Query 035629
Match_columns 352
No_of_seqs 279 out of 2148
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 04:44:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035629.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035629hhsearch_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 7.4E-36 1.6E-40 295.8 10.6 132 1-132 1-132 (459)
2 PLN03212 Transcription repress 100.0 3.1E-35 6.6E-40 273.7 9.3 127 3-129 14-140 (249)
3 KOG0048 Transcription factor, 100.0 4.3E-31 9.3E-36 248.3 10.4 119 9-127 4-122 (238)
4 KOG0048 Transcription factor, 99.9 3.1E-27 6.7E-32 222.2 5.8 105 63-177 5-111 (238)
5 KOG0049 Transcription factor, 99.9 1.3E-26 2.8E-31 236.5 7.8 162 4-174 243-459 (939)
6 PLN03212 Transcription repress 99.9 1.3E-25 2.9E-30 209.3 5.7 104 62-175 20-125 (249)
7 PLN03091 hypothetical protein; 99.9 2.2E-24 4.8E-29 214.4 5.3 100 61-170 8-109 (459)
8 KOG0049 Transcription factor, 99.8 5.8E-20 1.3E-24 188.2 4.3 110 1-111 347-460 (939)
9 PF13921 Myb_DNA-bind_6: Myb-l 99.6 4.1E-16 9E-21 116.1 2.8 60 17-78 1-60 (60)
10 KOG0051 RNA polymerase I termi 99.6 2.1E-15 4.6E-20 155.8 6.9 161 13-180 383-573 (607)
11 KOG0050 mRNA splicing protein 99.6 2.6E-16 5.6E-21 158.5 -0.1 104 12-117 5-108 (617)
12 COG5147 REB1 Myb superfamily p 99.5 4.1E-15 9E-20 152.3 6.1 107 10-117 16-122 (512)
13 PF13921 Myb_DNA-bind_6: Myb-l 99.5 2.1E-14 4.5E-19 106.9 3.2 59 70-128 1-59 (60)
14 KOG0051 RNA polymerase I termi 99.4 9.7E-14 2.1E-18 143.7 5.9 156 12-169 306-503 (607)
15 PF00249 Myb_DNA-binding: Myb- 99.4 1.7E-13 3.6E-18 98.1 4.2 46 67-112 1-48 (48)
16 PF00249 Myb_DNA-binding: Myb- 99.3 3.9E-13 8.5E-18 96.2 -0.2 48 14-61 1-48 (48)
17 smart00717 SANT SANT SWI3, AD 99.2 4E-11 8.7E-16 83.5 4.9 47 67-113 1-48 (49)
18 COG5147 REB1 Myb superfamily p 99.1 1.2E-11 2.7E-16 127.0 1.7 98 64-171 17-115 (512)
19 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 2.8E-10 6.1E-15 78.1 4.8 44 69-112 1-45 (45)
20 KOG0050 mRNA splicing protein 99.0 8.2E-11 1.8E-15 119.2 2.1 94 65-169 5-99 (617)
21 smart00717 SANT SANT SWI3, AD 98.9 4.2E-10 9.1E-15 78.3 1.5 48 14-62 1-48 (49)
22 cd00167 SANT 'SWI3, ADA2, N-Co 98.7 2.8E-09 6.1E-14 73.0 1.2 44 16-60 1-44 (45)
23 KOG0457 Histone acetyltransfer 97.8 2.9E-05 6.3E-10 78.3 5.3 49 65-113 70-119 (438)
24 TIGR01557 myb_SHAQKYF myb-like 97.8 5.8E-05 1.3E-09 56.4 5.3 47 66-112 2-54 (57)
25 TIGR01557 myb_SHAQKYF myb-like 97.6 2.5E-05 5.4E-10 58.3 1.5 49 13-61 2-54 (57)
26 KOG0457 Histone acetyltransfer 97.5 3.1E-05 6.8E-10 78.1 0.8 90 12-102 70-181 (438)
27 TIGR02894 DNA_bind_RsfA transc 97.3 0.00019 4.1E-09 64.0 3.6 51 66-117 3-60 (161)
28 COG5259 RSC8 RSC chromatin rem 97.1 0.00037 8.1E-09 71.0 3.6 44 67-110 279-322 (531)
29 PF08914 Myb_DNA-bind_2: Rap1 97.1 0.00054 1.2E-08 52.5 3.5 50 67-116 2-61 (65)
30 KOG1279 Chromatin remodeling f 97.1 0.00054 1.2E-08 71.2 4.7 45 66-110 252-296 (506)
31 PF13837 Myb_DNA-bind_4: Myb/S 96.8 0.0008 1.7E-08 53.2 2.7 49 67-115 1-67 (90)
32 PF13325 MCRS_N: N-terminal re 96.5 0.0047 1E-07 57.2 5.8 100 16-117 1-131 (199)
33 COG5259 RSC8 RSC chromatin rem 96.5 0.00082 1.8E-08 68.5 0.7 46 13-60 278-323 (531)
34 KOG1279 Chromatin remodeling f 96.5 0.0015 3.2E-08 68.1 2.4 48 11-60 250-297 (506)
35 PRK13923 putative spore coat p 96.3 0.0032 7E-08 56.8 3.0 50 66-116 4-60 (170)
36 TIGR02894 DNA_bind_RsfA transc 96.3 0.00097 2.1E-08 59.5 -0.3 50 12-63 2-57 (161)
37 PF08914 Myb_DNA-bind_2: Rap1 96.1 0.0012 2.6E-08 50.6 -0.5 52 14-65 2-61 (65)
38 COG5114 Histone acetyltransfer 96.0 0.0055 1.2E-07 60.1 3.3 46 68-113 64-110 (432)
39 PF13873 Myb_DNA-bind_5: Myb/S 95.9 0.012 2.6E-07 45.7 4.4 48 67-114 2-71 (78)
40 PF13837 Myb_DNA-bind_4: Myb/S 95.5 0.0023 4.9E-08 50.6 -1.1 47 14-60 1-63 (90)
41 COG5114 Histone acetyltransfer 95.2 0.0044 9.6E-08 60.7 -0.6 107 16-127 65-195 (432)
42 PF13873 Myb_DNA-bind_5: Myb/S 93.8 0.011 2.5E-07 45.8 -1.0 49 13-61 1-69 (78)
43 PRK13923 putative spore coat p 93.4 0.011 2.4E-07 53.4 -1.9 49 12-62 3-57 (170)
44 PLN03142 Probable chromatin-re 92.2 0.23 5E-06 56.3 5.9 98 16-114 826-986 (1033)
45 KOG4282 Transcription factor G 91.3 0.25 5.3E-06 49.0 4.4 49 67-115 54-116 (345)
46 KOG2656 DNA methyltransferase 89.9 0.75 1.6E-05 46.6 6.3 85 35-120 74-189 (445)
47 COG5118 BDP1 Transcription ini 87.7 0.63 1.4E-05 47.0 4.1 44 69-112 367-410 (507)
48 PF12776 Myb_DNA-bind_3: Myb/S 87.5 1 2.3E-05 35.7 4.6 43 69-111 1-61 (96)
49 PF09111 SLIDE: SLIDE; InterP 85.4 1.1 2.4E-05 38.3 3.9 50 64-113 46-111 (118)
50 PF09111 SLIDE: SLIDE; InterP 84.9 0.5 1.1E-05 40.3 1.6 35 11-45 46-83 (118)
51 KOG4167 Predicted DNA-binding 83.2 1.6 3.6E-05 47.4 4.8 44 68-111 620-663 (907)
52 KOG1194 Predicted DNA-binding 78.3 5.4 0.00012 41.4 6.4 47 66-112 186-232 (534)
53 KOG4167 Predicted DNA-binding 76.3 1.5 3.3E-05 47.6 1.9 42 15-58 620-661 (907)
54 PF11626 Rap1_C: TRF2-interact 74.7 2.9 6.3E-05 33.5 2.8 24 10-33 43-74 (87)
55 KOG4282 Transcription factor G 74.3 1 2.2E-05 44.7 0.0 46 15-60 55-112 (345)
56 smart00595 MADF subfamily of S 73.7 3.1 6.8E-05 32.6 2.7 24 89-113 30-53 (89)
57 KOG4468 Polycomb-group transcr 71.1 8.2 0.00018 41.4 5.7 52 67-118 88-149 (782)
58 PF08281 Sigma70_r4_2: Sigma-7 68.3 9 0.00019 27.1 3.9 41 72-113 12-52 (54)
59 PF13325 MCRS_N: N-terminal re 65.3 10 0.00022 35.3 4.6 44 69-113 1-47 (199)
60 COG5118 BDP1 Transcription ini 63.5 4.2 9E-05 41.3 1.7 43 15-59 366-408 (507)
61 PF11626 Rap1_C: TRF2-interact 63.3 7 0.00015 31.2 2.7 17 63-79 43-59 (87)
62 PF13404 HTH_AsnC-type: AsnC-t 59.8 13 0.00028 25.8 3.2 37 73-110 3-40 (42)
63 PRK11179 DNA-binding transcrip 59.5 11 0.00024 32.9 3.5 45 73-118 9-54 (153)
64 KOG0384 Chromodomain-helicase 59.2 8.3 0.00018 44.5 3.3 75 15-96 1134-1209(1373)
65 PF10545 MADF_DNA_bdg: Alcohol 55.4 9.2 0.0002 29.0 2.1 25 89-113 29-54 (85)
66 KOG4329 DNA-binding protein [G 54.9 31 0.00068 35.1 6.2 43 68-110 278-321 (445)
67 PRK09413 IS2 repressor TnpA; R 51.5 21 0.00045 30.0 3.9 82 13-98 9-118 (121)
68 PRK11169 leucine-responsive tr 50.6 14 0.00031 32.6 2.8 46 72-118 13-59 (164)
69 PF11035 SnAPC_2_like: Small n 50.4 41 0.0009 33.6 6.1 88 67-169 21-122 (344)
70 PF01388 ARID: ARID/BRIGHT DNA 49.7 22 0.00048 28.0 3.6 38 77-114 40-90 (92)
71 PF13404 HTH_AsnC-type: AsnC-t 49.6 3.8 8.2E-05 28.5 -0.8 38 20-59 3-40 (42)
72 KOG2009 Transcription initiati 45.7 26 0.00057 37.6 4.2 46 67-112 409-454 (584)
73 smart00501 BRIGHT BRIGHT, ARID 44.0 31 0.00066 27.5 3.5 39 77-115 36-87 (93)
74 PF04545 Sigma70_r4: Sigma-70, 41.6 44 0.00095 23.3 3.7 40 73-113 7-46 (50)
75 PF11035 SnAPC_2_like: Small n 41.5 37 0.00081 33.9 4.3 40 15-55 22-64 (344)
76 PRK11179 DNA-binding transcrip 41.1 7.9 0.00017 33.8 -0.3 45 19-65 8-52 (153)
77 PF09420 Nop16: Ribosome bioge 41.1 48 0.001 29.5 4.7 46 66-111 113-162 (164)
78 KOG2656 DNA methyltransferase 40.8 13 0.00028 38.0 1.1 47 13-60 129-180 (445)
79 PF06131 DUF963: Schizosacchar 39.5 15 0.00032 25.0 0.8 18 305-323 9-26 (36)
80 PRK11169 leucine-responsive tr 37.3 7.8 0.00017 34.3 -1.0 45 19-65 13-57 (164)
81 PF09905 DUF2132: Uncharacteri 35.7 8.5 0.00018 29.4 -0.8 44 22-78 12-62 (64)
82 PLN03142 Probable chromatin-re 35.3 27 0.00059 40.1 2.6 33 12-44 924-956 (1033)
83 PF07750 GcrA: GcrA cell cycle 34.8 32 0.0007 30.8 2.5 39 69-108 2-40 (162)
84 smart00344 HTH_ASNC helix_turn 31.8 66 0.0014 25.8 3.8 45 73-118 3-48 (108)
85 PF04504 DUF573: Protein of un 30.3 1.1E+02 0.0023 25.1 4.7 18 68-85 5-22 (98)
86 KOG4468 Polycomb-group transcr 29.5 38 0.00083 36.5 2.4 47 14-61 88-143 (782)
87 KOG3554 Histone deacetylase co 28.4 54 0.0012 34.5 3.2 41 69-109 287-328 (693)
88 KOG0384 Chromodomain-helicase 25.4 37 0.0008 39.5 1.5 26 68-93 1134-1160(1373)
89 TIGR02985 Sig70_bacteroi1 RNA 24.8 1.1E+02 0.0025 25.4 4.2 27 85-112 128-154 (161)
90 PF09197 Rap1-DNA-bind: Rap1, 24.6 90 0.002 26.3 3.3 47 69-115 1-78 (105)
91 cd08319 Death_RAIDD Death doma 23.7 47 0.001 26.5 1.4 22 75-96 2-23 (83)
92 COG1522 Lrp Transcriptional re 22.5 1.1E+02 0.0023 26.0 3.6 45 73-118 8-53 (154)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=7.4e-36 Score=295.76 Aligned_cols=132 Identities=63% Similarity=1.177 Sum_probs=127.1
Q ss_pred CCCCCcCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCCCCCCCCHHHHHHHHH
Q 035629 1 MGRAPCCDKNGLKKGPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFSFEEEETIIQ 80 (352)
Q Consensus 1 mgR~~~~~kp~lkkg~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EEDe~Ll~ 80 (352)
|||++||+|.+++||+||+|||++|+++|.+||.++|..||+.++.+|+++|||+||.++|+|.+++++||+|||++|++
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 99999999999999999999999999999999999999999998779999999999999999999999999999999999
Q ss_pred HHHHhCCcchhhcccCCCCCHHHHHHHHHHhhhhhhhhCCCCCCCchhhhhH
Q 035629 81 LHSILGNKWSAIAARLPGRTDNEIKNYWNTHIRKRLLRNGIDPVTHAPRLDL 132 (352)
Q Consensus 81 lv~~~G~~W~~IA~~lpgRt~~qcr~RW~~~L~~~l~r~~~~p~e~~~~ldL 132 (352)
++.+||.+|.+||+.|+|||+.+||+||+.+|++.+++.++.|.++.++...
