Query 018154
Match_columns 360
No_of_seqs 201 out of 1488
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 06:35:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018154.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018154hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03091 hypothetical protein; 100.0 1.3E-37 2.7E-42 311.5 11.4 136 1-136 1-136 (459)
2 PLN03212 Transcription repress 100.0 9.1E-37 2E-41 287.1 9.5 127 3-129 14-140 (249)
3 KOG0048 Transcription factor, 100.0 7.8E-35 1.7E-39 274.0 10.7 121 9-129 4-124 (238)
4 KOG0049 Transcription factor, 99.8 2.9E-19 6.3E-24 185.3 4.9 111 1-112 347-458 (939)
5 KOG0049 Transcription factor, 99.7 3.2E-18 6.9E-23 177.7 6.8 146 7-159 246-446 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.6 5.1E-16 1.1E-20 116.3 2.5 60 17-78 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.5 5.8E-15 1.3E-19 152.4 6.1 108 9-117 15-122 (512)
8 KOG0050 mRNA splicing protein 99.5 3.7E-15 8E-20 152.1 1.8 105 12-118 5-109 (617)
9 PLN03212 Transcription repress 99.5 1.6E-14 3.6E-19 136.9 3.2 91 44-145 10-102 (249)
10 KOG0048 Transcription factor, 99.4 3.8E-14 8.2E-19 133.9 3.7 89 62-157 4-94 (238)
11 KOG0051 RNA polymerase I termi 99.4 1.1E-13 2.4E-18 144.5 7.3 104 13-119 383-514 (607)
12 PLN03091 hypothetical protein; 99.4 2.4E-13 5.3E-18 137.4 3.5 81 63-146 10-92 (459)
13 PF00249 Myb_DNA-binding: Myb- 99.3 1.5E-12 3.2E-17 94.1 4.3 46 67-112 1-48 (48)
14 PF13921 Myb_DNA-bind_6: Myb-l 99.3 1.2E-12 2.5E-17 98.1 3.0 51 70-120 1-51 (60)
15 PF00249 Myb_DNA-binding: Myb- 99.3 4.1E-13 8.9E-18 97.0 -0.6 48 14-61 1-48 (48)
16 smart00717 SANT SANT SWI3, AD 99.1 6E-11 1.3E-15 82.7 4.7 47 67-113 1-48 (49)
17 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 4.6E-10 1E-14 77.2 4.8 44 69-112 1-45 (45)
18 smart00717 SANT SANT SWI3, AD 98.9 2.3E-10 5.1E-15 79.7 1.3 48 14-62 1-48 (49)
19 KOG0051 RNA polymerase I termi 98.9 5E-10 1.1E-14 117.5 2.9 119 13-136 307-451 (607)
20 cd00167 SANT 'SWI3, ADA2, N-Co 98.8 1.7E-09 3.6E-14 74.4 1.0 44 16-60 1-44 (45)
21 KOG0050 mRNA splicing protein 98.3 3.4E-07 7.3E-12 94.6 2.5 79 65-146 5-84 (617)
22 COG5147 REB1 Myb superfamily p 98.3 5.2E-08 1.1E-12 101.4 -3.6 97 13-112 290-396 (512)
23 TIGR01557 myb_SHAQKYF myb-like 97.5 3.4E-05 7.5E-10 58.5 1.2 49 13-61 2-54 (57)
24 KOG0457 Histone acetyltransfer 97.5 0.00011 2.4E-09 75.0 5.1 48 65-112 70-118 (438)
25 TIGR01557 myb_SHAQKYF myb-like 97.3 0.00041 9E-09 52.6 5.1 46 67-112 3-54 (57)
26 KOG0457 Histone acetyltransfer 97.3 5.8E-05 1.2E-09 77.1 0.4 49 12-61 70-118 (438)
27 PF13325 MCRS_N: N-terminal re 97.1 0.00045 9.7E-09 64.6 4.3 100 16-117 1-131 (199)
28 TIGR02894 DNA_bind_RsfA transc 97.1 0.00044 9.5E-09 62.6 3.9 52 66-118 3-61 (161)
29 KOG1279 Chromatin remodeling f 96.7 0.0016 3.5E-08 68.4 4.5 46 66-111 252-297 (506)
30 COG5259 RSC8 RSC chromatin rem 96.7 0.0012 2.7E-08 68.2 3.5 44 68-111 280-323 (531)
31 PF13837 Myb_DNA-bind_4: Myb/S 96.7 0.0012 2.7E-08 52.3 2.7 48 68-115 2-67 (90)
32 COG5259 RSC8 RSC chromatin rem 96.4 0.00085 1.8E-08 69.3 0.2 46 13-60 278-323 (531)
33 PF08914 Myb_DNA-bind_2: Rap1 96.4 0.0038 8.3E-08 48.6 3.6 51 67-117 2-62 (65)
34 KOG1279 Chromatin remodeling f 96.3 0.0024 5.1E-08 67.2 2.4 49 10-60 249-297 (506)
35 PF08914 Myb_DNA-bind_2: Rap1 95.9 0.0023 5E-08 49.8 0.3 52 14-65 2-61 (65)
36 PRK13923 putative spore coat p 95.9 0.0068 1.5E-07 55.5 3.3 52 65-117 3-61 (170)
37 PF13873 Myb_DNA-bind_5: Myb/S 95.9 0.013 2.8E-07 45.8 4.3 49 67-115 2-72 (78)
38 TIGR02894 DNA_bind_RsfA transc 95.8 0.0023 4.9E-08 58.0 -0.3 49 12-62 2-56 (161)
39 COG5114 Histone acetyltransfer 95.7 0.0083 1.8E-07 59.8 3.3 46 68-113 64-110 (432)
40 PF13837 Myb_DNA-bind_4: Myb/S 95.4 0.0023 5E-08 50.8 -1.6 48 14-61 1-64 (90)
41 PLN03142 Probable chromatin-re 94.3 0.07 1.5E-06 60.7 6.0 100 15-115 825-987 (1033)
42 COG5114 Histone acetyltransfer 93.9 0.012 2.6E-07 58.7 -0.8 47 15-62 64-110 (432)
43 PRK13923 putative spore coat p 93.1 0.015 3.3E-07 53.2 -1.5 49 12-62 3-57 (170)
44 KOG2656 DNA methyltransferase 93.0 0.3 6.4E-06 50.1 7.3 86 35-121 74-190 (445)
45 PF13873 Myb_DNA-bind_5: Myb/S 93.0 0.035 7.5E-07 43.4 0.5 49 13-61 1-69 (78)
46 PF09111 SLIDE: SLIDE; InterP 91.1 0.3 6.4E-06 42.3 4.1 52 64-115 46-113 (118)
47 KOG4282 Transcription factor G 90.4 0.24 5.1E-06 49.3 3.3 49 67-115 54-116 (345)
48 PF12776 Myb_DNA-bind_3: Myb/S 88.7 0.78 1.7E-05 36.7 4.5 45 69-113 1-63 (96)
49 COG5118 BDP1 Transcription ini 86.0 0.89 1.9E-05 46.7 4.1 47 68-114 366-412 (507)
50 KOG1194 Predicted DNA-binding 81.8 2.1 4.6E-05 44.9 4.9 48 66-113 186-233 (534)
51 KOG4282 Transcription factor G 79.4 0.87 1.9E-05 45.3 1.1 48 14-61 54-113 (345)
52 PF08281 Sigma70_r4_2: Sigma-7 78.7 3.1 6.7E-05 29.9 3.6 41 72-113 12-52 (54)
53 PF09111 SLIDE: SLIDE; InterP 75.7 1.9 4.1E-05 37.3 2.1 34 11-44 46-82 (118)
54 smart00595 MADF subfamily of S 75.6 3.1 6.8E-05 32.8 3.2 23 89-112 30-52 (89)
55 COG5118 BDP1 Transcription ini 73.0 1.8 3.9E-05 44.5 1.4 46 13-60 364-409 (507)
56 PF11626 Rap1_C: TRF2-interact 67.7 5.1 0.00011 32.4 2.7 22 12-33 45-74 (87)
57 KOG4167 Predicted DNA-binding 66.0 7.6 0.00016 43.1 4.4 45 68-112 620-664 (907)
58 KOG4468 Polycomb-group transcr 65.2 9.5 0.00021 41.5 4.8 52 67-118 88-149 (782)
59 PF13325 MCRS_N: N-terminal re 62.0 13 0.00028 35.2 4.6 44 69-113 1-47 (199)
60 PRK11179 DNA-binding transcrip 58.8 13 0.00029 32.6 3.9 45 72-117 8-53 (153)
61 PF13404 HTH_AsnC-type: AsnC-t 58.0 16 0.00035 25.8 3.5 38 73-111 3-41 (42)
62 PF11035 SnAPC_2_like: Small n 54.9 33 0.00071 34.8 6.3 45 67-111 21-69 (344)
63 PF04545 Sigma70_r4: Sigma-70, 53.8 19 0.00041 25.5 3.4 41 73-114 7-47 (50)
64 TIGR02985 Sig70_bacteroi1 RNA 51.7 23 0.00051 29.7 4.2 38 75-113 118-155 (161)
65 PF07750 GcrA: GcrA cell cycle 50.8 12 0.00025 34.1 2.3 41 69-110 2-42 (162)
66 PRK11169 leucine-responsive tr 49.7 18 0.0004 32.1 3.4 44 72-116 13-57 (164)
67 KOG2009 Transcription initiati 49.1 18 0.00038 39.3 3.7 48 66-113 408-455 (584)
68 KOG4329 DNA-binding protein [G 49.0 44 0.00096 34.6 6.2 45 68-112 278-323 (445)
69 PF01388 ARID: ARID/BRIGHT DNA 48.2 29 0.00062 27.7 4.0 40 75-114 38-90 (92)
70 PF11626 Rap1_C: TRF2-interact 46.9 18 0.0004 29.2 2.7 17 63-79 43-59 (87)
71 KOG0384 Chromodomain-helicase 45.8 21 0.00045 41.9 3.7 77 13-96 1132-1209(1373)
72 KOG4167 Predicted DNA-binding 45.7 6.2 0.00013 43.8 -0.3 44 14-59 619-662 (907)
73 smart00501 BRIGHT BRIGHT, ARID 42.9 36 0.00078 27.4 3.8 40 75-114 34-86 (93)
74 cd08319 Death_RAIDD Death doma 41.9 24 0.00052 28.7 2.6 29 75-104 2-30 (83)
75 TIGR02937 sigma70-ECF RNA poly 41.5 36 0.00079 27.6 3.7 37 77-114 117-153 (158)
76 PF04504 DUF573: Protein of un 41.4 32 0.0007 28.6 3.4 47 68-114 5-64 (98)
77 KOG4468 Polycomb-group transcr 41.1 18 0.0004 39.4 2.3 47 14-61 88-143 (782)
78 PF13404 HTH_AsnC-type: AsnC-t 40.8 5.7 0.00012 28.1 -1.0 38 20-59 3-40 (42)
79 PRK11179 DNA-binding transcrip 40.2 7.1 0.00015 34.4 -0.8 45 19-65 8-52 (153)
80 PF07638 Sigma70_ECF: ECF sigm 39.5 40 0.00087 30.4 4.0 39 73-112 138-176 (185)
81 PRK11169 leucine-responsive tr 38.0 6.9 0.00015 34.9 -1.2 45 19-65 13-57 (164)
82 PF10545 MADF_DNA_bdg: Alcohol 37.2 22 0.00048 27.0 1.7 26 88-113 28-54 (85)
83 cd08803 Death_ank3 Death domai 35.9 38 0.00082 27.5 2.9 31 74-105 3-33 (84)
84 KOG2656 DNA methyltransferase 35.7 22 0.00048 37.0 1.8 49 12-61 128-181 (445)
85 PRK09413 IS2 repressor TnpA; R 34.8 39 0.00084 28.7 2.9 45 13-61 9-53 (121)
86 cd06171 Sigma70_r4 Sigma70, re 34.8 69 0.0015 21.3 3.7 37 74-111 14-50 (55)
87 smart00344 HTH_ASNC helix_turn 32.3 53 0.0012 26.5 3.3 45 73-118 3-48 (108)
