+||+.++. ..+...++...+.-..|+..|..++|..-
T Consensus 47 ~~~k~r~~~--Kid~~~L~~~v~~~pd~tl~Ela~~l~V---s~~ti~~~Lkrlg~t~KK~~~~~~~~~~~ 112 (119)
T PF01710_consen 47 LEPKPRGRK--KIDRDELKALVEENPDATLRELAERLGV---SPSTIWRALKRLGITRKKKTLHSEKDREK 112 (119)
T ss_pred ccccccccc--cccHHHHHHHHHHCCCcCHHHHHHHcCC---CHHHHHHHHHHcCchhccCcccchhHHHH
Confidence 344444443 3356679999999988777889998872 44455566666777778888877766543
No 96
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=20.35 E-value=1.4e+02 Score=24.97 Aligned_cols=46 Identities=13% Similarity=0.086 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHhC-CchhhhhhcCCCCCHHHHHHHHHHHhHHHhhhC
Q 043557 73 HEEEIIINLHKAIG-SRWSLIAQQLPGRTDNDVKNFWNTKLKKKLMKL 119 (334)
Q Consensus 73 EED~~Ll~~v~~~G-~~W~~Ia~~l~gRt~~qcr~RW~~~Lr~~ikrg 119 (334)
+-|.+|++..++-| ..+..||+.+ |-+...|+.|-.++.+..+-++
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI~~ 54 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVIKG 54 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCceee
Confidence 56889999999988 5699999999 8999999999988877765554
Done!