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 9999999999999999999999999999999999999989998887776554
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=3.1e-35 Score=273.73 Aligned_cols=127 Identities=66% Similarity=1.297 Sum_probs=122.6
Q ss_pred CCCcCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCCCCCCCCHHHHHHHHHHH
Q 035629 3 RAPCCDKNGLKKGPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFSFEEEETIIQLH 82 (352)
Q Consensus 3 R~~~~~kp~lkkg~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EEDe~Ll~lv 82 (352)
|.|||+|++++|++||+|||++|+++|++||..+|..||+.++.+|+++|||+||.++|+|.+++++||.|||++|++++
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 67999999999999999999999999999999999999999966999999999999999999999999999999999999
Q ss_pred HHhCCcchhhcccCCCCCHHHHHHHHHHhhhhhhhhCCCCCCCchhh
Q 035629 83 SILGNKWSAIAARLPGRTDNEIKNYWNTHIRKRLLRNGIDPVTHAPR 129 (352)
Q Consensus 83 ~~~G~~W~~IA~~lpgRt~~qcr~RW~~~L~~~l~r~~~~p~e~~~~ 129 (352)
.+||++|..||..|+|||+.+|++||+.++++.+.+.++.|.+..++
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 99999999999999999999999999999999999999999887764
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.97 E-value=4.3e-31 Score=248.26 Aligned_cols=119 Identities=66% Similarity=1.133 Sum_probs=111.2
Q ss_pred CCCCCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCCCCCCCCHHHHHHHHHHHHHhCCc
Q 035629 9 KNGLKKGPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFSFEEEETIIQLHSILGNK 88 (352)
Q Consensus 9 kp~lkkg~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EEDe~Ll~lv~~~G~~ 88 (352)
++.+.||+||+|||++|+++|.+||+++|..||+.++++|++++||.||.+||+|+++||.||+|||++|++|+..+|++
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 chhhcccCCCCCHHHHHHHHHHhhhhhhhhCCCCCCCch
Q 035629 89 WSAIAARLPGRTDNEIKNYWNTHIRKRLLRNGIDPVTHA 127 (352)
Q Consensus 89 W~~IA~~lpgRt~~qcr~RW~~~L~~~l~r~~~~p~e~~ 127 (352)
|..||++|||||++.++++|+.+|++++...+.++.+..
T Consensus 84 Ws~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~~~~~~~~ 122 (238)
T KOG0048|consen 84 WSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMGIDPSTHR 122 (238)
T ss_pred HHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcCCCCCccc
Confidence 999999999999999999999999999988765555443
No 4
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.93 E-value=3.1e-27 Score=222.16 Aligned_cols=105 Identities=20% Similarity=0.248 Sum_probs=97.1
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhC-CcchhhcccCC-CCCHHHHHHHHHHhhhhhhhhCCCCCCCchhhhhHHHHHHHHH
Q 035629 63 PDIKRGRFSFEEEETIIQLHSILG-NKWSAIAARLP-GRTDNEIKNYWNTHIRKRLLRNGIDPVTHAPRLDLLDLSAILR 140 (352)
Q Consensus 63 p~lkkg~WT~EEDe~Ll~lv~~~G-~~W~~IA~~lp-gRt~~qcr~RW~~~L~~~l~r~~~~p~e~~~~ldL~~~~~~~~ 140 (352)
+.+.||+||+|||++|+++|++|| ++|..||+.++ +|++++||.||.|||+|.++++.|+++|+..++.|+.++
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~---- 80 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALL---- 80 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHH----
Confidence 345589999999999999999999 78999999998 999999999999999999999999999999999999988
Q ss_pred hhhcCCCccHHHHHhhcCCCCccccCChHHhhhhccc
Q 035629 141 ATLCGSSASLLNMSSLLGGSTHQALLNPELLRLASTL 177 (352)
Q Consensus 141 s~l~~~G~~Ws~Is~~L~GRT~~~ikNR~l~rl~~~~ 177 (352)
|++|+.||++||||||++|||.|..++.+.+
T Consensus 81 ------GNrWs~IA~~LPGRTDNeIKN~Wnt~lkkkl 111 (238)
T KOG0048|consen 81 ------GNRWSLIAGRLPGRTDNEVKNHWNTHLKKKL 111 (238)
T ss_pred ------CcHHHHHHhhCCCcCHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999966654433
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.93 E-value=1.3e-26 Score=236.52 Aligned_cols=162 Identities=20% Similarity=0.282 Sum_probs=148.4
Q ss_pred CCcCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccccccCcccccccccc----------------------------
Q 035629 4 APCCDKNGLKKGPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRL---------------------------- 55 (352)
Q Consensus 4 ~~~~~kp~lkkg~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~---------------------------- 55 (352)
|...++|+++|..|+.|||++|+.+...++..+|.+||..|++.|+..||..
T Consensus 243 W~n~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~ 322 (939)
T KOG0049|consen 243 WYNELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKI 322 (939)
T ss_pred HhhhcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHH
Confidence 4677899999999999999999999999999999999999998899999983
Q ss_pred --------------------------ccccccCCCCCCCCCCHHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHH
Q 035629 56 --------------------------RWTNYLRPDIKRGRFSFEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYW 108 (352)
Q Consensus 56 --------------------------Rw~~~L~p~lkkg~WT~EEDe~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~RW 108 (352)
||.+.|+|++++|+||.+||.+|+.+|.+|| ..|.+|-..+|||++.|||+||
T Consensus 323 ~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY 402 (939)
T KOG0049|consen 323 TSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERY 402 (939)
T ss_pred hhccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHH
Confidence 9999999999999999999999999999999 5699999999999999999999
Q ss_pred HHhhhhhhhhCCCCCCCchhhhhHHHHHHHHHhhhcCCCccHHHHHhhcCCCCccccCChHHhhhh
Q 035629 109 NTHIRKRLLRNGIDPVTHAPRLDLLDLSAILRATLCGSSASLLNMSSLLGGSTHQALLNPELLRLA 174 (352)
Q Consensus 109 ~~~L~~~l~r~~~~p~e~~~~ldL~~~~~~~~s~l~~~G~~Ws~Is~~L~GRT~~~ikNR~l~rl~ 174 (352)
.+.|...++.+.|+..+++.++.++..++.. +|++|+.+||.||..+...|-+++++
T Consensus 403 ~nvL~~s~K~~rW~l~edeqL~~~V~~YG~g---------~WakcA~~Lp~~t~~q~~rrR~R~~~ 459 (939)
T KOG0049|consen 403 TNVLNRSAKVERWTLVEDEQLLYAVKVYGKG---------NWAKCAMLLPKKTSRQLRRRRLRLIA 459 (939)
T ss_pred HHHHHHhhccCceeecchHHHHHHHHHHccc---------hHHHHHHHccccchhHHHHHHHHHHH
Confidence 9999999999999999999999999988443 79999999999999777665544333
No 6
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.92 E-value=1.3e-25 Score=209.33 Aligned_cols=104 Identities=21% Similarity=0.318 Sum_probs=95.0
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhC-CcchhhcccC-CCCCHHHHHHHHHHhhhhhhhhCCCCCCCchhhhhHHHHHHHH
Q 035629 62 RPDIKRGRFSFEEEETIIQLHSILG-NKWSAIAARL-PGRTDNEIKNYWNTHIRKRLLRNGIDPVTHAPRLDLLDLSAIL 139 (352)
Q Consensus 62 ~p~lkkg~WT~EEDe~Ll~lv~~~G-~~W~~IA~~l-pgRt~~qcr~RW~~~L~~~l~r~~~~p~e~~~~ldL~~~~~~~ 139 (352)
++.+++++||+|||++|+++|++|| .+|..||+.+ ++|+++|||+||.++|+|.++++.|+.+|+..++.++..+
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~--- 96 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLL--- 96 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhc---
Confidence 4578999999999999999999999 7899999998 6999999999999999999999999999999888887776
Q ss_pred HhhhcCCCccHHHHHhhcCCCCccccCChHHhhhhc
Q 035629 140 RATLCGSSASLLNMSSLLGGSTHQALLNPELLRLAS 175 (352)
Q Consensus 140 ~s~l~~~G~~Ws~Is~~L~GRT~~~ikNR~l~rl~~ 175 (352)
|++|+.||+.|+|||+++|||||...+.+
T Consensus 97 -------GnKWs~IAk~LpGRTDnqIKNRWns~LrK 125 (249)
T PLN03212 97 -------GNRWSLIAGRIPGRTDNEIKNYWNTHLRK 125 (249)
T ss_pred -------cccHHHHHhhcCCCCHHHHHHHHHHHHhH
Confidence 88999999999999999999999544333
No 7
>PLN03091 hypothetical protein; Provisional
Probab=99.90 E-value=2.2e-24 Score=214.36 Aligned_cols=100 Identities=18% Similarity=0.301 Sum_probs=93.5
Q ss_pred cCCCCCCCCCCHHHHHHHHHHHHHhC-CcchhhcccC-CCCCHHHHHHHHHHhhhhhhhhCCCCCCCchhhhhHHHHHHH
Q 035629 61 LRPDIKRGRFSFEEEETIIQLHSILG-NKWSAIAARL-PGRTDNEIKNYWNTHIRKRLLRNGIDPVTHAPRLDLLDLSAI 138 (352)
Q Consensus 61 L~p~lkkg~WT~EEDe~Ll~lv~~~G-~~W~~IA~~l-pgRt~~qcr~RW~~~L~~~l~r~~~~p~e~~~~ldL~~~~~~ 138 (352)
.+..++|++||+|||++|+++|.+|| .+|..||+.+ ++|+++|||+||.++|+|.++++.|+++|+..+++++..+
T Consensus 8 ~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~-- 85 (459)
T PLN03091 8 YKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVL-- 85 (459)
T ss_pred cCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHh--
Confidence 34578999999999999999999999 6899999988 5999999999999999999999999999999999888876
Q ss_pred HHhhhcCCCccHHHHHhhcCCCCccccCChHH
Q 035629 139 LRATLCGSSASLLNMSSLLGGSTHQALLNPEL 170 (352)
Q Consensus 139 ~~s~l~~~G~~Ws~Is~~L~GRT~~~ikNR~l 170 (352)
|++|+.||+.|+|||+++|||||.