88 PRK09652 RNA polymerase sigma 31.5 66 0.0014 27.6 3.9 31 81-112 139-169 (182)
89 PF09420 Nop16: Ribosome bioge 31.4 85 0.0019 28.2 4.7 46 66-111 113-162 (164)
90 PRK11924 RNA polymerase sigma 30.8 66 0.0014 27.5 3.8 29 83-112 138-166 (179)
91 KOG2009 Transcription initiati 29.5 33 0.00071 37.3 2.0 48 10-59 405-452 (584)
92 cd08317 Death_ank Death domain 29.4 41 0.00088 26.8 2.1 29 75-104 4-32 (84)
93 PRK09643 RNA polymerase sigma 28.1 81 0.0018 28.3 4.0 32 80-112 144-175 (192)
94 PRK04217 hypothetical protein; 27.1 95 0.0021 26.6 4.0 44 69-114 42-85 (110)
95 PF11035 SnAPC_2_like: Small n 26.8 85 0.0019 31.9 4.2 86 14-113 21-127 (344)
96 PRK12523 RNA polymerase sigma 26.6 1.3E+02 0.0028 26.2 5.0 40 78-118 127-166 (172)
97 cd08318 Death_NMPP84 Death dom 26.1 60 0.0013 26.2 2.5 26 78-104 10-35 (86)
98 PRK12512 RNA polymerase sigma 25.7 1.2E+02 0.0027 26.6 4.7 31 84-115 145-175 (184)
99 PRK09641 RNA polymerase sigma 25.6 93 0.002 27.2 3.9 29 84-113 150-178 (187)
100 PF05263 DUF722: Protein of un 25.5 94 0.002 27.5 3.8 42 73-116 84-127 (130)
101 smart00005 DEATH DEATH domain, 24.8 57 0.0012 25.4 2.1 30 74-104 4-34 (88)
102 TIGR02954 Sig70_famx3 RNA poly 24.8 1E+02 0.0022 26.7 3.9 29 85-114 134-162 (169)
103 cd08804 Death_ank2 Death domai 24.7 65 0.0014 26.0 2.4 30 75-105 4-33 (84)
104 PF02954 HTH_8: Bacterial regu 24.1 97 0.0021 21.5 3.0 35 73-108 5-39 (42)
105 PRK09637 RNA polymerase sigma 24.1 1E+02 0.0023 27.4 3.9 31 82-113 118-148 (181)
106 PRK12515 RNA polymerase sigma 23.7 1.1E+02 0.0025 27.0 4.1 30 83-113 144-173 (189)
107 TIGR02939 RpoE_Sigma70 RNA pol 23.4 85 0.0018 27.5 3.2 28 85-113 153-180 (190)
108 PF07750 GcrA: GcrA cell cycle 23.3 41 0.00088 30.6 1.1 38 16-56 2-39 (162)
109 cd08805 Death_ank1 Death domai 23.0 70 0.0015 26.1 2.3 22 75-96 4-25 (84)
110 KOG3841 TEF-1 and related tran 22.8 3.7E+02 0.008 28.2 7.9 30 5-34 67-96 (455)
111 PRK09648 RNA polymerase sigma 22.7 1.2E+02 0.0027 26.7 4.1 33 81-114 150-182 (189)
112 PLN03105 TCP24 transcription f 22.3 1.2E+02 0.0026 29.9 4.1 32 297-330 249-280 (324)
113 PRK12529 RNA polymerase sigma 21.6 1.9E+02 0.0041 25.5 5.0 37 81-118 138-174 (178)
114 COG1522 Lrp Transcriptional re 21.3 1E+02 0.0023 26.2 3.3 45 72-117 7-52 (154)
115 TIGR02948 SigW_bacill RNA poly 21.1 1.2E+02 0.0026 26.5 3.6 28 86-114 152-179 (187)
116 PRK09047 RNA polymerase factor 20.9 1.5E+02 0.0033 25.1 4.2 29 84-113 120-148 (161)
117 KOG1194 Predicted DNA-binding 20.8 47 0.001 35.3 1.1 48 10-59 183-230 (534)
118 PRK11923 algU RNA polymerase s 20.7 1.3E+02 0.0027 26.7 3.8 27 86-113 154-180 (193)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=1.3e-37 Score=311.46 Aligned_cols=136 Identities=61% Similarity=1.138 Sum_probs=130.3
Q ss_pred CCCCCCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccccCCCCccCCCChHHHHHHHH
Q 018154 1 MGRAPCCDKSGLKKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFAFEEEETIIQ 80 (360)
Q Consensus 1 mgR~p~~~K~~lkKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L~p~lkkg~WT~EEDe~Lle 80 (360)
|||+|||+|.+++||+||+|||++|+++|.+||..+|..||+.++++|+++|||+||.++|+|.+++++||.|||++|++
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999779999999999999999999999999999999999
Q ss_pred HHHHhCCcchhhcccCCCCCHHHHHHHHHHHhhHHHhhCCCCCCCcCcccchhhhc
Q 018154 81 LHSILGNKWSAIAARLPGRTDNEIKNYWNTHIRKRLLRMGIDPVTHSPRLDLLDLS 136 (360)
Q Consensus 81 lv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLkk~l~k~g~~p~t~~~~~~Ll~~s 136 (360)
+|++||++|++||+.|+|||+++||+||+.++++++++.+++|.++++....-+..
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~kpl~e~E~~~ 136 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPLSEVENGE 136 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCCCCcccccccc
Confidence 99999999999999999999999999999999999999999999998876654433
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=9.1e-37 Score=287.12 Aligned_cols=127 Identities=66% Similarity=1.302 Sum_probs=123.4
Q ss_pred CCCCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccccCCCCccCCCChHHHHHHHHHH
Q 018154 3 RAPCCDKSGLKKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFAFEEEETIIQLH 82 (360)
Q Consensus 3 R~p~~~K~~lkKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L~p~lkkg~WT~EEDe~Llelv 82 (360)
|+|||+|+++++++||+|||++|+++|++||..+|..||+.++++|+++|||+||.++|+|.+++++||.|||++|+++|
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 78999999999999999999999999999999999999999977999999999999999999999999999999999999
Q ss_pred HHhCCcchhhcccCCCCCHHHHHHHHHHHhhHHHhhCCCCCCCcCcc
Q 018154 83 SILGNKWSAIAARLPGRTDNEIKNYWNTHIRKRLLRMGIDPVTHSPR 129 (360)
Q Consensus 83 ~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLkk~l~k~g~~p~t~~~~ 129 (360)
..||++|+.||+.|||||+++||+||+.++++++.+.++.|.++++.
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 99999999999999999999999999999999999999999998773
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=7.8e-35 Score=274.04 Aligned_cols=121 Identities=66% Similarity=1.159 Sum_probs=113.9
Q ss_pred CCCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccccCCCCccCCCChHHHHHHHHHHHHhCCc
Q 018154 9 KSGLKKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFAFEEEETIIQLHSILGNK 88 (360)
Q Consensus 9 K~~lkKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L~p~lkkg~WT~EEDe~Llelv~~~G~k 88 (360)
|+.+.||+||+|||++|+++|++||+++|..||+.+|++|++++||+||.+||+|++++|.||+|||.+|+++|.++|++
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 chhhcccCCCCCHHHHHHHHHHHhhHHHhhCCCCCCCcCcc
Q 018154 89 WSAIAARLPGRTDNEIKNYWNTHIRKRLLRMGIDPVTHSPR 129 (360)
Q Consensus 89 Ws~IA~~LpGRT~~qcKnRW~~lLkk~l~k~g~~p~t~~~~ 129 (360)
|+.||++|||||+++||++|+..+++++.+.++++.+..+.
T Consensus 84 Ws~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~~~~~~~~~~ 124 (238)
T KOG0048|consen 84 WSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMGIDPSTHRPS 124 (238)
T ss_pred HHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcCCCCCccccc
Confidence 99999999999999999999999999999988777665443
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.76 E-value=2.9e-19 Score=185.31 Aligned_cols=111 Identities=25% Similarity=0.478 Sum_probs=103.2
Q ss_pred CCCCCCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccccCCCCccCCCChHHHHHHHH
Q 018154 1 MGRAPCCDKSGLKKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFAFEEEETIIQ 80 (360)
Q Consensus 1 mgR~p~~~K~~lkKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L~p~lkkg~WT~EEDe~Lle 80 (360)
+||+.-...|++++|+||++||.+|+.+|.+||..+|.+|-..+| +|+..|||+||.++|....|++.|+..||+.|+.
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-CcchhhcccCCCCCHHHHHHHHHHHh
Q 018154 81 LHSILG-NKWSAIAARLPGRTDNEIKNYWNTHI 112 (360)
Q Consensus 81 lv~~~G-~kWs~IA~~LpGRT~~qcKnRW~~lL 112 (360)
+|.+|| ++|.+||..||.||.+|.+.|=...+
T Consensus 426 ~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~ 458 (939)
T KOG0049|consen 426 AVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLI 458 (939)
T ss_pred HHHHHccchHHHHHHHccccchhHHHHHHHHHH
Confidence 999999 89999999999999965544433333
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.73 E-value=3.2e-18 Score=177.66 Aligned_cols=146 Identities=20% Similarity=0.361 Sum_probs=118.1
Q ss_pred CCCCCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCccccccc-------------------------------
Q 018154 7 CDKSGLKKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRL------------------------------- 55 (360)
Q Consensus 7 ~~K~~lkKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~------------------------------- 55 (360)
...|+++|..|+.|||++|..+...+|..+|.+||..+|.+|+..||..