T Consensus 86 --------GnKWskIAk~LPGRTDnqIKNRWn 109 (459)
T PLN03091 86 --------GNRWSQIAAQLPGRTDNEIKNLWN 109 (459)
T ss_pred --------CcchHHHHHhcCCCCHHHHHHHHH
Confidence 889999999999999999999994
No 8
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.78 E-value=5.8e-20 Score=188.21 Aligned_cols=110 Identities=25% Similarity=0.452 Sum_probs=104.2
Q ss_pred CCCCCcCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCCCCCCCCHHHHHHHHH
Q 035629 1 MGRAPCCDKNGLKKGPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFSFEEEETIIQ 80 (352)
Q Consensus 1 mgR~~~~~kp~lkkg~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EEDe~Ll~ 80 (352)
+|||.....|++++|+||++||.+|..+|.+||..+|.+|-..+| +|+..|||+||.++|+...|++.||-.||+.|+.
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 589999999999999999999999999999999999999999999 9999999999999999999999999999999999
Q ss_pred HHHHhC-CcchhhcccCCCCCH---HHHHHHHHHh
Q 035629 81 LHSILG-NKWSAIAARLPGRTD---NEIKNYWNTH 111 (352)
Q Consensus 81 lv~~~G-~~W~~IA~~lpgRt~---~qcr~RW~~~ 111 (352)
+|++|| ++|.+||..||+||+ ..||.|+..+
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 5677776543
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=99.59 E-value=4.1e-16 Score=116.14 Aligned_cols=60 Identities=40% Similarity=0.882 Sum_probs=55.2
Q ss_pred CCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCCCCCCCCHHHHHHH
Q 035629 17 WTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFSFEEEETI 78 (352)
Q Consensus 17 WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EEDe~L 78 (352)
||+|||++|+.+|.+|| .+|..||+.|+ .|++.+|+.||.++|.+.+++++||++||++|
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 99999999999999999 69999999997 89999999999999999999999999999987
No 10
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.57 E-value=2.1e-15 Score=155.84 Aligned_cols=161 Identities=24% Similarity=0.421 Sum_probs=125.0
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCC--CCCCCCHHHHHHHHHHHH-------
Q 035629 13 KKGPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYLRPDI--KRGRFSFEEEETIIQLHS------- 83 (352)
Q Consensus 13 kkg~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~l--kkg~WT~EEDe~Ll~lv~------- 83 (352)
.||+||+||++.|..+|..+| ++|.+|++.|+ |.+..|++||+++...+- +++.||.||++.|+++|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g-~~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~ 459 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHG-NDWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREAL 459 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhc-ccHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhh
Confidence 899999999999999999999 79999999997 999999999999999885 889999999999999996
Q ss_pred Hh-------C------------CcchhhcccCCCCCHHHHHHHHHHhhhhhhhhCC-CCCCCchhhhhHHHHHHHHHhhh
Q 035629 84 IL-------G------------NKWSAIAARLPGRTDNEIKNYWNTHIRKRLLRNG-IDPVTHAPRLDLLDLSAILRATL 143 (352)
Q Consensus 84 ~~-------G------------~~W~~IA~~lpgRt~~qcr~RW~~~L~~~l~r~~-~~p~e~~~~ldL~~~~~~~~s~l 143 (352)
.+ | =+|..|++.+..|+.-|||-+|+.++......+. +.. ......|+.....+. ..
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~~~~~--~~~~v~l~ErL~dl~-~~ 536 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKRQESK--GSDMVWLLERLSDLD-LT 536 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhcccccc--cchhHHHHHHHHhcc-cc
Confidence 22 0 1399999988999999999999998876655433 332 123333333332221 11
Q ss_pred cCCCccHHHHHhhcCCCC-ccccCChHHhhhhccccCc
Q 035629 144 CGSSASLLNMSSLLGGST-HQALLNPELLRLASTLLSL 180 (352)
Q Consensus 144 ~~~G~~Ws~Is~~L~GRT-~~~ikNR~l~rl~~~~~~~ 180 (352)
...-..|..|+...||.. ..+|+-+|. ++.+...+.
T Consensus 537 e~~~IDW~~l~~~~~g~~~~~e~r~q~~-~lk~~I~~~ 573 (607)
T KOG0051|consen 537 EESPIDWKSLAEYAPGESTGEELRLQFE-RLKKKIPGW 573 (607)
T ss_pred cCCccCHHHHHHhCCCCCcHHHHHHHHH-hHhhccCCC
Confidence 233348999999999988 888888883 444444443
No 11
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.57 E-value=2.6e-16 Score=158.49 Aligned_cols=104 Identities=26% Similarity=0.573 Sum_probs=99.0
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCCCCCCCCHHHHHHHHHHHHHhCCcchh
Q 035629 12 LKKGPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFSFEEEETIIQLHSILGNKWSA 91 (352)
Q Consensus 12 lkkg~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EEDe~Ll~lv~~~G~~W~~ 91 (352)
++.|.|+.-||+.|..+|.+||.+.|.+|++.+. ..+++||+.||..+++|.+++..|+.|||++|+.+...+...|..
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 5778999999999999999999999999999998 999999999999999999999999999999999999999999999
Q ss_pred hcccCCCCCHHHHHHHHHHhhhhhhh
Q 035629 92 IAARLPGRTDNEIKNYWNTHIRKRLL 117 (352)
Q Consensus 92 IA~~lpgRt~~qcr~RW~~~L~~~l~ 117 (352)
||..| ||++.||-+||.+.|...+.
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s 108 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVS 108 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHh
Confidence 99988 99999999999999875543
No 12
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.55 E-value=4.1e-15 Score=152.30 Aligned_cols=107 Identities=30% Similarity=0.522 Sum_probs=102.7
Q ss_pred CCCCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCCCCCCCCHHHHHHHHHHHHHhCCcc
Q 035629 10 NGLKKGPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFSFEEEETIIQLHSILGNKW 89 (352)
Q Consensus 10 p~lkkg~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EEDe~Ll~lv~~~G~~W 89 (352)
..++.|.|+..||+.|..+|+++|+++|..||..+. .|++++|+.||.++++|.+++..|+.|||+.|+.+..++|..|
T Consensus 16 ~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~w 94 (512)
T COG5147 16 TKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQW 94 (512)
T ss_pred ceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCchh
Confidence 457889999999999999999999999999999998 7999999999999999999999999999999999999999999
Q ss_pred hhhcccCCCCCHHHHHHHHHHhhhhhhh
Q 035629 90 SAIAARLPGRTDNEIKNYWNTHIRKRLL 117 (352)
Q Consensus 90 ~~IA~~lpgRt~~qcr~RW~~~L~~~l~ 117 (352)
..||..+++|++.+|.+||.+.+.....
T Consensus 95 stia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 95 STIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhccccCccchHHHHHHHHHHhhhhhc
Confidence 9999999999999999999999988776
No 13
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.47 E-value=2.1e-14 Score=106.94 Aligned_cols=59 Identities=29% Similarity=0.556 Sum_probs=51.1
Q ss_pred CCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhhhhhhhCCCCCCCchh
Q 035629 70 FSFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHIRKRLLRNGIDPVTHAP 128 (352)
Q Consensus 70 WT~EEDe~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~RW~~~L~~~l~r~~~~p~e~~~ 128 (352)
||+|||++|+++|.+||.+|..||..|+.||..+|+.||.++|++.+.++.|++.++..
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~ 59 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQR 59 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhc
Confidence 99999999999999999999999999966999999999999999999898777766543
No 14
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.43 E-value=9.7e-14 Score=143.68 Aligned_cols=156 Identities=21% Similarity=0.203 Sum_probs=128.3
Q ss_pred CCcCCCCHHHHHHHHHHHHHhC----C-------------------CCccccccccCccccccccccccccccCCCC-CC
Q 035629 12 LKKGPWTPEEDHKLISYIQLHG----P-------------------GNWRNLPKNAGLQRCGKSCRLRWTNYLRPDI-KR 67 (352)
Q Consensus 12 lkkg~WT~EED~~L~~~V~k~g----~-------------------~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~l-kk 67 (352)
++-+.|+.+||+.|...|..|- - +-|..|.+.|| .|+...++++-++...+-- ++
T Consensus 306 ~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~~r 384 (607)
T KOG0051|consen 306 INLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFENKR 384 (607)
T ss_pred hhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCcccccc
Confidence 3448999999999999998871 1 23788899999 5999999885444444433 99
Q ss_pred CCCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhhhh--hhhCCCCCCCchhhhhHHHHHHHH------
Q 035629 68 GRFSFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHIRKR--LLRNGIDPVTHAPRLDLLDLSAIL------ 139 (352)
Q Consensus 68 g~WT~EEDe~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~RW~~~L~~~--l~r~~~~p~e~~~~ldL~~~~~~~------ 139 (352)
|.||+||++.|..+|.++|+.|..|+..| ||.+..||+||+++.... .+++.|+-+|.+.+++++......
T Consensus 385 g~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~ 463 (607)
T KOG0051|consen 385 GKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREALQPQA 463 (607)
T ss_pred CCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhhcccc
Confidence 99999999999999999999999999988 999999999999999888 488999999999999999643221
Q ss_pred -------H---hhhcCCCccHHHHHhhcCCCCccccCChH
Q 035629 140 -------R---ATLCGSSASLLNMSSLLGGSTHQALLNPE 169 (352)
Q Consensus 140 -------~---s~l~~~G~~Ws~Is~~L~GRT~~~ikNR~ 169 (352)
. +.....+..|+.|+..++.|+.-+|+-.|
T Consensus 464 ~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw 503 (607)
T KOG0051|consen 464 SNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKW 503 (607)
T ss_pred cccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHH
Confidence 0 01111456899999999999999999988
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=99.41 E-value=1.7e-13 Score=98.13 Aligned_cols=46 Identities=30% Similarity=0.675 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCc-chhhcccCC-CCCHHHHHHHHHHhh
Q 035629 67 RGRFSFEEEETIIQLHSILGNK-WSAIAARLP-GRTDNEIKNYWNTHI 112 (352)
Q Consensus 67 kg~WT~EEDe~Ll~lv~~~G~~-W~~IA~~lp-gRt~~qcr~RW~~~L 112 (352)
|++||+|||++|+++|.+||.+ |.+||..|+ +||..||+.||++++
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 6899999999999999999977 999999999 999999999999875
No 16
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.29 E-value=3.9e-13 Score=96.20 Aligned_cols=48 Identities=42% Similarity=0.826 Sum_probs=43.2
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCcccccccccccccccc
Q 035629 14 KGPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYL 61 (352)
Q Consensus 14 kg~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L 61 (352)
|++||+|||++|+++|.+||.++|..||..|+.+||+.||+.||.++|
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 689999999999999999997779999999988999999999998764
No 17
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.16 E-value=4e-11 Score=83.54 Aligned_cols=47 Identities=38% Similarity=0.806 Sum_probs=44.3
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhh
Q 035629 67 RGRFSFEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHIR 113 (352)
Q Consensus 67 kg~WT~EEDe~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~RW~~~L~ 113 (352)
+++||++||++|+.++..|| .+|..||..|++||+.+|+.||+++++
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
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.13 E-value=1.2e-11 Score=126.95 Aligned_cols=98 Identities=22% Similarity=0.315 Sum_probs=90.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhhhhhhhCCCCCCCchhhhhHHHHHHHHHhh
Q 035629 64 DIKRGRFSFEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHIRKRLLRNGIDPVTHAPRLDLLDLSAILRAT 142 (352)
Q Consensus 64 ~lkkg~WT~EEDe~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~RW~~~L~~~l~r~~~~p~e~~~~ldL~~~~~~~~s~ 142 (352)
..+.|.|+..||+.|+.+|++|| ++|.+||..+..|++++|+.||++++.+.+++..|..+++..+++|....