T Consensus 246 ~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~~~~ 325 (939)
T KOG0049|consen 246 ELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKITSI 325 (939)
T ss_pred hcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHhhc
Confidence 4578888888888888888888888888888888888876677777765
Q ss_pred -----------------------ccccccCCCCccCCCChHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHH
Q 018154 56 -----------------------RWTNYLRPDIKRGRFAFEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTH 111 (360)
Q Consensus 56 -----------------------RW~n~L~p~lkkg~WT~EEDe~Llelv~~~G-~kWs~IA~~LpGRT~~qcKnRW~~l 111 (360)
||...|+|.+++|+||.+||.+|+.+|.+|| ..|.+|...+|||++.|||.||.+.
T Consensus 326 nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nv 405 (939)
T KOG0049|consen 326 NSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNV 405 (939)
T ss_pred cCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHH
Confidence 9999999999999999999999999999999 5699999999999999999999999
Q ss_pred hhHHHhhCCCCCCCcCcccchhhhccccCCCCCCCchhhhhhccCCCc
Q 018154 112 IRKRLLRMGIDPVTHSPRLDLLDLSSILSSSFYSSSQMNISRLVGAQT 159 (360)
Q Consensus 112 Lkk~l~k~g~~p~t~~~~~~Ll~~ssil~Ss~~~sS~~n~s~l~~~~~ 159 (360)
|..+.++..|...++.. |+.+-..+|- +...++..+++.+.
T Consensus 406 L~~s~K~~rW~l~edeq---L~~~V~~YG~----g~WakcA~~Lp~~t 446 (939)
T KOG0049|consen 406 LNRSAKVERWTLVEDEQ---LLYAVKVYGK----GNWAKCAMLLPKKT 446 (939)
T ss_pred HHHhhccCceeecchHH---HHHHHHHHcc----chHHHHHHHccccc
Confidence 99998885555555444 4444444433 34677777776543
No 6
>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=99.58 E-value=5.1e-16 Score=116.28 Aligned_cols=60 Identities=42% Similarity=0.924 Sum_probs=55.4
Q ss_pred CCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccccCCCCccCCCChHHHHHH
Q 018154 17 WTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFAFEEEETI 78 (360)
Q Consensus 17 WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L~p~lkkg~WT~EEDe~L 78 (360)
||+|||++|+++|.+|| .+|..||+.|| .|++.+|+.||.++|+|.+++++||.+||.+|
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 79999999997 89999999999999999999999999999987
No 7
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.54 E-value=5.8e-15 Score=152.41 Aligned_cols=108 Identities=29% Similarity=0.502 Sum_probs=102.8
Q ss_pred CCCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccccCCCCccCCCChHHHHHHHHHHHHhCCc
Q 018154 9 KSGLKKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFAFEEEETIIQLHSILGNK 88 (360)
Q Consensus 9 K~~lkKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L~p~lkkg~WT~EEDe~Llelv~~~G~k 88 (360)
...++.|.|+..||+.|..+|+++|+.+|.+||+.+. -|++++|+.||.++++|.+++..|+.|||+.|+.+...+|..
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ 93 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch
Confidence 3456789999999999999999999999999999998 699999999999999999999999999999999999999999
Q ss_pred chhhcccCCCCCHHHHHHHHHHHhhHHHh
Q 018154 89 WSAIAARLPGRTDNEIKNYWNTHIRKRLL 117 (360)
Q Consensus 89 Ws~IA~~LpGRT~~qcKnRW~~lLkk~l~ 117 (360)
|+.||..++||+..+|.+||...+.....
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 99999999999999999999999977665
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.51 E-value=3.7e-15 Score=152.06 Aligned_cols=105 Identities=26% Similarity=0.568 Sum_probs=100.2
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccccCCCCccCCCChHHHHHHHHHHHHhCCcchh
Q 018154 12 LKKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFAFEEEETIIQLHSILGNKWSA 91 (360)
Q Consensus 12 lkKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L~p~lkkg~WT~EEDe~Llelv~~~G~kWs~ 91 (360)
++.|.|+.-||+.|..+|.+||.+.|++|++.+. .++++||+.||..+|+|.+++..|+.|||++|+.+.+.+...|..
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 5789999999999999999999999999999998 999999999999999999999999999999999999999999999
Q ss_pred hcccCCCCCHHHHHHHHHHHhhHHHhh
Q 018154 92 IAARLPGRTDNEIKNYWNTHIRKRLLR 118 (360)
Q Consensus 92 IA~~LpGRT~~qcKnRW~~lLkk~l~k 118 (360)
||..| ||+++||-.||.+++......
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s~ 109 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVSY 109 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHhh
Confidence 99999 999999999999999765544
No 9
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.47 E-value=1.6e-14 Score=136.86 Aligned_cols=91 Identities=20% Similarity=0.406 Sum_probs=78.8
Q ss_pred cCCCCcccccccccccccCCCCccCCCChHHHHHHHHHHHHhC-CcchhhcccC-CCCCHHHHHHHHHHHhhHHHhhCCC
Q 018154 44 AGLQRCGKSCRLRWTNYLRPDIKRGRFAFEEEETIIQLHSILG-NKWSAIAARL-PGRTDNEIKNYWNTHIRKRLLRMGI 121 (360)
Q Consensus 44 l~~~Rt~kqCR~RW~n~L~p~lkkg~WT~EEDe~Llelv~~~G-~kWs~IA~~L-pGRT~~qcKnRW~~lLkk~l~k~g~ 121 (360)
++ +|++.-|- ++.+++++||+|||++|+++|++|| .+|..||+.+ ++|+++|||.||.++|++.+++
T Consensus 10 ~~-~~~~pcc~-------K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~k--- 78 (249)
T PLN03212 10 VS-KKTTPCCT-------KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKR--- 78 (249)
T ss_pred CC-CCCCCCcc-------cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhccc---
Confidence 44 55555443 4578999999999999999999999 6899999988 6999999999999999999998
Q ss_pred CCCCcCcccchhhhccccCCCCCC
Q 018154 122 DPVTHSPRLDLLDLSSILSSSFYS 145 (360)
Q Consensus 122 ~p~t~~~~~~Ll~~ssil~Ss~~~ 145 (360)
++|+.+++..|+.+...+|+.|..
T Consensus 79 gpWT~EED~lLlel~~~~GnKWs~ 102 (249)
T PLN03212 79 GGITSDEEDLILRLHRLLGNRWSL 102 (249)
T ss_pred CCCChHHHHHHHHHHHhccccHHH
Confidence 677777888888999999998854
No 10
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.45 E-value=3.8e-14 Score=133.85 Aligned_cols=89 Identities=20% Similarity=0.341 Sum_probs=76.4
Q ss_pred CCCCccCCCChHHHHHHHHHHHHhC-CcchhhcccCC-CCCHHHHHHHHHHHhhHHHhhCCCCCCCcCcccchhhhcccc
Q 018154 62 RPDIKRGRFAFEEEETIIQLHSILG-NKWSAIAARLP-GRTDNEIKNYWNTHIRKRLLRMGIDPVTHSPRLDLLDLSSIL 139 (360)
Q Consensus 62 ~p~lkkg~WT~EEDe~Llelv~~~G-~kWs~IA~~Lp-GRT~~qcKnRW~~lLkk~l~k~g~~p~t~~~~~~Ll~~ssil 139 (360)
++.+.+|+||.|||++|+++|++|| ++|..||+.++ +|++++||.||.++|++.+++ ..++.+++..++.++.++
T Consensus 4 k~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikr---g~fT~eEe~~Ii~lH~~~ 80 (238)
T KOG0048|consen 4 NPELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKR---GNFSDEEEDLIIKLHALL 80 (238)
T ss_pred CccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccC---CCCCHHHHHHHHHHHHHH
Confidence 3445689999999999999999999 77999999999 999999999999999999999 556666777888999999
Q ss_pred CCCCCCCchhhhhhccCC
Q 018154 140 SSSFYSSSQMNISRLVGA 157 (360)
Q Consensus 140 ~Ss~~~sS~~n~s~l~~~ 157 (360)
|+.|. .-...|+|.
T Consensus 81 GNrWs----~IA~~LPGR 94 (238)
T KOG0048|consen 81 GNRWS----LIAGRLPGR 94 (238)
T ss_pred CcHHH----HHHhhCCCc
Confidence 99983 444556665
No 11
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.45 E-value=1.1e-13 Score=144.50 Aligned_cols=104 Identities=28% Similarity=0.628 Sum_probs=94.4
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccccCCCC--ccCCCChHHHHHHHHHHH-------
Q 018154 13 KKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYLRPDI--KRGRFAFEEEETIIQLHS------- 83 (360)
Q Consensus 13 kKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L~p~l--kkg~WT~EEDe~Llelv~------- 83 (360)
.+|+||+||++.|..+|.++| +.|..|++.|+ |.+..||+||+++....- +++.||.||++.|+++|.
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 99999999997 999999999999999884 899999999999999995
Q ss_pred Hh-------------------CCcchhhcccCCCCCHHHHHHHHHHHhhHHHhhC
Q 018154 84 IL-------------------GNKWSAIAARLPGRTDNEIKNYWNTHIRKRLLRM 119 (360)
Q Consensus 84 ~~-------------------G~kWs~IA~~LpGRT~~qcKnRW~~lLkk~l~k~ 119 (360)
.+ +-.|+.|+..+..|+.-+||-+|+.++...+...
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~ 514 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNK 514 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhc
Confidence 23 1249999999999999999999999997766553
No 12
>PLN03091 hypothetical protein; Provisional
Probab=99.37 E-value=2.4e-13 Score=137.44 Aligned_cols=81 Identities=17% Similarity=0.388 Sum_probs=74.1
Q ss_pred CCCccCCCChHHHHHHHHHHHHhC-CcchhhcccC-CCCCHHHHHHHHHHHhhHHHhhCCCCCCCcCcccchhhhccccC
Q 018154 63 PDIKRGRFAFEEEETIIQLHSILG-NKWSAIAARL-PGRTDNEIKNYWNTHIRKRLLRMGIDPVTHSPRLDLLDLSSILS 140 (360)
Q Consensus 63 p~lkkg~WT~EEDe~Llelv~~~G-~kWs~IA~~L-pGRT~~qcKnRW~~lLkk~l~k~g~~p~t~~~~~~Ll~~ssil~ 140 (360)
..+++++||+|||++|+++|.+|| .+|..||+.+ +||+++|||.||.++|++.+++ .+|+.+++..|+.+...+|
T Consensus 10 qklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkK---gpWT~EED~lLLeL~k~~G 86 (459)
T PLN03091 10 QKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKR---GTFSQQEENLIIELHAVLG 86 (459)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccC---CCCCHHHHHHHHHHHHHhC
Confidence 568899999999999999999999 6899999988 4999999999999999999988 6888888999999999999
Q ss_pred CCCCCC
Q 018154 141 SSFYSS 146 (360)
Q Consensus 141 Ss~~~s 146 (360)
..|...
T Consensus 87 nKWskI 92 (459)
T PLN03091 87 NRWSQI 92 (459)
T ss_pred cchHHH
Confidence 998554
No 13
>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=99.32 E-value=1.5e-12 Score=94.09 Aligned_cols=46 Identities=30% Similarity=0.668 Sum_probs=41.8
Q ss_pred cCCCChHHHHHHHHHHHHhCCc-chhhcccCC-CCCHHHHHHHHHHHh
Q 018154 67 RGRFAFEEEETIIQLHSILGNK-WSAIAARLP-GRTDNEIKNYWNTHI 112 (360)
Q Consensus 67 kg~WT~EEDe~Llelv~~~G~k-Ws~IA~~Lp-GRT~~qcKnRW~~lL 112 (360)
+++||.|||++|+++|.+||.. |..||..|| |||..||+.||+.++
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 5799999999999999999977 999999999 999999999999874
No 14
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.30 E-value=1.2e-12 Score=98.07 Aligned_cols=51 Identities=33% Similarity=0.644 Sum_probs=43.8
Q ss_pred CChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHHhhHHHhhCC
Q 018154 70 FAFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHIRKRLLRMG 120 (360)
Q Consensus 70 WT~EEDe~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLkk~l~k~g 120 (360)
||.|||++|+++|..||.+|..||.+|+.||+.+|+.||+..|++.+.+..
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~ 51 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGP 51 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSS
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCC
Confidence 999999999999999999999999999669999999999998887766633
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=99.28 E-value=4.1e-13 Score=96.98 Aligned_cols=48 Identities=44% Similarity=0.874 Sum_probs=43.1
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCccccccccccccc
Q 018154 14 KGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYL 61 (360)
Q Consensus 14 Kg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L 61 (360)
|++||+|||++|+++|.+||.++|..||..+|.+|++.||+.||.++|
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 689999999999999999997679999999988999999999998864
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.14 E-value=6e-11 Score=82.71 Aligned_cols=47 Identities=38% Similarity=0.800 Sum_probs=44.4
Q ss_pred cCCCChHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHHhh
Q 018154 67 RGRFAFEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHIR 113 (360)
Q Consensus 67 kg~WT~EEDe~Llelv~~~G-~kWs~IA~~LpGRT~~qcKnRW~~lLk 113 (360)
+++||++||.+|+.++..|| .+|..||..|++||+.+|+.||+.+++
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 17
>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=99.01 E-value=4.6e-10 Score=77.17 Aligned_cols=44 Identities=32% Similarity=0.675 Sum_probs=41.8
Q ss_pred CCChHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHHh
Q 018154 69 RFAFEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHI 112 (360)
Q Consensus 69 ~WT~EEDe~Llelv~~~G-~kWs~IA~~LpGRT~~qcKnRW~~lL 112 (360)
+||.|||.+|+.++..|| .+|..||..+++|+..+|+.||..++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 99999999999999999999998763
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.94 E-value=2.3e-10 Score=79.69 Aligned_cols=48 Identities=44% Similarity=0.899 Sum_probs=45.0
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccccC
Q 018154 14 KGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYLR 62 (360)
Q Consensus 14 Kg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L~ 62 (360)
+++||++||++|+.++..+|..+|..||+.++ +|++.+|+.||..+++
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 47899999999999999999889999999998 9999999999998764
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.91 E-value=5e-10 Score=117.51 Aligned_cols=119 Identities=24% Similarity=0.327 Sum_probs=93.5
Q ss_pred CcCCCCHHHHHHHHHHHHHh----CCC-------------------CceecccccCCCCccccccc---ccccccCCCCc
Q 018154 13 KKGPWTPEEDQKLIDYIQKH----GYG-------------------NWRTLPKNAGLQRCGKSCRL---RWTNYLRPDIK 66 (360)
Q Consensus 13 kKg~WT~EEDe~L~~lV~k~----G~~-------------------nW~~IAk~l~~~Rt~kqCR~---RW~n~L~p~lk 66 (360)
+.+.|+++||+.|...|..| |-. =|..|.+.|| -|+.+.+.. |-.+.+.+ +
T Consensus 307 ~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~--~ 383 (607)
T KOG0051|consen 307 NLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFEN--K 383 (607)
T ss_pred hhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCcccc--c
Confidence 34899999999999999876 110 1678888898 599998877 43444443 9
Q ss_pred cCCCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHHhhHHHhhCCCCCCCcCcccchhhhc
Q 018154 67 RGRFAFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHIRKRLLRMGIDPVTHSPRLDLLDLS 136 (360)
Q Consensus 67 kg~WT~EEDe~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLkk~l~k~g~~p~t~~~~~~Ll~~s 136 (360)
+|.||+||++.|..+|.++|+.|..|+..| ||.+.+|+.||+.+.+..-+ .+-.+|+..+...|+++.
T Consensus 384 rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~-~~r~~Ws~eEe~~Llk~V 451 (607)
T KOG0051|consen 384 RGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSK-RNRGAWSIEEEEKLLKTV 451 (607)
T ss_pred cCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccc-cccCcchHHHHHHHHHHH
Confidence 999999999999999999999999999999 99999999999999876642 233555555555555443
No 20
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.78 E-value=1.7e-09 Score=74.38 Aligned_cols=44 Identities=43% Similarity=0.885 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccc
Q 018154 16 PWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNY 60 (360)
Q Consensus 16 ~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~ 60 (360)
+||++||++|+.++.++|..+|..||+.++ +|++.+|+.||.++
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 599999999999999999889999999998 89999999999765
No 21
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.28 E-value=3.4e-07 Score=94.60 Aligned_cols=79 Identities=23% Similarity=0.371 Sum_probs=73.2
Q ss_pred CccCCCChHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHHhhHHHhhCCCCCCCcCcccchhhhccccCCCC
Q 018154 65 IKRGRFAFEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHIRKRLLRMGIDPVTHSPRLDLLDLSSILSSSF 143 (360)
Q Consensus 65 lkkg~WT~EEDe~Llelv~~~G-~kWs~IA~~LpGRT~~qcKnRW~~lLkk~l~k~g~~p~t~~~~~~Ll~~ssil~Ss~ 143 (360)
++.|-|+.-||++|-.+|.+|| +.|++|++.++..+..||+.||+.+|.+.+++ ..|++.++..|+++..+++..|
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~---tews~eederlLhlakl~p~qw 81 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKK---TEWSREEDERLLHLAKLEPTQW 81 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhh---hhhhhhHHHHHHHHHHhcCCcc
Confidence 5778999999999999999999 78999999999999999999999999999988 7788899999999999999998
Q ss_pred CCC
Q 018154 144 YSS 146 (360)
Q Consensus 144 ~~s 146 (360)
...
T Consensus 82 rtI 84 (617)
T KOG0050|consen 82 RTI 84 (617)
T ss_pred chH
Confidence 543
No 22
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.27 E-value=5.2e-08 Score=101.39 Aligned_cols=97 Identities=32% Similarity=0.678 Sum_probs=83.7
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccccCC--CCccCCCChHHHHHHHHHHHHhC----
Q 018154 13 KKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYLRP--DIKRGRFAFEEEETIIQLHSILG---- 86 (360)
Q Consensus 13 kKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L~p--~lkkg~WT~EEDe~Llelv~~~G---- 86 (360)
.+|.||+||+..|...+.++| ..|..|.+.++ |-+..||+||+++..+ .+++++|+.||+++|...|...-
T Consensus 290 ~~~~wt~e~~~eL~~~~~~~~-~~w~~ig~~~~--rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e~~~~~~ 366 (512)
T COG5147 290 QRGKWTKEEEQELAKLVVEHG-GSWTEIGKLLG--RMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNEMRLEAQ 366 (512)
T ss_pred hhccCcccccccccccccccc-chhhHhhhhhc--cCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHHHHHHHh
Confidence 468999999999999999999 89999998775 9999999999999998 68889999999999999987432
Q ss_pred ----CcchhhcccCCCCCHHHHHHHHHHHh
Q 018154 87 ----NKWSAIAARLPGRTDNEIKNYWNTHI 112 (360)
Q Consensus 87 ----~kWs~IA~~LpGRT~~qcKnRW~~lL 112 (360)
-.|..|+.+++.|....|+.++..+.
T Consensus 367 ~~~~~~~~li~~~~~~~~~~~~~~~~~~~~ 396 (512)
T COG5147 367 QSSRILWLLIAQNIRNRLQHHCRDKYGVLI 396 (512)
T ss_pred hhhhhhHHHHHHhhhccccCCCCCcccccc
Confidence 34999999998888877776554443
No 23
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.52 E-value=3.4e-05 Score=58.49 Aligned_cols=49 Identities=14% Similarity=0.320 Sum_probs=42.9
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCc---eecccccCCCC-ccccccccccccc
Q 018154 13 KKGPWTPEEDQKLIDYIQKHGYGNW---RTLPKNAGLQR-CGKSCRLRWTNYL 61 (360)
Q Consensus 13 kKg~WT~EEDe~L~~lV~k~G~~nW---~~IAk~l~~~R-t~kqCR~RW~n~L 61 (360)
++-.||+||..+++++|..+|.++| ..|++.|+..| +..+|+.+...|.
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 4678999999999999999997799 99999887667 9999998877653
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.51 E-value=0.00011 Score=75.00 Aligned_cols=48 Identities=23% Similarity=0.421 Sum_probs=44.3
Q ss_pred CccCCCChHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHHh
Q 018154 65 IKRGRFAFEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHI 112 (360)
Q Consensus 65 lkkg~WT~EEDe~Llelv~~~G-~kWs~IA~~LpGRT~~qcKnRW~~lL 112 (360)
+-...||.+|+.+|++++..|| |+|..||.+++.|+..+||.+|.+++
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 4456899999999999999999 99999999999999999999998775
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=97.33 E-value=0.00041 Score=52.61 Aligned_cols=46 Identities=15% Similarity=0.239 Sum_probs=40.5
Q ss_pred cCCCChHHHHHHHHHHHHhCC-cc---hhhcccCC-CC-CHHHHHHHHHHHh
Q 018154 67 RGRFAFEEEETIIQLHSILGN-KW---SAIAARLP-GR-TDNEIKNYWNTHI 112 (360)
Q Consensus 67 kg~WT~EEDe~Llelv~~~G~-kW---s~IA~~Lp-GR-T~~qcKnRW~~lL 112 (360)
+-.||+||..++++++..+|. +| ..|+..|. .| |..+|+.+...+.
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 457999999999999999995 99 99999874 35 9999999988775
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.32 E-value=5.8e-05 Score=77.08 Aligned_cols=49 Identities=20% Similarity=0.643 Sum_probs=45.6
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCccccccccccccc
Q 018154 12 LKKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYL 61 (360)
Q Consensus 12 lkKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L 61 (360)
+-...||++|+-+|++++..+|-|||..||.++| .|++..|+++|.+++
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHH
Confidence 3457899999999999999999999999999999 999999999998765
No 27
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.14 E-value=0.00045 Score=64.60 Aligned_cols=100 Identities=22% Similarity=0.400 Sum_probs=73.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCceecccccCCC--Cccccccccccccc-CCCC--------------------ccCCCCh
Q 018154 16 PWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQ--RCGKSCRLRWTNYL-RPDI--------------------KRGRFAF 72 (360)
Q Consensus 16 ~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~--Rt~kqCR~RW~n~L-~p~l--------------------kkg~WT~ 72 (360)
+|++++|-+|+.+|.... +-+.|++.+.+. -|-+.+.+||+..| +|.+ .+..||.