T Consensus 17 ~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~------ 90 (512)
T COG5147 17 KRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKEL------ 90 (512)
T ss_pred eecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhcccccccHHHHHHHHHHHHhc------
Confidence 45678999999999999999999 78999999998899999999999999999999999888888888887776
Q ss_pred hcCCCccHHHHHhhcCCCCccccCChHHh
Q 035629 143 LCGSSASLLNMSSLLGGSTHQALLNPELL 171 (352)
Q Consensus 143 l~~~G~~Ws~Is~~L~GRT~~~ikNR~l~ 171 (352)
|++|+.|+..++|||..+|.+||+.
T Consensus 91 ----~~~wstia~~~d~rt~~~~~ery~~ 115 (512)
T COG5147 91 ----GTQWSTIADYKDRRTAQQCVERYVN 115 (512)
T ss_pred ----CchhhhhccccCccchHHHHHHHHH
Confidence 8899999999999999999999964
No 19
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.04 E-value=2.8e-10 Score=78.10 Aligned_cols=44 Identities=32% Similarity=0.682 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhh
Q 035629 69 RFSFEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHI 112 (352)
Q Consensus 69 ~WT~EEDe~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~RW~~~L 112 (352)
+||.|||++|+.++..|| .+|..||..|++|++.+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 99999999999999999999998753
No 20
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.02 E-value=8.2e-11 Score=119.24 Aligned_cols=94 Identities=23% Similarity=0.355 Sum_probs=86.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhhhhhhhCCCCCCCchhhhhHHHHHHHHHhhh
Q 035629 65 IKRGRFSFEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHIRKRLLRNGIDPVTHAPRLDLLDLSAILRATL 143 (352)
Q Consensus 65 lkkg~WT~EEDe~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~RW~~~L~~~l~r~~~~p~e~~~~ldL~~~~~~~~s~l 143 (352)
++.|-|+.-||++|..+|++|| +.|++|+..++..+.+||+.||..+|+|.+++-.|+-+++..++.+..+.
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~------- 77 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLE------- 77 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhc-------
Confidence 4668899999999999999999 77999999999999999999999999999999888888888888877776
Q ss_pred cCCCccHHHHHhhcCCCCccccCChH
Q 035629 144 CGSSASLLNMSSLLGGSTHQALLNPE 169 (352)
Q Consensus 144 ~~~G~~Ws~Is~~L~GRT~~~ikNR~ 169 (352)
-+.|.-|+..+ ||+.++|..||
T Consensus 78 ---p~qwrtIa~i~-gr~~~qc~eRy 99 (617)
T KOG0050|consen 78 ---PTQWRTIADIM-GRTSQQCLERY 99 (617)
T ss_pred ---CCccchHHHHh-hhhHHHHHHHH
Confidence 55799999988 69999999999
No 21
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.91 E-value=4.2e-10 Score=78.31 Aligned_cols=48 Identities=42% Similarity=0.851 Sum_probs=44.5
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccC
Q 035629 14 KGPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYLR 62 (352)
Q Consensus 14 kg~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~ 62 (352)
++.||++||++|+.++..||..+|..||..|+ +|++.+|+.||..++.
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 47899999999999999999779999999999 9999999999987654
No 22
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.74 E-value=2.8e-09 Score=73.05 Aligned_cols=44 Identities=41% Similarity=0.833 Sum_probs=41.4
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccc
Q 035629 16 PWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNY 60 (352)
Q Consensus 16 ~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~ 60 (352)
+||++||+.|+.++.++|..+|..||+.++ +|++.+|+.||.++
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 599999999999999999789999999998 89999999999764
No 23
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.78 E-value=2.9e-05 Score=78.27 Aligned_cols=49 Identities=22% Similarity=0.405 Sum_probs=44.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhh
Q 035629 65 IKRGRFSFEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHIR 113 (352)
Q Consensus 65 lkkg~WT~EEDe~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~RW~~~L~ 113 (352)
+-...||.+|+-+|++++..|| ++|..||.+++.|+...|+++|.++.-
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 3456899999999999999999 999999999999999999999987763
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=97.75 E-value=5.8e-05 Score=56.35 Aligned_cols=47 Identities=15% Similarity=0.227 Sum_probs=41.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhC-Ccc---hhhcccCC-CC-CHHHHHHHHHHhh
Q 035629 66 KRGRFSFEEEETIIQLHSILG-NKW---SAIAARLP-GR-TDNEIKNYWNTHI 112 (352)
Q Consensus 66 kkg~WT~EEDe~Ll~lv~~~G-~~W---~~IA~~lp-gR-t~~qcr~RW~~~L 112 (352)
++-.||+||..+++++|+.+| ++| .+|++.|. .| |..||+.+...+.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 356899999999999999999 599 99999884 46 9999999988765
No 25
>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=97.61 E-value=2.5e-05 Score=58.34 Aligned_cols=49 Identities=12% Similarity=0.295 Sum_probs=42.9
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCc---cccccccCccc-ccccccccccccc
Q 035629 13 KKGPWTPEEDHKLISYIQLHGPGNW---RNLPKNAGLQR-CGKSCRLRWTNYL 61 (352)
Q Consensus 13 kkg~WT~EED~~L~~~V~k~g~~~W---~~IA~~l~~~R-t~~qCr~Rw~~~L 61 (352)
.|-.||+||..+++++|..+|.++| ..|++.|...| |..||+.|++.+.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 3567999999999999999998899 99999887556 9999999887763
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.49 E-value=3.1e-05 Score=78.05 Aligned_cols=90 Identities=19% Similarity=0.381 Sum_probs=66.8
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCC-CCCC-------CCCHHHHHHHHHH-H
Q 035629 12 LKKGPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYLRPD-IKRG-------RFSFEEEETIIQL-H 82 (352)
Q Consensus 12 lkkg~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~-lkkg-------~WT~EEDe~Ll~l-v 82 (352)
+-...||++|+-.|++++..||.|||..||.++| .|+..+|+++|.+++..+ +-.- .=...||.....- +
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~fv~s~~~~~~~i~~~~~~~q~e~~~~~k~~~ 148 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHFVNSPIFPLPDISLGIGVNQDEDAAMAKNRA 148 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHHhcCccccccccccccCcchHHHhhhccccc
Confidence 4456799999999999999999999999999999 999999999999875432 1111 2234566665554 4
Q ss_pred HHhCC-------------cchhhcccCCCCCHH
Q 035629 83 SILGN-------------KWSAIAARLPGRTDN 102 (352)
Q Consensus 83 ~~~G~-------------~W~~IA~~lpgRt~~ 102 (352)
..++. .=.+|+..||+|...
T Consensus 149 ~~~~~~~~~pr~p~~~~p~~~e~~gyMp~R~dF 181 (438)
T KOG0457|consen 149 EPFQPTDLVPRKPGVSNPLRREISGYMPGRLDF 181 (438)
T ss_pred ccCCCCCCCCCCCCCCCchHHHHhhhCccchhh
Confidence 44432 135888889999754
No 27
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.32 E-value=0.00019 Score=63.96 Aligned_cols=51 Identities=20% Similarity=0.340 Sum_probs=44.8
Q ss_pred CCCCCCHHHHHHHHHHHHHh---CC----cchhhcccCCCCCHHHHHHHHHHhhhhhhh
Q 035629 66 KRGRFSFEEEETIIQLHSIL---GN----KWSAIAARLPGRTDNEIKNYWNTHIRKRLL 117 (352)
Q Consensus 66 kkg~WT~EEDe~Ll~lv~~~---G~----~W~~IA~~lpgRt~~qcr~RW~~~L~~~l~ 117 (352)
+...||.|||.+|.+.|..| |+ -+..|+..| +||+.+|.-||+.++++...
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~ 60 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYE 60 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHH
Confidence 45689999999999999998 42 289999999 99999999999999998753
No 28
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.11 E-value=0.00037 Score=70.97 Aligned_cols=44 Identities=14% Similarity=0.244 Sum_probs=41.6
Q ss_pred CCCCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHH
Q 035629 67 RGRFSFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNT 110 (352)
Q Consensus 67 kg~WT~EEDe~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~RW~~ 110 (352)
.-.||.+|..+|++.|+.||..|.+||.++.+|+..||..||.+
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 34799999999999999999999999999999999999999974
No 29
>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=97.09 E-value=0.00054 Score=52.52 Aligned_cols=50 Identities=18% Similarity=0.380 Sum_probs=33.0
Q ss_pred CCCCCHHHHHHHHHHHHHhC-------Cc--chhhcccCC-CCCHHHHHHHHHHhhhhhh
Q 035629 67 RGRFSFEEEETIIQLHSILG-------NK--WSAIAARLP-GRTDNEIKNYWNTHIRKRL 116 (352)
Q Consensus 67 kg~WT~EEDe~Ll~lv~~~G-------~~--W~~IA~~lp-gRt~~qcr~RW~~~L~~~l 116 (352)
|.+||.|||++|++.|.++. ++ |.++++.-+ .+|-.+.|+||...|.+..
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 45899999999999997652 11 999999887 8999999999999987764
No 30
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.09 E-value=0.00054 Score=71.25 Aligned_cols=45 Identities=11% Similarity=0.302 Sum_probs=42.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHH
Q 035629 66 KRGRFSFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNT 110 (352)
Q Consensus 66 kkg~WT~EEDe~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~RW~~ 110 (352)
-+..||.+|..+|+++|+.||.+|.+||.++.+||..+|..++..
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 356899999999999999999999999999999999999999864
No 31
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.85 E-value=0.0008 Score=53.22 Aligned_cols=49 Identities=29% Similarity=0.490 Sum_probs=34.5
Q ss_pred CCCCCHHHHHHHHHHHHH------hC--C------cchhhcccC----CCCCHHHHHHHHHHhhhhh
Q 035629 67 RGRFSFEEEETIIQLHSI------LG--N------KWSAIAARL----PGRTDNEIKNYWNTHIRKR 115 (352)
Q Consensus 67 kg~WT~EEDe~Ll~lv~~------~G--~------~W~~IA~~l----pgRt~~qcr~RW~~~L~~~ 115 (352)
|..||.+|...||+++.. ++ + -|..||..| ..||+.||+.||.++.+.-
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 357999999999999987 21 1 299999988 3599999999998865443
No 32
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=96.53 E-value=0.0047 Score=57.16 Aligned_cols=100 Identities=22% Similarity=0.352 Sum_probs=70.1
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccC--ccccccccccccccccCC-CC--------------------CCCCCCH
Q 035629 16 PWTPEEDHKLISYIQLHGPGNWRNLPKNAG--LQRCGKSCRLRWTNYLRP-DI--------------------KRGRFSF 72 (352)
Q Consensus 16 ~WT~EED~~L~~~V~k~g~~~W~~IA~~l~--~~Rt~~qCr~Rw~~~L~p-~l--------------------kkg~WT~ 72 (352)
+|++++|-.|+.+|..-. +-+.|+..+. ..-|...+..||..+|.. .+ .+.+||.