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 699999999999999865 677777665532 34566778999876 3333 3468999
Q ss_pred HHHHHHHHHHHHhC---Ccchhhc----c-cCCCCCHHHHHHHHHHHhhHHHh
Q 018154 73 EEEETIIQLHSILG---NKWSAIA----A-RLPGRTDNEIKNYWNTHIRKRLL 117 (360)
Q Consensus 73 EEDe~Llelv~~~G---~kWs~IA----~-~LpGRT~~qcKnRW~~lLkk~l~ 117 (360)
+|+++|........ ..+.+|= . .-++||++++..+|..+.+..+.
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 99999999776654 3465652 2 23789999999999876555543
No 28
>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=97.13 E-value=0.00044 Score=62.60 Aligned_cols=52 Identities=19% Similarity=0.330 Sum_probs=45.6
Q ss_pred ccCCCChHHHHHHHHHHHHh---CC----cchhhcccCCCCCHHHHHHHHHHHhhHHHhh
Q 018154 66 KRGRFAFEEEETIIQLHSIL---GN----KWSAIAARLPGRTDNEIKNYWNTHIRKRLLR 118 (360)
Q Consensus 66 kkg~WT~EEDe~Llelv~~~---G~----kWs~IA~~LpGRT~~qcKnRW~~lLkk~l~k 118 (360)
+...||.|||.+|.+.|-.| |+ -...++..| +||+.+|.=||+..+|+....
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~ 61 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEE 61 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHH
Confidence 45789999999999999988 42 388899999 999999999999999987654
No 29
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.71 E-value=0.0016 Score=68.38 Aligned_cols=46 Identities=11% Similarity=0.276 Sum_probs=43.1
Q ss_pred ccCCCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHH
Q 018154 66 KRGRFAFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTH 111 (360)
Q Consensus 66 kkg~WT~EEDe~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~l 111 (360)
-++.||.+|..+|++++..||.+|.+||.++.+||..+|-.|+..+
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhc
Confidence 3568999999999999999999999999999999999999999766
No 30
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.70 E-value=0.0012 Score=68.17 Aligned_cols=44 Identities=11% Similarity=0.224 Sum_probs=42.1
Q ss_pred CCCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHH
Q 018154 68 GRFAFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTH 111 (360)
Q Consensus 68 g~WT~EEDe~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~l 111 (360)
..||.+|..+|++.+..||..|.+||.+++.||..||--|+.++
T Consensus 280 k~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 280 KNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 47999999999999999999999999999999999999999876
No 31
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.69 E-value=0.0012 Score=52.35 Aligned_cols=48 Identities=27% Similarity=0.461 Sum_probs=34.7
Q ss_pred CCCChHHHHHHHHHHHH------hC--C------cchhhcccC----CCCCHHHHHHHHHHHhhHH
Q 018154 68 GRFAFEEEETIIQLHSI------LG--N------KWSAIAARL----PGRTDNEIKNYWNTHIRKR 115 (360)
Q Consensus 68 g~WT~EEDe~Llelv~~------~G--~------kWs~IA~~L----pGRT~~qcKnRW~~lLkk~ 115 (360)
..||.+|...||+++.. ++ + .|..||..| ..||+.||+.||.++.+.-
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Y 67 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKY 67 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Confidence 47999999999999877 21 1 399999887 3599999999999976543
No 32
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.41 E-value=0.00085 Score=69.33 Aligned_cols=46 Identities=20% Similarity=0.551 Sum_probs=42.9
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccc
Q 018154 13 KKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNY 60 (360)
Q Consensus 13 kKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~ 60 (360)
....||.+|..+|+++|.+|| .+|.+||+++| +|+..||..|+.+.
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 566999999999999999999 89999999999 99999999998764
No 33
>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=96.37 E-value=0.0038 Score=48.60 Aligned_cols=51 Identities=18% Similarity=0.352 Sum_probs=32.7
Q ss_pred cCCCChHHHHHHHHHHHHhC-------Cc--chhhcccCC-CCCHHHHHHHHHHHhhHHHh
Q 018154 67 RGRFAFEEEETIIQLHSILG-------NK--WSAIAARLP-GRTDNEIKNYWNTHIRKRLL 117 (360)
Q Consensus 67 kg~WT~EEDe~Llelv~~~G-------~k--Ws~IA~~Lp-GRT~~qcKnRW~~lLkk~l~ 117 (360)
+.+||.|||..|+..|..+. ++ |.+++..-+ .+|-...|+||...|+++..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~ 62 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR 62 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence 35799999999999997653 11 999998877 89999999999999877653
No 34
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.25 E-value=0.0024 Score=67.19 Aligned_cols=49 Identities=20% Similarity=0.546 Sum_probs=44.4
Q ss_pred CCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccc
Q 018154 10 SGLKKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNY 60 (360)
Q Consensus 10 ~~lkKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~ 60 (360)
....++.||.+|+-+|+++|.+|| .+|.+||.+++ +|+..+|..|+.+.
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie~y~-ddW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIEMYG-DDWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred cccCCCCccHHHHHHHHHHHHHhc-ccHHHHHhccC-CCCHHHHHHHHHhc
Confidence 345678999999999999999999 89999999999 99999999987654
No 35
>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=95.92 E-value=0.0023 Score=49.80 Aligned_cols=52 Identities=31% Similarity=0.572 Sum_probs=33.2
Q ss_pred cCCCCHHHHHHHHHHHHHhCC------CC--ceecccccCCCCcccccccccccccCCCC
Q 018154 14 KGPWTPEEDQKLIDYIQKHGY------GN--WRTLPKNAGLQRCGKSCRLRWTNYLRPDI 65 (360)
Q Consensus 14 Kg~WT~EEDe~L~~lV~k~G~------~n--W~~IAk~l~~~Rt~kqCR~RW~n~L~p~l 65 (360)
+.+||.|||+.|+++|.++.. ++ |..+++.-+..++-.+-|+||.+.|.+..
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 468999999999999976631 12 99999887768899999999999887643
No 36
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.89 E-value=0.0068 Score=55.50 Aligned_cols=52 Identities=15% Similarity=0.263 Sum_probs=42.8
Q ss_pred CccCCCChHHHHHHHHHHHHhCCc-------chhhcccCCCCCHHHHHHHHHHHhhHHHh
Q 018154 65 IKRGRFAFEEEETIIQLHSILGNK-------WSAIAARLPGRTDNEIKNYWNTHIRKRLL 117 (360)
Q Consensus 65 lkkg~WT~EEDe~Llelv~~~G~k-------Ws~IA~~LpGRT~~qcKnRW~~lLkk~l~ 117 (360)
.+...||.|||.+|.+.|..|+.. ...++..| +||..+|.-||+..+++...
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Ye 61 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQ 61 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHH
Confidence 356789999999999999998732 56666777 99999999999999886543
No 37
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.86 E-value=0.013 Score=45.83 Aligned_cols=49 Identities=29% Similarity=0.475 Sum_probs=40.1
Q ss_pred cCCCChHHHHHHHHHHHHhC----C-------------cchhhcccC-----CCCCHHHHHHHHHHHhhHH
Q 018154 67 RGRFAFEEEETIIQLHSILG----N-------------KWSAIAARL-----PGRTDNEIKNYWNTHIRKR 115 (360)
Q Consensus 67 kg~WT~EEDe~Llelv~~~G----~-------------kWs~IA~~L-----pGRT~~qcKnRW~~lLkk~ 115 (360)
+..||.+|.++|++++.+|. + .|..|+..| +.|+..++|.+|.++....
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~ 72 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKA 72 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHH
Confidence 45799999999999998873 1 199999776 3599999999999987543
No 38
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=95.78 E-value=0.0023 Score=58.05 Aligned_cols=49 Identities=27% Similarity=0.627 Sum_probs=42.0
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCC--C----CceecccccCCCCcccccccccccccC
Q 018154 12 LKKGPWTPEEDQKLIDYIQKHGY--G----NWRTLPKNAGLQRCGKSCRLRWTNYLR 62 (360)
Q Consensus 12 lkKg~WT~EEDe~L~~lV~k~G~--~----nW~~IAk~l~~~Rt~kqCR~RW~n~L~ 62 (360)
.+...||.|||.+|.+.|-+|-. + .+..+++.++ ||+..|.-||..+++
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VR 56 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVR 56 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHH
Confidence 46789999999999999999831 1 3888988885 999999999999886
No 39
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.70 E-value=0.0083 Score=59.83 Aligned_cols=46 Identities=26% Similarity=0.419 Sum_probs=42.9
Q ss_pred CCCChHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHHhh
Q 018154 68 GRFAFEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHIR 113 (360)
Q Consensus 68 g~WT~EEDe~Llelv~~~G-~kWs~IA~~LpGRT~~qcKnRW~~lLk 113 (360)
..|+.+|+.+|++...-+| ++|..||.+++.|+...||.+|..+..
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 4799999999999999999 999999999999999999999987753
No 40
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.38 E-value=0.0023 Score=50.78 Aligned_cols=48 Identities=27% Similarity=0.646 Sum_probs=32.7
Q ss_pred cCCCCHHHHHHHHHHHHHh------C--CC-----Cceeccccc---CCCCccccccccccccc
Q 018154 14 KGPWTPEEDQKLIDYIQKH------G--YG-----NWRTLPKNA---GLQRCGKSCRLRWTNYL 61 (360)
Q Consensus 14 Kg~WT~EEDe~L~~lV~k~------G--~~-----nW~~IAk~l---~~~Rt~kqCR~RW~n~L 61 (360)
+..||.+|...|++++... + .. -|..||..| |..|++.||+.||.+..
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 3579999999999999882 1 01 399999875 56899999999998753
No 41
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.30 E-value=0.07 Score=60.73 Aligned_cols=100 Identities=17% Similarity=0.307 Sum_probs=76.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCceecccccCCCCccccccc-------cccc----------------------------
Q 018154 15 GPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRL-------RWTN---------------------------- 59 (360)
Q Consensus 15 g~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~-------RW~n---------------------------- 59 (360)
+.|+.-|=..++.+..+||..+-..||..+. +++...++. ||..