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 599999999999997765 6666655443 234445556799876542 11 3678999
Q ss_pred HHHHHHHHHHHHhCC---cchhhcc----cC-CCCCHHHHHHHHHHhhhhhhh
Q 035629 73 EEEETIIQLHSILGN---KWSAIAA----RL-PGRTDNEIKNYWNTHIRKRLL 117 (352)
Q Consensus 73 EEDe~Ll~lv~~~G~---~W~~IA~----~l-pgRt~~qcr~RW~~~L~~~l~ 117 (352)
+||++|......... .+.+|=. .+ ++||+++...+|....+..+.
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~LL 131 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHLL 131 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhchh
Confidence 999999997766542 3655532 23 689999999999876555443
No 33
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.51 E-value=0.00082 Score=68.53 Aligned_cols=46 Identities=20% Similarity=0.567 Sum_probs=42.7
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccc
Q 035629 13 KKGPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNY 60 (352)
Q Consensus 13 kkg~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~ 60 (352)
....||.+|..+|++.|+.|| .+|.+||.+++ .|+..||..|+.++
T Consensus 278 ~dk~WS~qE~~LLLEGIe~yg-DdW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYG-DDWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhh-hhHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 556899999999999999999 69999999999 99999999998764
No 34
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.47 E-value=0.0015 Score=68.06 Aligned_cols=48 Identities=21% Similarity=0.569 Sum_probs=43.9
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccc
Q 035629 11 GLKKGPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNY 60 (352)
Q Consensus 11 ~lkkg~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~ 60 (352)
...++.||.+|+.+|+++|.+|| .+|.+||.+++ .|+..||..|+.++
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~-ddW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYG-DDWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhc-ccHHHHHhccC-CCCHHHHHHHHHhc
Confidence 44678899999999999999999 69999999999 99999999998764
No 35
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.27 E-value=0.0032 Score=56.83 Aligned_cols=50 Identities=16% Similarity=0.294 Sum_probs=42.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCc-------chhhcccCCCCCHHHHHHHHHHhhhhhh
Q 035629 66 KRGRFSFEEEETIIQLHSILGNK-------WSAIAARLPGRTDNEIKNYWNTHIRKRL 116 (352)
Q Consensus 66 kkg~WT~EEDe~Ll~lv~~~G~~-------W~~IA~~lpgRt~~qcr~RW~~~L~~~l 116 (352)
+...||.|||.+|.+.|-.|+.. ...++..| +||..+|..||+.++++..
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Y 60 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQY 60 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHH
Confidence 56789999999999999998732 67777777 9999999999999998775
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=96.26 E-value=0.00097 Score=59.48 Aligned_cols=50 Identities=26% Similarity=0.572 Sum_probs=43.0
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCC------CCccccccccCccccccccccccccccCC
Q 035629 12 LKKGPWTPEEDHKLISYIQLHGP------GNWRNLPKNAGLQRCGKSCRLRWTNYLRP 63 (352)
Q Consensus 12 lkkg~WT~EED~~L~~~V~k~g~------~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p 63 (352)
.+...||.|||.+|.+.|-+|-. ....+|++.|+ ||+..|.-||..+++.
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 46778999999999999999931 26899999997 9999999999887763
No 37
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.10 E-value=0.0012 Score=50.61 Aligned_cols=52 Identities=27% Similarity=0.486 Sum_probs=33.8
Q ss_pred cCCCCHHHHHHHHHHHHHhCC------C--CccccccccCccccccccccccccccCCCC
Q 035629 14 KGPWTPEEDHKLISYIQLHGP------G--NWRNLPKNAGLQRCGKSCRLRWTNYLRPDI 65 (352)
Q Consensus 14 kg~WT~EED~~L~~~V~k~g~------~--~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~l 65 (352)
|.++|+|||+.|+.+|..+.. | =|.++++.-++.+|..+-++||.+.|.+..
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 567999999999999976631 2 399999888778999999999999887643
No 38
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.98 E-value=0.0055 Score=60.10 Aligned_cols=46 Identities=26% Similarity=0.419 Sum_probs=43.3
Q ss_pred CCCCHHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhh
Q 035629 68 GRFSFEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHIR 113 (352)
Q Consensus 68 g~WT~EEDe~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~RW~~~L~ 113 (352)
-.|+.+|+.+|++...-.| ++|..||.+++.|+...|+++|.++..
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 3699999999999999999 999999999999999999999988775
No 39
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.94 E-value=0.012 Score=45.70 Aligned_cols=48 Identities=31% Similarity=0.497 Sum_probs=39.8
Q ss_pred CCCCCHHHHHHHHHHHHHhC----C-------------cchhhcccC-----CCCCHHHHHHHHHHhhhh
Q 035629 67 RGRFSFEEEETIIQLHSILG----N-------------KWSAIAARL-----PGRTDNEIKNYWNTHIRK 114 (352)
Q Consensus 67 kg~WT~EEDe~Ll~lv~~~G----~-------------~W~~IA~~l-----pgRt~~qcr~RW~~~L~~ 114 (352)
+..||.+|.++|+++|.+|. + -|..|+..| +.|+..+++.+|.++...
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~ 71 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSK 71 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHH
Confidence 56799999999999999873 1 199999876 259999999999887654
No 40
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.54 E-value=0.0023 Score=50.62 Aligned_cols=47 Identities=28% Similarity=0.629 Sum_probs=32.3
Q ss_pred cCCCCHHHHHHHHHHHHH--h----C--C-----CCcccccccc---Cccccccccccccccc
Q 035629 14 KGPWTPEEDHKLISYIQL--H----G--P-----GNWRNLPKNA---GLQRCGKSCRLRWTNY 60 (352)
Q Consensus 14 kg~WT~EED~~L~~~V~k--~----g--~-----~~W~~IA~~l---~~~Rt~~qCr~Rw~~~ 60 (352)
|..||.+|...|+.++.. + + . .-|..||..| |..|++.||+.||.++
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 457999999999999877 2 1 0 1499999877 4579999999999764
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.18 E-value=0.0044 Score=60.73 Aligned_cols=107 Identities=17% Similarity=0.303 Sum_probs=70.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCC-------CC-CCCCCHHHHHHHHHH---HHH
Q 035629 16 PWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYLRPD-------IK-RGRFSFEEEETIIQL---HSI 84 (352)
Q Consensus 16 ~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~-------lk-kg~WT~EEDe~Ll~l---v~~ 84 (352)
.|+++|+.+|++.....|-|+|..||..+| .|....|+.+|.+++..+ +. .++=.. |+-|-+- ++.
T Consensus 65 ~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~es~~ypl~~i~~~~~v~q--~~f~~qrr~rie~ 141 (432)
T COG5114 65 GWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYDESKYYPLPDITQNIHVPQ--DEFLEQRRHRIET 141 (432)
T ss_pred CcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHhhcccccccccccCCCCch--HHHHHHHHhhhhh
Confidence 499999999999999999999999999999 999999999999876632 21 122222 2222211 222
Q ss_pred hC-------------CcchhhcccCCCCCHHHHHHHHHHhhhhhhhhCCCCCCCch
Q 035629 85 LG-------------NKWSAIAARLPGRTDNEIKNYWNTHIRKRLLRNGIDPVTHA 127 (352)
Q Consensus 85 ~G-------------~~W~~IA~~lpgRt~~qcr~RW~~~L~~~l~r~~~~p~e~~ 127 (352)
+. ..=.+|...||||-.-.. -|.+--.-.++-..+++..++
T Consensus 142 f~~ppi~prkP~aS~P~cheiqgyMPgRleFd~--EymnEaE~pikDm~fd~d~~e 195 (432)
T COG5114 142 FELPPINPRKPKASNPYCHEIQGYMPGRLEFDV--EYMNEAEVPIKDMSFDGDKEE 195 (432)
T ss_pred ccCCCCCCCCCCCCCCchhhhhccCCCccccch--hhhhcccccccccccCCchHH
Confidence 21 115788899999976543 233333333445555554433
No 42
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=93.80 E-value=0.011 Score=45.80 Aligned_cols=49 Identities=20% Similarity=0.435 Sum_probs=39.3
Q ss_pred CcCCCCHHHHHHHHHHHHHhCC----------------CCcccccccc----Ccccccccccccccccc
Q 035629 13 KKGPWTPEEDHKLISYIQLHGP----------------GNWRNLPKNA----GLQRCGKSCRLRWTNYL 61 (352)
Q Consensus 13 kkg~WT~EED~~L~~~V~k~g~----------------~~W~~IA~~l----~~~Rt~~qCr~Rw~~~L 61 (352)
++..||.+|.+.|+++|.+|.. ..|.+|+..| +..|+..+|+.+|.++.
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 3567999999999999999821 2599999876 22699999999998753
No 43
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=93.41 E-value=0.011 Score=53.39 Aligned_cols=49 Identities=22% Similarity=0.495 Sum_probs=40.5
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCC------CccccccccCccccccccccccccccC
Q 035629 12 LKKGPWTPEEDHKLISYIQLHGPG------NWRNLPKNAGLQRCGKSCRLRWTNYLR 62 (352)
Q Consensus 12 lkkg~WT~EED~~L~~~V~k~g~~------~W~~IA~~l~~~Rt~~qCr~Rw~~~L~ 62 (352)
.++..||.|||.+|.+.|..|+.. ....++..|. |++..|..||..+++
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 467889999999999999999631 4677788886 999999999966555
No 44
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=92.18 E-value=0.23 Score=56.25 Aligned_cols=98 Identities=16% Similarity=0.310 Sum_probs=74.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCcccccccccc-------cccc-----------------------------
Q 035629 16 PWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRL-------RWTN----------------------------- 59 (352)
Q Consensus 16 ~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~-------Rw~~----------------------------- 59 (352)
.|+.-+=..++.+..+||..+-..||..|. +++...++. ||..
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 788877762 1111
Q ss_pred ------------c-c-CCCCCCCCCCHHHHHHHHHHHHHhC-CcchhhcccC------------CCCCHHHHHHHHHHhh
Q 035629 60 ------------Y-L-RPDIKRGRFSFEEEETIIQLHSILG-NKWSAIAARL------------PGRTDNEIKNYWNTHI 112 (352)
Q Consensus 60 ------------~-L-~p~lkkg~WT~EEDe~Ll~lv~~~G-~~W~~IA~~l------------pgRt~~qcr~RW~~~L 112 (352)
+ + .+..++..||.|||..|+-.+.+|| ++|.+|-..+ ..||+..+..|...+|
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 0 0 1222344599999999999999999 8899984432 3699999999987776
Q ss_pred hh
Q 035629 113 RK 114 (352)
Q Consensus 113 ~~ 114 (352)
.-
T Consensus 985 ~~ 986 (1033)
T PLN03142 985 RL 986 (1033)
T ss_pred HH
Confidence 44
No 45
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=91.34 E-value=0.25 Score=49.00 Aligned_cols=49 Identities=24% Similarity=0.380 Sum_probs=39.4
Q ss_pred CCCCCHHHHHHHHHHHHHh----------CCcchhhcccC----CCCCHHHHHHHHHHhhhhh
Q 035629 67 RGRFSFEEEETIIQLHSIL----------GNKWSAIAARL----PGRTDNEIKNYWNTHIRKR 115 (352)
Q Consensus 67 kg~WT~EEDe~Ll~lv~~~----------G~~W~~IA~~l----pgRt~~qcr~RW~~~L~~~ 115 (352)
...|+.+|-..||++..+. +..|..||+.+ ..|++.+|+.+|.++.++.