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~ 903 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAI 903 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4588888888999999999888999999887 777766654 1111
Q ss_pred -------------c-c-CCCCccCCCChHHHHHHHHHHHHhC-Ccchhhccc------------CCCCCHHHHHHHHHHH
Q 018154 60 -------------Y-L-RPDIKRGRFAFEEEETIIQLHSILG-NKWSAIAAR------------LPGRTDNEIKNYWNTH 111 (360)
Q Consensus 60 -------------~-L-~p~lkkg~WT~EEDe~Llelv~~~G-~kWs~IA~~------------LpGRT~~qcKnRW~~l 111 (360)
. + -+..++..||.|||..|+-.+.+|| ++|.+|-.. +..||+..|..|...+
T Consensus 904 ~~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l 983 (1033)
T PLN03142 904 GKKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTL 983 (1033)
T ss_pred HHHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHH
Confidence 0 0 1122344699999999999999999 889998422 3589999999999999
Q ss_pred hhHH
Q 018154 112 IRKR 115 (360)
Q Consensus 112 Lkk~ 115 (360)
++-.
T Consensus 984 ~~~~ 987 (1033)
T PLN03142 984 IRLI 987 (1033)
T ss_pred HHHH
Confidence 8654
No 42
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=93.95 E-value=0.012 Score=58.69 Aligned_cols=47 Identities=21% Similarity=0.546 Sum_probs=44.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccccC
Q 018154 15 GPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYLR 62 (360)
Q Consensus 15 g~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L~ 62 (360)
--|+.+|+-+|+++....|-++|..||..+| .|....|+++|.+++.
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 4699999999999999999999999999999 9999999999988765
No 43
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=93.13 E-value=0.015 Score=53.24 Aligned_cols=49 Identities=22% Similarity=0.540 Sum_probs=39.4
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCC------ceecccccCCCCcccccccccccccC
Q 018154 12 LKKGPWTPEEDQKLIDYIQKHGYGN------WRTLPKNAGLQRCGKSCRLRWTNYLR 62 (360)
Q Consensus 12 lkKg~WT~EEDe~L~~lV~k~G~~n------W~~IAk~l~~~Rt~kqCR~RW~n~L~ 62 (360)
.++..||.|||.+|.+.|-+|+... ...++..+. |++..|..||..+++
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 5778999999999999999986322 556666664 999999999977665
No 44
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=93.02 E-value=0.3 Score=50.11 Aligned_cols=86 Identities=19% Similarity=0.264 Sum_probs=66.7
Q ss_pred CCceecccccCCCCcccccccccccccCCCC-------------------------ccCCCChHHHHHHHHHHHHhCCcc
Q 018154 35 GNWRTLPKNAGLQRCGKSCRLRWTNYLRPDI-------------------------KRGRFAFEEEETIIQLHSILGNKW 89 (360)
Q Consensus 35 ~nW~~IAk~l~~~Rt~kqCR~RW~n~L~p~l-------------------------kkg~WT~EEDe~Llelv~~~G~kW 89 (360)
..|..++=..+ -|...-...||.+.-.+.. ....||.||-.-|+++++.|--+|
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 35777765555 6777777888887733321 224599999999999999999999
Q ss_pred hhhccc-----CCC-CCHHHHHHHHHHHhhHHHhhCCC
Q 018154 90 SAIAAR-----LPG-RTDNEIKNYWNTHIRKRLLRMGI 121 (360)
Q Consensus 90 s~IA~~-----LpG-RT~~qcKnRW~~lLkk~l~k~g~ 121 (360)
-.||.. ++. ||-.++|+||+...++-++...-
T Consensus 153 ~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~ 190 (445)
T KOG2656|consen 153 FVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARAP 190 (445)
T ss_pred EEEeeccchhhccccccHHHHHHHHHHHHHHHHHccCC
Confidence 999987 555 99999999999998877665443
No 45
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=92.96 E-value=0.035 Score=43.36 Aligned_cols=49 Identities=22% Similarity=0.463 Sum_probs=39.0
Q ss_pred CcCCCCHHHHHHHHHHHHHh-----CCC-----------Cceeccccc----CCCCccccccccccccc
Q 018154 13 KKGPWTPEEDQKLIDYIQKH-----GYG-----------NWRTLPKNA----GLQRCGKSCRLRWTNYL 61 (360)
Q Consensus 13 kKg~WT~EEDe~L~~lV~k~-----G~~-----------nW~~IAk~l----~~~Rt~kqCR~RW~n~L 61 (360)
++..||.+|.+.|+++|.+| |.. -|..|+..+ |..|+..+++.+|.++.
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 46789999999999999988 211 299999865 22799999999998754
No 46
>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=91.07 E-value=0.3 Score=42.31 Aligned_cols=52 Identities=23% Similarity=0.375 Sum_probs=40.8
Q ss_pred CCccCCCChHHHHHHHHHHHHhCC----cchhhcccC------------CCCCHHHHHHHHHHHhhHH
Q 018154 64 DIKRGRFAFEEEETIIQLHSILGN----KWSAIAARL------------PGRTDNEIKNYWNTHIRKR 115 (360)
Q Consensus 64 ~lkkg~WT~EEDe~Llelv~~~G~----kWs~IA~~L------------pGRT~~qcKnRW~~lLkk~ 115 (360)
..++..||++||.-|+-.+.+||- .|..|...+ ..||+..+..|...+++-.
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i 113 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLI 113 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHH
Confidence 456778999999999999999995 798886432 4799999999999998643
No 47
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=90.40 E-value=0.24 Score=49.27 Aligned_cols=49 Identities=20% Similarity=0.329 Sum_probs=39.7
Q ss_pred cCCCChHHHHHHHHHHHHhC----------CcchhhcccC----CCCCHHHHHHHHHHHhhHH
Q 018154 67 RGRFAFEEEETIIQLHSILG----------NKWSAIAARL----PGRTDNEIKNYWNTHIRKR 115 (360)
Q Consensus 67 kg~WT~EEDe~Llelv~~~G----------~kWs~IA~~L----pGRT~~qcKnRW~~lLkk~ 115 (360)
...|+.+|-..||++..+.- .-|..||+.+ .-||+.+||.||.++.++-
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 36899999999999886532 3399999865 2399999999999998654
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=88.67 E-value=0.78 Score=36.68 Aligned_cols=45 Identities=29% Similarity=0.509 Sum_probs=34.6
Q ss_pred CCChHHHHHHHHHHHHh---CC----------cchhhcccCC---C--CCHHHHHHHHHHHhh
Q 018154 69 RFAFEEEETIIQLHSIL---GN----------KWSAIAARLP---G--RTDNEIKNYWNTHIR 113 (360)
Q Consensus 69 ~WT~EEDe~Llelv~~~---G~----------kWs~IA~~Lp---G--RT~~qcKnRW~~lLk 113 (360)
.||+++++.|++++.+. |+ .|..|+..|. | .+..+|++||..+.+
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~ 63 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKK 63 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHH
Confidence 49999999999998654 21 2899988772 3 577999999977754
No 49
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=86.03 E-value=0.89 Score=46.69 Aligned_cols=47 Identities=26% Similarity=0.350 Sum_probs=43.0
Q ss_pred CCCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHHhhH
Q 018154 68 GRFAFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHIRK 114 (360)
Q Consensus 68 g~WT~EEDe~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLkk 114 (360)
.+|+.+|-++...+..+.|..++-|+..+|.|..+|||.+|.+--++
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~ 412 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKV 412 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhh
Confidence 47999999999999999999999999999999999999999766543
No 50
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=81.83 E-value=2.1 Score=44.87 Aligned_cols=48 Identities=17% Similarity=0.286 Sum_probs=43.6
Q ss_pred ccCCCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHHhh
Q 018154 66 KRGRFAFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHIR 113 (360)
Q Consensus 66 kkg~WT~EEDe~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLk 113 (360)
-...||.||--++-+++..||..+++|...||.|+-..+..+|+..-+
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK 233 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKK 233 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHH
Confidence 346899999999999999999999999999999999999998887754
No 51
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=79.40 E-value=0.87 Score=45.28 Aligned_cols=48 Identities=25% Similarity=0.497 Sum_probs=38.6
Q ss_pred cCCCCHHHHHHHHHHHHHh------C---CCCceecccc---cCCCCccccccccccccc
Q 018154 14 KGPWTPEEDQKLIDYIQKH------G---YGNWRTLPKN---AGLQRCGKSCRLRWTNYL 61 (360)
Q Consensus 14 Kg~WT~EEDe~L~~lV~k~------G---~~nW~~IAk~---l~~~Rt~kqCR~RW~n~L 61 (360)
...|+.+|-..|+++..+. | ...|..||+. .|..|++.+|+.||.+..
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 3789999999999988854 1 1359999984 355799999999998754
No 52
>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=78.74 E-value=3.1 Score=29.90 Aligned_cols=41 Identities=22% Similarity=0.313 Sum_probs=31.1
Q ss_pred hHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHHhh
Q 018154 72 FEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHIR 113 (360)
Q Consensus 72 ~EEDe~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLk 113 (360)
++++..++.++...|-.|.+||..+ |.+...|+.+....++
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 4678888889999999999999999 9999999988766554
No 53
>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=75.75 E-value=1.9 Score=37.33 Aligned_cols=34 Identities=35% Similarity=0.637 Sum_probs=28.5
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCC---CCceeccccc
Q 018154 11 GLKKGPWTPEEDQKLIDYIQKHGY---GNWRTLPKNA 44 (360)
Q Consensus 11 ~lkKg~WT~EEDe~L~~lV~k~G~---~nW~~IAk~l 44 (360)
+-++..||.+||.-|+-++.+||. +.|..|-..+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 557899999999999999999998 7899997755
No 54
>smart00595 MADF subfamily of SANT domain.
Probab=75.59 E-value=3.1 Score=32.81 Aligned_cols=23 Identities=35% Similarity=0.653 Sum_probs=20.9
Q ss_pred chhhcccCCCCCHHHHHHHHHHHh
Q 018154 89 WSAIAARLPGRTDNEIKNYWNTHI 112 (360)
Q Consensus 89 Ws~IA~~LpGRT~~qcKnRW~~lL 112 (360)
|.+||..| |.+..+|+.+|+++.
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR 52 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLR 52 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHH
Confidence 99999999 559999999999885
No 55
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=72.97 E-value=1.8 Score=44.52 Aligned_cols=46 Identities=13% Similarity=0.213 Sum_probs=41.6
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccc
Q 018154 13 KKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNY 60 (360)
Q Consensus 13 kKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~ 60 (360)
.--+|+.+|-+++.++...+| .++..|+..+| +|..+|++.+|.+-
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wG-tdF~LIs~lfP-~R~RkqIKaKfi~E 409 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWG-TDFSLISSLFP-NRERKQIKAKFIKE 409 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhc-chHHHHHHhcC-chhHHHHHHHHHHH
Confidence 346899999999999999999 79999999998 99999999987654
No 56
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=67.73 E-value=5.1 Score=32.45 Aligned_cols=22 Identities=50% Similarity=0.862 Sum_probs=13.3
Q ss_pred CCcCCCCHHHHHHH--------HHHHHHhC
Q 018154 12 LKKGPWTPEEDQKL--------IDYIQKHG 33 (360)
Q Consensus 12 lkKg~WT~EEDe~L--------~~lV~k~G 33 (360)
-..|-||+|+|+.| .+++++||
T Consensus 45 n~~GiWT~eDD~~L~~~~~~~~~~L~~khG 74 (87)
T PF11626_consen 45 NMPGIWTPEDDEMLRSGDKDDIERLIKKHG 74 (87)
T ss_dssp T-TT---HHHHHHHTS--HHHHHHHHHHH-
T ss_pred CCCCCcCHHHHHHHHcCCHHHHHHHHHHhC
Confidence 35789999999999 45667777
No 57
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=66.00 E-value=7.6 Score=43.10 Aligned_cols=45 Identities=9% Similarity=0.105 Sum_probs=41.5
Q ss_pred CCCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHHh
Q 018154 68 GRFAFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHI 112 (360)
Q Consensus 68 g~WT~EEDe~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lL 112 (360)
..||..|-.+.-.++..|..++..|++.++++|-++|-.+|+...