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Y 116 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKY 116 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence 3689999999999998754 23399999966 2499999999998876544
No 46
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=89.92 E-value=0.75 Score=46.57 Aligned_cols=85 Identities=20% Similarity=0.309 Sum_probs=65.8
Q ss_pred CCccccccccCccccccccccccccccCCC-------------------------CCCCCCCHHHHHHHHHHHHHhCCcc
Q 035629 35 GNWRNLPKNAGLQRCGKSCRLRWTNYLRPD-------------------------IKRGRFSFEEEETIIQLHSILGNKW 89 (352)
Q Consensus 35 ~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~-------------------------lkkg~WT~EEDe~Ll~lv~~~G~~W 89 (352)
..|.-+.=..+ -|...--..||.+..++. +...-||.||-.-|.++++.|.-.|
T Consensus 74 ~~W~w~pFtn~-aRkD~~~l~HWvr~~d~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf 152 (445)
T KOG2656|consen 74 RPWKWVPFTNS-ARKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRF 152 (445)
T ss_pred CCceeeccCCc-cccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeE
Confidence 35776665555 677777778888763321 1234599999999999999999999
Q ss_pred hhhccc-----CCC-CCHHHHHHHHHHhhhhhhhhCC
Q 035629 90 SAIAAR-----LPG-RTDNEIKNYWNTHIRKRLLRNG 120 (352)
Q Consensus 90 ~~IA~~-----lpg-Rt~~qcr~RW~~~L~~~l~r~~ 120 (352)
-.||.+ ++. ||-...++||+.+.+.-++-..
T Consensus 153 ~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~ 189 (445)
T KOG2656|consen 153 FVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARA 189 (445)
T ss_pred EEEeeccchhhccccccHHHHHHHHHHHHHHHHHccC
Confidence 999998 544 9999999999998887776543
No 47
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=87.73 E-value=0.63 Score=46.97 Aligned_cols=44 Identities=30% Similarity=0.407 Sum_probs=41.5
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhh
Q 035629 69 RFSFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHI 112 (352)
Q Consensus 69 ~WT~EEDe~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~RW~~~L 112 (352)
+|+.+|-+++..+....|..+..|+..+|.|..+|++.+|.+--
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 79999999999999999999999999999999999999997543
No 48
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=87.52 E-value=1 Score=35.71 Aligned_cols=43 Identities=30% Similarity=0.535 Sum_probs=33.0
Q ss_pred CCCHHHHHHHHHHHHHh---CC----------cchhhcccCC---C--CCHHHHHHHHHHh
Q 035629 69 RFSFEEEETIIQLHSIL---GN----------KWSAIAARLP---G--RTDNEIKNYWNTH 111 (352)
Q Consensus 69 ~WT~EEDe~Ll~lv~~~---G~----------~W~~IA~~lp---g--Rt~~qcr~RW~~~ 111 (352)
.||+++++.|++++.+. |+ .|..|+..|. | .+..||++||..+
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~l 61 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTL 61 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHH
Confidence 59999999999998654 21 1999988772 2 4789999998544
No 49
>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=85.43 E-value=1.1 Score=38.27 Aligned_cols=50 Identities=26% Similarity=0.427 Sum_probs=38.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC----cchhhcccC------------CCCCHHHHHHHHHHhhh
Q 035629 64 DIKRGRFSFEEEETIIQLHSILGN----KWSAIAARL------------PGRTDNEIKNYWNTHIR 113 (352)
Q Consensus 64 ~lkkg~WT~EEDe~Ll~lv~~~G~----~W~~IA~~l------------pgRt~~qcr~RW~~~L~ 113 (352)
..++..||.|||.-|+-.+.+||- .|..|-..+ ..||+..+..|...++.
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~ 111 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIK 111 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHH
Confidence 456778999999999999999995 698886543 25999999999877664
No 50
>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=84.93 E-value=0.5 Score=40.33 Aligned_cols=35 Identities=29% Similarity=0.485 Sum_probs=29.1
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCC---CCccccccccC
Q 035629 11 GLKKGPWTPEEDHKLISYIQLHGP---GNWRNLPKNAG 45 (352)
Q Consensus 11 ~lkkg~WT~EED~~L~~~V~k~g~---~~W~~IA~~l~ 45 (352)
.-++..||.+||..|+-++.+||. +.|..|...+.
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir 83 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIR 83 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHH
Confidence 567888999999999999999998 89999987653
No 51
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=83.22 E-value=1.6 Score=47.40 Aligned_cols=44 Identities=9% Similarity=0.130 Sum_probs=40.7
Q ss_pred CCCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHh
Q 035629 68 GRFSFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTH 111 (352)
Q Consensus 68 g~WT~EEDe~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~RW~~~ 111 (352)
..||+.|-.++.+++-.|..++..|++.++++|.++|-+.|+..
T Consensus 620 d~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred ccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHH
Confidence 47999999999999999999999999999999999999987643
No 52
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=78.30 E-value=5.4 Score=41.38 Aligned_cols=47 Identities=17% Similarity=0.279 Sum_probs=42.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhh
Q 035629 66 KRGRFSFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHI 112 (352)
Q Consensus 66 kkg~WT~EEDe~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~RW~~~L 112 (352)
....||.||--++-.++..||.++.+|-..||.|+-..++..|+..-
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~K 232 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWK 232 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHH
Confidence 34579999999999999999999999999999999999999887543
No 53
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=76.29 E-value=1.5 Score=47.63 Aligned_cols=42 Identities=14% Similarity=0.198 Sum_probs=38.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccc
Q 035629 15 GPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWT 58 (352)
Q Consensus 15 g~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~ 58 (352)
.+||+.|..++.+++..|. .++..|++.++ +++.+||.+-|.
T Consensus 620 d~WTp~E~~lF~kA~y~~~-KDF~~v~km~~-~KtVaqCVeyYY 661 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYS-KDFIFVQKMVK-SKTVAQCVEYYY 661 (907)
T ss_pred ccccHHHHHHHHHHHHHhc-ccHHHHHHHhc-cccHHHHHHHHH
Confidence 4699999999999999998 69999999999 999999987654
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=74.69 E-value=2.9 Score=33.45 Aligned_cols=24 Identities=42% Similarity=0.689 Sum_probs=14.1
Q ss_pred CCCCcCCCCHHHHHHH--------HHHHHHhC
Q 035629 10 NGLKKGPWTPEEDHKL--------ISYIQLHG 33 (352)
Q Consensus 10 p~lkkg~WT~EED~~L--------~~~V~k~g 33 (352)
|.-..|.||+|+|+.| ..++++||
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG 74 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHG 74 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH-
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC
Confidence 4456889999999999 34677777
No 55
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=74.34 E-value=1 Score=44.67 Aligned_cols=46 Identities=24% Similarity=0.455 Sum_probs=36.6
Q ss_pred CCCCHHHHHHHHHHHHHh----CC-----CCcccccccc---Cccccccccccccccc
Q 035629 15 GPWTPEEDHKLISYIQLH----GP-----GNWRNLPKNA---GLQRCGKSCRLRWTNY 60 (352)
Q Consensus 15 g~WT~EED~~L~~~V~k~----g~-----~~W~~IA~~l---~~~Rt~~qCr~Rw~~~ 60 (352)
..|+.+|-..|+.+..+. .. .-|.+||+.+ +..|++.+|+.+|.++
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl 112 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENL 112 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence 679999999999987654 11 3599999843 4479999999998764
No 56
>smart00595 MADF subfamily of SANT domain.
Probab=73.67 E-value=3.1 Score=32.57 Aligned_cols=24 Identities=33% Similarity=0.621 Sum_probs=20.4
Q ss_pred chhhcccCCCCCHHHHHHHHHHhhh
Q 035629 89 WSAIAARLPGRTDNEIKNYWNTHIR 113 (352)
Q Consensus 89 W~~IA~~lpgRt~~qcr~RW~~~L~ 113 (352)
|.+||..| +-+...|+.+|.++-.
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~ 53 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRD 53 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 99999999 4499999999977643
No 57
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=71.10 E-value=8.2 Score=41.38 Aligned_cols=52 Identities=15% Similarity=0.424 Sum_probs=42.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCCcchhhcc----------cCCCCCHHHHHHHHHHhhhhhhhh
Q 035629 67 RGRFSFEEEETIIQLHSILGNKWSAIAA----------RLPGRTDNEIKNYWNTHIRKRLLR 118 (352)
Q Consensus 67 kg~WT~EEDe~Ll~lv~~~G~~W~~IA~----------~lpgRt~~qcr~RW~~~L~~~l~r 118 (352)
|..||..|++....++.++|.++.+|-. ...-+|..|+|.+|+..+++..+-
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~ 149 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKL 149 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhh
Confidence 6689999999999999999999999922 223468889999999888765433
No 58
>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=68.26 E-value=9 Score=27.10 Aligned_cols=41 Identities=22% Similarity=0.313 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhh
Q 035629 72 FEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHIR 113 (352)
Q Consensus 72 ~EEDe~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~RW~~~L~ 113 (352)
++++..++.++...|-.|.+||..+ |.+...++.+....++
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 4677888888888899999999999 8999999988765543
No 59
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=65.30 E-value=10 Score=35.30 Aligned_cols=44 Identities=18% Similarity=0.229 Sum_probs=35.1
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhcccC---CCCCHHHHHHHHHHhhh
Q 035629 69 RFSFEEEETIIQLHSILGNKWSAIAARL---PGRTDNEIKNYWNTHIR 113 (352)
Q Consensus 69 ~WT~EEDe~Ll~lv~~~G~~W~~IA~~l---pgRt~~qcr~RW~~~L~ 113 (352)
+|++++|-+|+.+|.. |+.-..|+..+ -.-|-..+.+||+.+|-
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 5999999999999964 66777776654 23588999999998874
No 60
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=63.54 E-value=4.2 Score=41.31 Aligned_cols=43 Identities=14% Similarity=0.281 Sum_probs=39.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccccccccCcccccccccccccc
Q 035629 15 GPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTN 59 (352)
Q Consensus 15 g~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~ 59 (352)
-+||.+|-+++..++..+|+ ++.-|+..+| .|..+|++.+|.+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP-~R~RkqIKaKfi~ 408 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGT-DFSLISSLFP-NRERKQIKAKFIK 408 (507)
T ss_pred CcccHHHHHHHHHHHHHhcc-hHHHHHHhcC-chhHHHHHHHHHH
Confidence 46999999999999999995 9999999999 9999999998865
No 61
>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=63.35 E-value=7 Score=31.24 Aligned_cols=17 Identities=29% Similarity=0.493 Sum_probs=10.1
Q ss_pred CCCCCCCCCHHHHHHHH
Q 035629 63 PDIKRGRFSFEEEETII 79 (352)
Q Consensus 63 p~lkkg~WT~EEDe~Ll 79 (352)
|....|-||+|+|+.|.
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 55668899999999993
No 62
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=59.75 E-value=13 Score=25.80 Aligned_cols=37 Identities=19% Similarity=0.377 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHH
Q 035629 73 EEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNT 110 (352)
Q Consensus 73 EEDe~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~RW~~ 110 (352)
+=|.+|+.+...-| -.|.+||+.+ |=+...|..|+..