T Consensus 620 d~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtWK 664 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTWK 664 (907)
T ss_pred ccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHHH
Confidence 479999999999999999999999999999999999998877663
No 58
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=65.18 E-value=9.5 Score=41.51 Aligned_cols=52 Identities=15% Similarity=0.436 Sum_probs=42.4
Q ss_pred cCCCChHHHHHHHHHHHHhCCcchhh----------cccCCCCCHHHHHHHHHHHhhHHHhh
Q 018154 67 RGRFAFEEEETIIQLHSILGNKWSAI----------AARLPGRTDNEIKNYWNTHIRKRLLR 118 (360)
Q Consensus 67 kg~WT~EEDe~Llelv~~~G~kWs~I----------A~~LpGRT~~qcKnRW~~lLkk~l~k 118 (360)
+..||.+|++-...+.+++|.++.+| -....-+|..|+|.+|+..+++.-+-
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 56899999999999999999999888 23344567889999999888765443
No 59
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=61.99 E-value=13 Score=35.19 Aligned_cols=44 Identities=18% Similarity=0.225 Sum_probs=34.1
Q ss_pred CCChHHHHHHHHHHHHhCCcchhhcccC---CCCCHHHHHHHHHHHhh
Q 018154 69 RFAFEEEETIIQLHSILGNKWSAIAARL---PGRTDNEIKNYWNTHIR 113 (360)
Q Consensus 69 ~WT~EEDe~Llelv~~~G~kWs~IA~~L---pGRT~~qcKnRW~~lLk 113 (360)
.|++++|..|+.+|.. |+.-..|+.-+ ..-|-..|..||+.+|-
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 5999999999999865 56666665433 23588999999999983
No 60
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=58.80 E-value=13 Score=32.64 Aligned_cols=45 Identities=9% Similarity=0.112 Sum_probs=37.5
Q ss_pred hHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHHhhHHHh
Q 018154 72 FEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHIRKRLL 117 (360)
Q Consensus 72 ~EEDe~Llelv~~~G-~kWs~IA~~LpGRT~~qcKnRW~~lLkk~l~ 117 (360)
.+-|.+|+++..+-| -.|++||+.+ |-+...|+.|++.+...-+.
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCe
Confidence 357888988888887 6799999999 99999999999777655443
No 61
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=57.95 E-value=16 Score=25.82 Aligned_cols=38 Identities=18% Similarity=0.351 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHH
Q 018154 73 EEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTH 111 (360)
Q Consensus 73 EEDe~Llelv~~~G-~kWs~IA~~LpGRT~~qcKnRW~~l 111 (360)
+-|.+|+.+...-| -.|.+||..+ |=+...|..|+..+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~l-glS~~~v~~Ri~rL 41 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEEL-GLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHH-TS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHH-CcCHHHHHHHHHHh
Confidence 45788888888888 5699999999 99999999998754
No 62
>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=54.86 E-value=33 Score=34.80 Aligned_cols=45 Identities=22% Similarity=0.485 Sum_probs=35.9
Q ss_pred cCCCChHHHHHHHHHHHHh-CCc---chhhcccCCCCCHHHHHHHHHHH
Q 018154 67 RGRFAFEEEETIIQLHSIL-GNK---WSAIAARLPGRTDNEIKNYWNTH 111 (360)
Q Consensus 67 kg~WT~EEDe~Llelv~~~-G~k---Ws~IA~~LpGRT~~qcKnRW~~l 111 (360)
-..|+.-|...|+++.... |.. -.+|++.++||+..+|++.-..+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~L 69 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQL 69 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHH
Confidence 4579999999999998766 433 46788999999999999855444
No 63
>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=53.76 E-value=19 Score=25.51 Aligned_cols=41 Identities=24% Similarity=0.416 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHHhhH
Q 018154 73 EEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHIRK 114 (360)
Q Consensus 73 EEDe~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLkk 114 (360)
+++..++.++-..|-.+.+||..+ |-+...|+.+-...+++
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~k 47 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKK 47 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHH
Confidence 456666666665667899999999 88999998887777643
No 64
>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=51.70 E-value=23 Score=29.73 Aligned_cols=38 Identities=18% Similarity=0.291 Sum_probs=28.5
Q ss_pred HHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHHhh
Q 018154 75 EETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHIR 113 (360)
Q Consensus 75 De~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLk 113 (360)
+..++.+....|-.+.+||..+ |.+...++.++...++
T Consensus 118 ~r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~ 155 (161)
T TIGR02985 118 CRKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALK 155 (161)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3344444444577899999999 9999999999988654
No 65
>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=50.76 E-value=12 Score=34.07 Aligned_cols=41 Identities=24% Similarity=0.218 Sum_probs=34.7
Q ss_pred CCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHH
Q 018154 69 RFAFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNT 110 (360)
Q Consensus 69 ~WT~EEDe~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~ 110 (360)
.||+|+.++|.+|..+ |-.=++||..|+|.|.++|..+-+.
T Consensus 2 ~Wtde~~~~L~~lw~~-G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHHHc-CCCHHHHHHHhCCcchhhhhhhhhc
Confidence 5999999999998854 7778999999987999988876644
No 66
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=49.66 E-value=18 Score=32.15 Aligned_cols=44 Identities=11% Similarity=0.034 Sum_probs=36.4
Q ss_pred hHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHHhhHHH
Q 018154 72 FEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHIRKRL 116 (360)
Q Consensus 72 ~EEDe~Llelv~~~G-~kWs~IA~~LpGRT~~qcKnRW~~lLkk~l 116 (360)
.+-|.+|+.+..+-| -.|++||+.+ |-+...|+.|++.+.+..+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 467888888887777 5799999999 9999999999977765544
No 67
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=49.15 E-value=18 Score=39.30 Aligned_cols=48 Identities=21% Similarity=0.306 Sum_probs=43.1
Q ss_pred ccCCCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHHhh
Q 018154 66 KRGRFAFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHIR 113 (360)
Q Consensus 66 kkg~WT~EEDe~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLk 113 (360)
..++|+.+|-++...+..+.|.+.+.|+..+|+|..++||.++..--+
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE~ 455 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEEK 455 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhhh
Confidence 346899999999999999999999999999999999999998865443
No 68
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=49.01 E-value=44 Score=34.61 Aligned_cols=45 Identities=18% Similarity=0.271 Sum_probs=40.5
Q ss_pred CCCChHHHHHHHHHHHHhCCcchhh-cccCCCCCHHHHHHHHHHHh
Q 018154 68 GRFAFEEEETIIQLHSILGNKWSAI-AARLPGRTDNEIKNYWNTHI 112 (360)
Q Consensus 68 g~WT~EEDe~Llelv~~~G~kWs~I-A~~LpGRT~~qcKnRW~~lL 112 (360)
..|+++|-...-+.++.||.++..| |.+++.|+-..|-..|+-..
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWK 323 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWK 323 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhh
Confidence 4799999999999999999999999 56899999999998887664
No 69
>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=48.18 E-value=29 Score=27.66 Aligned_cols=40 Identities=15% Similarity=0.248 Sum_probs=29.4
Q ss_pred HHHHHHHHHHhCC--------cchhhcccCCC---CC--HHHHHHHHHHHhhH
Q 018154 75 EETIIQLHSILGN--------KWSAIAARLPG---RT--DNEIKNYWNTHIRK 114 (360)
Q Consensus 75 De~Llelv~~~G~--------kWs~IA~~LpG---RT--~~qcKnRW~~lLkk 114 (360)
--.|..+|.+.|+ +|..||..|.- .+ ..++|..|..+|-+
T Consensus 38 L~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 38 LYKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 3468888888883 59999999833 12 36789999888753
No 70
>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=46.91 E-value=18 Score=29.19 Aligned_cols=17 Identities=29% Similarity=0.475 Sum_probs=10.1
Q ss_pred CCCccCCCChHHHHHHH
Q 018154 63 PDIKRGRFAFEEEETII 79 (360)
Q Consensus 63 p~lkkg~WT~EEDe~Ll 79 (360)
|....|-||+|+|+.|.