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 45888999999888 6799999998 8999999999864
No 63
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=59.45 E-value=11 Score=32.94 Aligned_cols=45 Identities=9% Similarity=0.144 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhhhhhhh
Q 035629 73 EEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHIRKRLLR 118 (352)
Q Consensus 73 EEDe~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~RW~~~L~~~l~r 118 (352)
+-|.+|+++..+-| -.|.+||+.+ |-+...|+.|+.......+-+
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 57999999999988 7899999999 999999999998877766544
No 64
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=59.20 E-value=8.3 Score=44.51 Aligned_cols=75 Identities=16% Similarity=0.229 Sum_probs=53.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCCCCCCCCHHHHHHHHHHHHHh-CCcchhhc
Q 035629 15 GPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFSFEEEETIIQLHSIL-GNKWSAIA 93 (352)
Q Consensus 15 g~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EEDe~Ll~lv~~~-G~~W~~IA 93 (352)
.-|..+||.+|+-.|-+||.++|..|-.- +.=|... .-.+......++|=..+-..|+.++..+ +.+|.+..
T Consensus 1134 ~~W~~e~Ds~LLiGI~khGygswe~Ir~D------p~L~l~d-Ki~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~~~ 1206 (1373)
T KOG0384|consen 1134 CDWGSEDDSMLLIGIFKHGYGSWEAIRLD------PDLGLTD-KIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPKKL 1206 (1373)
T ss_pred cCCCchhhhhHhhhhhhcccccHHHhccC------ccccchh-hhcccccCCchHHHHHHHHHHHHHHhhcccCCCchhh
Confidence 44999999999999999999999998421 1111111 1112222556778888889999999988 68888866
Q ss_pred ccC
Q 035629 94 ARL 96 (352)
Q Consensus 94 ~~l 96 (352)
+..
T Consensus 1207 ~~~ 1209 (1373)
T KOG0384|consen 1207 KRE 1209 (1373)
T ss_pred hcc
Confidence 544
No 65
>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=55.41 E-value=9.2 Score=29.03 Aligned_cols=25 Identities=24% Similarity=0.457 Sum_probs=20.2
Q ss_pred chhhcccCCC-CCHHHHHHHHHHhhh
Q 035629 89 WSAIAARLPG-RTDNEIKNYWNTHIR 113 (352)
Q Consensus 89 W~~IA~~lpg-Rt~~qcr~RW~~~L~ 113 (352)
|..||..|.. -+...|+.||.++..
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~ 54 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRD 54 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHH
Confidence 9999999953 578899999987553
No 66
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=54.90 E-value=31 Score=35.08 Aligned_cols=43 Identities=21% Similarity=0.314 Sum_probs=38.7
Q ss_pred CCCCHHHHHHHHHHHHHhCCcchhh-cccCCCCCHHHHHHHHHH
Q 035629 68 GRFSFEEEETIIQLHSILGNKWSAI-AARLPGRTDNEIKNYWNT 110 (352)
Q Consensus 68 g~WT~EEDe~Ll~lv~~~G~~W~~I-A~~lpgRt~~qcr~RW~~ 110 (352)
..|+++|=..+-+.++.||.++..| +.+++.|+...|-..|+-
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYl 321 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYL 321 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHH
Confidence 4799999999999999999999999 457899999999998854
No 67
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=51.53 E-value=21 Score=30.03 Aligned_cols=82 Identities=21% Similarity=0.269 Sum_probs=48.9
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCC----CCCC-CCCH---------------
Q 035629 13 KKGPWTPEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYLRPD----IKRG-RFSF--------------- 72 (352)
Q Consensus 13 kkg~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~----lkkg-~WT~--------------- 72 (352)
++..||.|+...++..+...| ..-.+||+.++. ...-..+|.+.+... +..+ .-++
T Consensus 9 ~rr~ys~EfK~~aV~~~~~~g-~sv~evA~e~gI---s~~tl~~W~r~y~~~~~~~~~~~~~~~~~~~~~~~~~ei~~L~ 84 (121)
T PRK09413 9 KRRRRTTQEKIAIVQQSFEPG-MTVSLVARQHGV---AASQLFLWRKQYQEGSLTAVAAGEQVVPASELAAAMKQIKELQ 84 (121)
T ss_pred CCCCCCHHHHHHHHHHHHcCC-CCHHHHHHHHCc---CHHHHHHHHHHHhhcccccccccccCCchhHHHHHHHHHHHHH
Confidence 457799999888887776666 466788888873 333445666554321 0001 1110
Q ss_pred -------HHHHHHHHHHHHhC-CcchhhcccCCC
Q 035629 73 -------EEEETIIQLHSILG-NKWSAIAARLPG 98 (352)
Q Consensus 73 -------EEDe~Ll~lv~~~G-~~W~~IA~~lpg 98 (352)
.|-++|.+++..++ .+|.+++.+++|
T Consensus 85 ~el~~L~~E~diLKKa~~~~~~~~~~~~~~~~~~ 118 (121)
T PRK09413 85 RLLGKKTMENELLKEAVEYGRAKKWIAHAPLLPG 118 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHhchhhhhhcCCCCCC
Confidence 12234445555556 679999988876
No 68
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=50.64 E-value=14 Score=32.60 Aligned_cols=46 Identities=11% Similarity=0.064 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhhhhhhh
Q 035629 72 FEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHIRKRLLR 118 (352)
Q Consensus 72 ~EEDe~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~RW~~~L~~~l~r 118 (352)
.+-|.+|+.+..+-| -.|.+||+.+ |=+...|+.|+..+.+..+-+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCeE
Confidence 467889999888888 6799999999 999999999998777666543
No 69
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=50.38 E-value=41 Score=33.56 Aligned_cols=88 Identities=22% Similarity=0.365 Sum_probs=56.2
Q ss_pred CCCCCHHHHHHHHHHHHHh-CCc---chhhcccCCCCCHHHHHHHHHHhhhhhhhhCCCCC----------CCchhhhhH
Q 035629 67 RGRFSFEEEETIIQLHSIL-GNK---WSAIAARLPGRTDNEIKNYWNTHIRKRLLRNGIDP----------VTHAPRLDL 132 (352)
Q Consensus 67 kg~WT~EEDe~Ll~lv~~~-G~~---W~~IA~~lpgRt~~qcr~RW~~~L~~~l~r~~~~p----------~e~~~~ldL 132 (352)
-..||.-|...|+++.... |.. -.+|++.++||+..++++ |.+.|+.++.+..+-. ..+.....-
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~-fl~~LK~rvareaiqkv~~~g~~~~R~~e~q~paP 99 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRD-FLQQLKGRVAREAIQKVHPGGLKGPRRREAQPPAP 99 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHH-HHHHHHHHHHHHHHHHhcccccccccccccCCCcc
Confidence 3479999999999998876 433 467888999999999987 5556665544321100 000111111
Q ss_pred HHHHHHHHhhhcCCCccHHHHHhhcCCCCccccCChH
Q 035629 133 LDLSAILRATLCGSSASLLNMSSLLGGSTHQALLNPE 169 (352)
Q Consensus 133 ~~~~~~~~s~l~~~G~~Ws~Is~~L~GRT~~~ikNR~ 169 (352)
|. -|.+++..+.|.-+..|---|
T Consensus 100 -----IE---------vW~dla~k~tg~~ee~~t~af 122 (344)
T PF11035_consen 100 -----IE---------VWMDLAEKVTGPLEEALTAAF 122 (344)
T ss_pred -----HH---------HHHHHHHHhcCchHHHHHHHH
Confidence 11 489999888887666665544
No 70
>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=49.66 E-value=22 Score=28.03 Aligned_cols=38 Identities=16% Similarity=0.309 Sum_probs=27.8
Q ss_pred HHHHHHHHhCC--------cchhhcccCCC---CC--HHHHHHHHHHhhhh
Q 035629 77 TIIQLHSILGN--------KWSAIAARLPG---RT--DNEIKNYWNTHIRK 114 (352)
Q Consensus 77 ~Ll~lv~~~G~--------~W~~IA~~lpg---Rt--~~qcr~RW~~~L~~ 114 (352)
.|..+|.++|+ .|..||..|.- -+ +.+++..|.++|.+
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 37778888874 49999999822 12 36788889888864
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=49.62 E-value=3.8 Score=28.48 Aligned_cols=38 Identities=24% Similarity=0.386 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHhCCCCccccccccCcccccccccccccc
Q 035629 20 EEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTN 59 (352)
Q Consensus 20 EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~ 59 (352)
+=|.+|+.++...+...|.+||+.++ =+...|..|+.+
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 45889999999999889999999997 778888888654
No 72
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=45.67 E-value=26 Score=37.60 Aligned_cols=46 Identities=22% Similarity=0.296 Sum_probs=42.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhh
Q 035629 67 RGRFSFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHI 112 (352)
Q Consensus 67 kg~WT~EEDe~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~RW~~~L 112 (352)
.++|+.+|-++...+....|.+.+.|+..+|+|..+++|.+|...-
T Consensus 409 ~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE 454 (584)
T KOG2009|consen 409 TDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEE 454 (584)
T ss_pred cCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhh
Confidence 4689999999999999999999999999999999999999986543
No 73
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=43.97 E-value=31 Score=27.53 Aligned_cols=39 Identities=18% Similarity=0.292 Sum_probs=28.2
Q ss_pred HHHHHHHHhCC--------cchhhcccCCC-----CCHHHHHHHHHHhhhhh
Q 035629 77 TIIQLHSILGN--------KWSAIAARLPG-----RTDNEIKNYWNTHIRKR 115 (352)
Q Consensus 77 ~Ll~lv~~~G~--------~W~~IA~~lpg-----Rt~~qcr~RW~~~L~~~ 115 (352)
.|..+|.++|+ .|..||..|.- ......+..|.++|.+-
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 37777887774 49999998832 23567788888887653
No 74
>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=41.56 E-value=44 Score=23.26 Aligned_cols=40 Identities=23% Similarity=0.400 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhh
Q 035629 73 EEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHIR 113 (352)
Q Consensus 73 EEDe~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~RW~~~L~ 113 (352)
+++..++.++-..|-.+.+||..| |-+...++.+....++
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~ 46 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALK 46 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHH
Confidence 445555555555567899999998 7788888877665554
No 75
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=41.52 E-value=37 Score=33.86 Aligned_cols=40 Identities=20% Similarity=0.320 Sum_probs=31.5
Q ss_pred CCCCHHHHHHHHHHHHHhCCC---CccccccccCcccccccccc
Q 035629 15 GPWTPEEDHKLISYIQLHGPG---NWRNLPKNAGLQRCGKSCRL 55 (352)
Q Consensus 15 g~WT~EED~~L~~~V~k~g~~---~W~~IA~~l~~~Rt~~qCr~ 55 (352)
..||.-|...|+.+.+..... +-.+|++.++ +|+..++++
T Consensus 22 ~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~ 64 (344)
T PF11035_consen 22 AAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRD 64 (344)
T ss_pred ccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHH
Confidence 469999999999998876423 4456788888 899888876
No 76
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=41.14 E-value=7.9 Score=33.81 Aligned_cols=45 Identities=13% Similarity=0.183 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCC
Q 035629 19 PEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYLRPDI 65 (352)
Q Consensus 19 ~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~l 65 (352)
.+-|.+|+.++.+.|.-.|.+||+.++ -+...|+.|+.++...++
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 357999999999999889999999997 899999999988766554
No 77
>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=41.06 E-value=48 Score=29.51 Aligned_cols=46 Identities=24% Similarity=0.212 Sum_probs=38.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCcchhhcccCC-C---CCHHHHHHHHHHh
Q 035629 66 KRGRFSFEEEETIIQLHSILGNKWSAIAARLP-G---RTDNEIKNYWNTH 111 (352)
Q Consensus 66 kkg~WT~EEDe~Ll~lv~~~G~~W~~IA~~lp-g---Rt~~qcr~RW~~~ 111 (352)
....-|..|.+-|..||.+||.++.+.|.-.- + .|..||+.+...+
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 34578999999999999999999999987552 3 7999999887654
No 78
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=40.76 E-value=13 Score=37.99 Aligned_cols=47 Identities=13% Similarity=0.193 Sum_probs=41.1
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccccc-----cCccccccccccccccc
Q 035629 13 KKGPWTPEEDHKLISYIQLHGPGNWRNLPKN-----AGLQRCGKSCRLRWTNY 60 (352)
Q Consensus 13 kkg~WT~EED~~L~~~V~k~g~~~W~~IA~~-----l~~~Rt~~qCr~Rw~~~ 60 (352)
+-..||.||.+-|.++.++|. -.|-.||.. .+..||....++||..+
T Consensus 129 ~dn~WskeETD~LF~lck~fD-LRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 129 NDNSWSKEETDYLFDLCKRFD-LRFFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred ccccccHHHHHHHHHHHHhcC-eeEEEEeeccchhhccccccHHHHHHHHHHH
Confidence 346799999999999999999 699999987 67569999999999765
No 79
>PF06131 DUF963: Schizosaccharomyces pombe repeat of unknown function (DUF963); InterPro: IPR009306 This family consists of a series of repeated sequences from one hypothetical protein (Q96WV6 from SWISSPROT) found in Schizosaccharomyces pombe. The function of this family is unknown.
Probab=39.49 E-value=15 Score=25.04 Aligned_cols=18 Identities=56% Similarity=0.641 Sum_probs=10.3
Q ss_pred cCCCCCCCCCCCCCCcccc
Q 035629 305 SSTPLSSPTPLNSSSTFIN 323 (352)
Q Consensus 305 ~~tp~~s~~~~~s~~~~~~ 323 (352)
+|||-.+.+++|+ ||=|+
T Consensus 9 tSTPi~sSt~vns-StpI~ 26 (36)
T PF06131_consen 9 TSTPITSSTVVNS-STPIT 26 (36)
T ss_pred ccCcccccceecc-cccee
Confidence 4566666666665 45444
No 80
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=37.29 E-value=7.8 Score=34.30 Aligned_cols=45 Identities=20% Similarity=0.231 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCC
Q 035629 19 PEEDHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYLRPDI 65 (352)
Q Consensus 19 ~EED~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~l 65 (352)
.+-|.+|+.+..+.|.-.|.+||+.++ -+...|+.|+.++...++
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 567999999999999889999999997 888899999988766654
No 81
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=35.75 E-value=8.5 Score=29.44 Aligned_cols=44 Identities=20% Similarity=0.450 Sum_probs=30.0
Q ss_pred HHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCC-------CCCCCCHHHHHHH
Q 035629 22 DHKLISYIQLHGPGNWRNLPKNAGLQRCGKSCRLRWTNYLRPDI-------KRGRFSFEEEETI 78 (352)
Q Consensus 22 D~~L~~~V~k~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~l-------kkg~WT~EEDe~L 78 (352)
+.+|.++|..|| |+.+++.+. ..|+. -+|++ +|.+|-.+..|.|
T Consensus 12 e~il~~Lv~~yG---W~~L~~~i~-----i~CF~-----~~PsikSSLkFLRkTpWAR~KVE~l 62 (64)
T PF09905_consen 12 ETILTELVEHYG---WEELGERIN-----INCFK-----NNPSIKSSLKFLRKTPWAREKVENL 62 (64)
T ss_dssp HHHHHHHHHHT----HHHHHHHTT-----SSSTT-----SS--HHHHHHHHHHSHHHHHHHHHH
T ss_pred HHHHHHHHHHhC---HHHHHhhcc-----cccCC-----CCCchHHHHHHHhcCHhHHHHHHHh
Confidence 567889999998 999998887 55654 24443 4678877766655
No 82
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=35.28 E-value=27 Score=40.11 Aligned_cols=33 Identities=24% Similarity=0.378 Sum_probs=28.7
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCcccccccc
Q 035629 12 LKKGPWTPEEDHKLISYIQLHGPGNWRNLPKNA 44 (352)
Q Consensus 12 lkkg~WT~EED~~L~~~V~k~g~~~W~~IA~~l 44 (352)
-++..||.|||..|+-++.+||.++|.+|-..+
T Consensus 924 ~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i 956 (1033)
T PLN03142 924 NKGKLYNEECDRFMLCMVHKLGYGNWDELKAAF 956 (1033)
T ss_pred CCCCcCCHHHHHHHHHHHHHhccchHHHHHHHH
Confidence 345569999999999999999999999997655
No 83
>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=34.78 E-value=32 Score=30.85 Aligned_cols=39 Identities=26% Similarity=0.228 Sum_probs=32.0
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHH
Q 035629 69 RFSFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYW 108 (352)
Q Consensus 69 ~WT~EEDe~Ll~lv~~~G~~W~~IA~~lpgRt~~qcr~RW 108 (352)
.||+|+.++|.+|..+ |-.=.+||..|.+.|.+.+.-+-
T Consensus 2 ~Wtde~~~~L~~lw~~-G~SasqIA~~lg~vsRnAViGk~ 40 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GLSASQIARQLGGVSRNAVIGKA 40 (162)
T ss_pred CCCHHHHHHHHHHHHc-CCCHHHHHHHhCCcchhhhhhhh
Confidence 5999999999998854 77789999999778887776543
No 84
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=31.82 E-value=66 Score=25.79 Aligned_cols=45 Identities=11% Similarity=0.169 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhhhhhhh
Q 035629 73 EEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHIRKRLLR 118 (352)
Q Consensus 73 EEDe~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~RW~~~L~~~l~r 118 (352)
+.|..|+.++...| -.+..||+.+ |-+...|+.|.....+..+.+
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 57889999998888 5799999998 899999999998777666544
No 85
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=30.30 E-value=1.1e+02 Score=25.13 Aligned_cols=18 Identities=28% Similarity=0.104 Sum_probs=15.7
Q ss_pred CCCCHHHHHHHHHHHHHh
Q 035629 68 GRFSFEEEETIIQLHSIL 85 (352)
Q Consensus 68 g~WT~EEDe~Ll~lv~~~ 85 (352)
.-||+|++-.|++.+..|
T Consensus 5 R~WS~eDEi~iL~gl~~~ 22 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDF 22 (98)
T ss_pred CCCCchHHHHHHHHHHHH
Confidence 359999999999998777
No 86
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=29.48 E-value=38 Score=36.53 Aligned_cols=47 Identities=13% Similarity=0.293 Sum_probs=34.2
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCc---------ccccccccccccccc
Q 035629 14 KGPWTPEEDHKLISYIQLHGPGNWRNLPKNAGL---------QRCGKSCRLRWTNYL 61 (352)
Q Consensus 14 kg~WT~EED~~L~~~V~k~g~~~W~~IA~~l~~---------~Rt~~qCr~Rw~~~L 61 (352)
|..||..|...+..++..+| .+++.|-+.+-. -++-.|+|++|.+.+
T Consensus 88 ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV 143 (782)
T ss_pred ccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence 66799999999999999999 688888222211 345567777776543
No 87
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=28.43 E-value=54 Score=34.46 Aligned_cols=41 Identities=20% Similarity=0.299 Sum_probs=35.8
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhcc-cCCCCCHHHHHHHHH
Q 035629 69 RFSFEEEETIIQLHSILGNKWSAIAA-RLPGRTDNEIKNYWN 109 (352)
Q Consensus 69 ~WT~EEDe~Ll~lv~~~G~~W~~IA~-~lpgRt~~qcr~RW~ 109 (352)
.|+.-|-.++-++.++||.++..|.. .||-++-..+-+.|+
T Consensus 287 EWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 287 EWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred hccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 59999999999999999999999954 568888888887765
No 88
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=25.38 E-value=37 Score=39.54 Aligned_cols=26 Identities=19% Similarity=0.323 Sum_probs=23.8
Q ss_pred CCCCHHHHHHHHHHHHHhC-Ccchhhc
Q 035629 68 GRFSFEEEETIIQLHSILG-NKWSAIA 93 (352)
Q Consensus 68 g~WT~EEDe~Ll~lv~~~G-~~W~~IA 93 (352)
..|..+||.+|+-.|-+|| ++|.+|-
T Consensus 1134 ~~W~~e~Ds~LLiGI~khGygswe~Ir 1160 (1373)
T KOG0384|consen 1134 CDWGSEDDSMLLIGIFKHGYGSWEAIR 1160 (1373)
T ss_pred cCCCchhhhhHhhhhhhcccccHHHhc
Confidence 3599999999999999999 9999884
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=24.80 E-value=1.1e+02 Score=25.41 Aligned_cols=27 Identities=19% Similarity=0.311 Sum_probs=21.6
Q ss_pred hCCcchhhcccCCCCCHHHHHHHHHHhh
Q 035629 85 LGNKWSAIAARLPGRTDNEIKNYWNTHI 112 (352)
Q Consensus 85 ~G~~W~~IA~~lpgRt~~qcr~RW~~~L 112 (352)
.|-.+.+||..+ |.+...++.+....+
T Consensus 128 ~~~~~~eIA~~l-gis~~tv~~~~~ra~ 154 (161)
T TIGR02985 128 EGKSYKEIAEEL-GISVKTVEYHISKAL 154 (161)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 466799999888 889999988876644
No 90
>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.
Probab=24.60 E-value=90 Score=26.25 Aligned_cols=47 Identities=13% Similarity=0.362 Sum_probs=32.3
Q ss_pred CCCHHHHHHHHHHHHHh------------CCc-------------------chhhcccCCCCCHHHHHHHHHHhhhhh
Q 035629 69 RFSFEEEETIIQLHSIL------------GNK-------------------WSAIAARLPGRTDNEIKNYWNTHIRKR 115 (352)
Q Consensus 69 ~WT~EEDe~Ll~lv~~~------------G~~-------------------W~~IA~~lpgRt~~qcr~RW~~~L~~~ 115 (352)
+||++||-.|-..|.+| |.. ....+...|..|...=|+||++.+...
T Consensus 1 kfTA~dDY~Lc~~i~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~fF~~~~~~~p~HT~~sWRDR~RKfv~~~ 78 (105)
T PF09197_consen 1 KFTADDDYALCKAIKKQFYRDIYQKDPDTGSSLISDGDSKEFIPKRDMRSFFKDLARKNPRHTENSWRDRYRKFVSEY 78 (105)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHSB-TTSS-B----------------TTHHHHHHHHTTTS-HHHHHHHHHHTHHHH
T ss_pred CCChHHHHHHHHHHHHHHHHHHHhhCcccccccccCCCccccccchhhHHHHHHHHHcCCccchhHHHHHHHHHHHHc
Confidence 58999999999988764 110 455566778899999999998877544
No 91
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=23.73 E-value=47 Score=26.55 Aligned_cols=22 Identities=27% Similarity=0.549 Sum_probs=20.0
Q ss_pred HHHHHHHHHHhCCcchhhcccC
Q 035629 75 EETIIQLHSILGNKWSAIAARL 96 (352)
Q Consensus 75 De~Ll~lv~~~G~~W~~IA~~l 96 (352)
|+.|..+....|..|..+|.+|
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L 23 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL 23 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc
Confidence 5678889999999999999998
No 92
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=22.48 E-value=1.1e+02 Score=25.98 Aligned_cols=45 Identities=11% Similarity=0.161 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhhhhhhh
Q 035629 73 EEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHIRKRLLR 118 (352)
Q Consensus 73 EEDe~Ll~lv~~~G-~~W~~IA~~lpgRt~~qcr~RW~~~L~~~l~r 118 (352)
+-|.+|+++..+-| -.+..||+.+ |-+...|+.|-.++.+..+.+
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI~ 53 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVIK 53 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCcee
Confidence 56888888888888 6799999999 899999999987777666444
Done!