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 55677899999999994
No 71
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=45.76 E-value=21 Score=41.95 Aligned_cols=77 Identities=18% Similarity=0.281 Sum_probs=50.9
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccccCCCCccCCCChHHHHHHHHHHHHh-CCcchh
Q 018154 13 KKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFAFEEEETIIQLHSIL-GNKWSA 91 (360)
Q Consensus 13 kKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L~p~lkkg~WT~EEDe~Llelv~~~-G~kWs~ 91 (360)
...-|..+||.+|+-.|-+||.++|..|-.- | .-|... ...+...+..+.|=..+-..|+.+...+ +.+|.+
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~D-p-----~L~l~d-Ki~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~ 1204 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLD-P-----DLGLTD-KIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPK 1204 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccC-c-----cccchh-hhcccccCCchHHHHHHHHHHHHHHhhcccCCCch
Confidence 4567999999999999999999999998432 1 111110 0111111345566677778888888877 677877
Q ss_pred hcccC
Q 018154 92 IAARL 96 (360)
Q Consensus 92 IA~~L 96 (360)
....-
T Consensus 1205 ~~~~~ 1209 (1373)
T KOG0384|consen 1205 KLKRE 1209 (1373)
T ss_pred hhhcc
Confidence 55433
No 72
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=45.71 E-value=6.2 Score=43.77 Aligned_cols=44 Identities=14% Similarity=0.221 Sum_probs=39.5
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCccccccccccc
Q 018154 14 KGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTN 59 (360)
Q Consensus 14 Kg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n 59 (360)
...||+.|..++.+++..|. .++-.|++.++ +++-++|-+-|..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~-KDF~~v~km~~-~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYS-KDFIFVQKMVK-SKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhc-ccHHHHHHHhc-cccHHHHHHHHHH
Confidence 46899999999999999999 89999999998 9999999875543
No 73
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=42.88 E-value=36 Score=27.41 Aligned_cols=40 Identities=18% Similarity=0.260 Sum_probs=30.0
Q ss_pred HHHHHHHHHHhCC--------cchhhcccCCCC-----CHHHHHHHHHHHhhH
Q 018154 75 EETIIQLHSILGN--------KWSAIAARLPGR-----TDNEIKNYWNTHIRK 114 (360)
Q Consensus 75 De~Llelv~~~G~--------kWs~IA~~LpGR-----T~~qcKnRW~~lLkk 114 (360)
-.+|..+|.++|+ .|.+||..|.-. ....+|..|.++|.+
T Consensus 34 L~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 34 LYRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 3468888888884 699999988432 357889988888865
No 74
>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=41.88 E-value=24 Score=28.68 Aligned_cols=29 Identities=28% Similarity=0.578 Sum_probs=23.3
Q ss_pred HHHHHHHHHHhCCcchhhcccCCCCCHHHH
Q 018154 75 EETIIQLHSILGNKWSAIAARLPGRTDNEI 104 (360)
Q Consensus 75 De~Llelv~~~G~kWs~IA~~LpGRT~~qc 104 (360)
|+.|..+....|..|..+|.+| |=+..+|
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I 30 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDI 30 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 5678889999999999999999 5444433
No 75
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=41.53 E-value=36 Score=27.61 Aligned_cols=37 Identities=22% Similarity=0.302 Sum_probs=27.5
Q ss_pred HHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHHhhH
Q 018154 77 TIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHIRK 114 (360)
Q Consensus 77 ~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLkk 114 (360)
.++.++...|..+.+||..+ |-+...|+.+....+++
T Consensus 117 ~ii~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 117 EVLVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred HHHhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33344445678899999999 77999999888776644
No 76
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=41.41 E-value=32 Score=28.62 Aligned_cols=47 Identities=19% Similarity=0.162 Sum_probs=31.1
Q ss_pred CCCChHHHHHHHHHHHHh----C----CcchhhcccCCC-----CCHHHHHHHHHHHhhH
Q 018154 68 GRFAFEEEETIIQLHSIL----G----NKWSAIAARLPG-----RTDNEIKNYWNTHIRK 114 (360)
Q Consensus 68 g~WT~EEDe~Llelv~~~----G----~kWs~IA~~LpG-----RT~~qcKnRW~~lLkk 114 (360)
.-||+|+|..||+.+..| | ..|..+...+.+ =+..|+.++-+.+-++
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~K 64 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKK 64 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHH
Confidence 369999999999999877 5 245444433322 2667777776666544
No 77
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=41.08 E-value=18 Score=39.45 Aligned_cols=47 Identities=15% Similarity=0.349 Sum_probs=34.2
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCceecccccCC---------CCccccccccccccc
Q 018154 14 KGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGL---------QRCGKSCRLRWTNYL 61 (360)
Q Consensus 14 Kg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~---------~Rt~kqCR~RW~n~L 61 (360)
|..||-.|.+.+..+++.+| .++.+|-+.+-. -++-.|+|.+|.+.+
T Consensus 88 ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV 143 (782)
T ss_pred ccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence 66899999999999999999 889888332211 345556676666544
No 78
>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=40.83 E-value=5.7 Score=28.13 Aligned_cols=38 Identities=24% Similarity=0.411 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHhCCCCceecccccCCCCccccccccccc
Q 018154 20 EEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTN 59 (360)
Q Consensus 20 EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n 59 (360)
+=|.+|+.+..+.|...|..||+.+| =++..|+.|+.+
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 667777777643
No 79
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=40.18 E-value=7.1 Score=34.35 Aligned_cols=45 Identities=13% Similarity=0.224 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccccCCCC
Q 018154 19 PEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYLRPDI 65 (360)
Q Consensus 19 ~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L~p~l 65 (360)
.+-|.+|+++..+.|...|.+||+.+| -+...|+.|+.+....++
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 467999999999999899999999997 888899999988766554
No 80
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=39.54 E-value=40 Score=30.37 Aligned_cols=39 Identities=18% Similarity=0.302 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHHh
Q 018154 73 EEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHI 112 (360)
Q Consensus 73 EEDe~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lL 112 (360)
++..+++++....|-.+.+||..+ |-+...++.+|....
T Consensus 138 ~~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR 176 (185)
T PF07638_consen 138 PRQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR 176 (185)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 344455555555678899999999 999999999997765
No 81
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=38.00 E-value=6.9 Score=34.88 Aligned_cols=45 Identities=22% Similarity=0.273 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHhCCCCceecccccCCCCcccccccccccccCCCC
Q 018154 19 PEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYLRPDI 65 (360)
Q Consensus 19 ~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L~p~l 65 (360)
.+-|.+|+.+..+.|.-.|.+||+.+| -+...|+.|+.+..+.++
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 667999999999999899999999997 778889999988776654
No 82
>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=37.15 E-value=22 Score=27.01 Aligned_cols=26 Identities=23% Similarity=0.434 Sum_probs=21.2
Q ss_pred cchhhcccCCC-CCHHHHHHHHHHHhh
Q 018154 88 KWSAIAARLPG-RTDNEIKNYWNTHIR 113 (360)
Q Consensus 88 kWs~IA~~LpG-RT~~qcKnRW~~lLk 113 (360)
-|..||..|.. -+...|+.||..+..
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~ 54 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRD 54 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHH
Confidence 49999999953 567899999998764
No 83
>cd08803 Death_ank3 Death domain of Ankyrin-3. Death Domain (DD) of the human protein ankyrin-3 (ANK-3) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-3, also called anykyrin-G (for general or giant), is found in neurons and at least one splice variant has been shown to be essential for propagation of action potentials as a binding partner to neurofascin and voltage-gated sodium channels. It is required for maintaining axo-dendritic polarity, and may be a genetic risk factor associated with bipolar disorder. ANK-3 may also play roles in other cell types. Mutations affecting ANK-3 pathways for Na channel localization are associated with Brugada syndrome, a potentially fata arrythmia. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by se
Probab=35.93 E-value=38 Score=27.54 Aligned_cols=31 Identities=23% Similarity=0.406 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHhCCcchhhcccCCCCCHHHHH
Q 018154 74 EEETIIQLHSILGNKWSAIAARLPGRTDNEIK 105 (360)
Q Consensus 74 EDe~Llelv~~~G~kWs~IA~~LpGRT~~qcK 105 (360)
-|.+|..+....|..|.++|..| |=+...|.
T Consensus 3 ~d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI~ 33 (84)
T cd08803 3 TDIRMAIVADHLGLSWTELAREL-NFSVDEIN 33 (84)
T ss_pred hHHHHHHHHHHhhccHHHHHHHc-CCCHHHHH
Confidence 36788889999999999999999 65554443
No 84
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=35.66 E-value=22 Score=36.96 Aligned_cols=49 Identities=16% Similarity=0.282 Sum_probs=42.0
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCceecccc-----cCCCCccccccccccccc
Q 018154 12 LKKGPWTPEEDQKLIDYIQKHGYGNWRTLPKN-----AGLQRCGKSCRLRWTNYL 61 (360)
Q Consensus 12 lkKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~-----l~~~Rt~kqCR~RW~n~L 61 (360)
+....||+||.+-|.+++++|. -.|-.||.. .+..|+-...++||..+.
T Consensus 128 l~dn~WskeETD~LF~lck~fD-LRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 128 LNDNSWSKEETDYLFDLCKRFD-LRFFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred hccccccHHHHHHHHHHHHhcC-eeEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 4457899999999999999998 899999987 675699999999987653
No 85
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=34.83 E-value=39 Score=28.70 Aligned_cols=45 Identities=16% Similarity=0.243 Sum_probs=30.9
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCccccccccccccc
Q 018154 13 KKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTNYL 61 (360)
Q Consensus 13 kKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n~L 61 (360)
++..||.|+-..++..+...| ..=..||+.++. ...-..+|.+..
T Consensus 9 ~rr~ys~EfK~~aV~~~~~~g-~sv~evA~e~gI---s~~tl~~W~r~y 53 (121)
T PRK09413 9 KRRRRTTQEKIAIVQQSFEPG-MTVSLVARQHGV---AASQLFLWRKQY 53 (121)
T ss_pred CCCCCCHHHHHHHHHHHHcCC-CCHHHHHHHHCc---CHHHHHHHHHHH
Confidence 357899999988888777777 566677777763 233344666654
No 86
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=34.77 E-value=69 Score=21.31 Aligned_cols=37 Identities=22% Similarity=0.278 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHH
Q 018154 74 EEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTH 111 (360)
Q Consensus 74 EDe~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~l 111 (360)
++..++.++..-|-.+..||..+ |-+...|+.+....
T Consensus 14 ~~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 14 REREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 45556666666778899999998 77888887766554
No 87
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=32.33 E-value=53 Score=26.54 Aligned_cols=45 Identities=11% Similarity=0.169 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHHhhHHHhh
Q 018154 73 EEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHIRKRLLR 118 (360)
Q Consensus 73 EEDe~Llelv~~~G-~kWs~IA~~LpGRT~~qcKnRW~~lLkk~l~k 118 (360)
+.|.+|+.+....| -.+++||+.+ |-+...|+.+...+.+..+.+
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 57888888888877 5799999999 999999999998877655433
No 88
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=31.49 E-value=66 Score=27.62 Aligned_cols=31 Identities=19% Similarity=0.200 Sum_probs=23.8
Q ss_pred HHHHhCCcchhhcccCCCCCHHHHHHHHHHHh
Q 018154 81 LHSILGNKWSAIAARLPGRTDNEIKNYWNTHI 112 (360)
Q Consensus 81 lv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lL 112 (360)
+....|-.+.+||..+ |.+...++.+....+
T Consensus 139 l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~ 169 (182)
T PRK09652 139 LREIEGLSYEEIAEIM-GCPIGTVRSRIFRAR 169 (182)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3334567899999999 889999988776554
No 89
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=31.43 E-value=85 Score=28.20 Aligned_cols=46 Identities=22% Similarity=0.194 Sum_probs=37.9
Q ss_pred ccCCCChHHHHHHHHHHHHhCCcchhhcccCC----CCCHHHHHHHHHHH
Q 018154 66 KRGRFAFEEEETIIQLHSILGNKWSAIAARLP----GRTDNEIKNYWNTH 111 (360)
Q Consensus 66 kkg~WT~EEDe~Llelv~~~G~kWs~IA~~Lp----GRT~~qcKnRW~~l 111 (360)
....-+..|...|..|+.+||.++...|.... -.|..||+.+...+
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 34468899999999999999999999987553 48999999887655
No 90
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=30.85 E-value=66 Score=27.53 Aligned_cols=29 Identities=21% Similarity=0.205 Sum_probs=23.1
Q ss_pred HHhCCcchhhcccCCCCCHHHHHHHHHHHh
Q 018154 83 SILGNKWSAIAARLPGRTDNEIKNYWNTHI 112 (360)
Q Consensus 83 ~~~G~kWs~IA~~LpGRT~~qcKnRW~~lL 112 (360)
...|-.+.+||..| |-+...|+.++....
T Consensus 138 ~~~~~~~~eIA~~l-gis~~tv~~~~~ra~ 166 (179)
T PRK11924 138 YVEGLSYREIAEIL-GVPVGTVKSRLRRAR 166 (179)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 34467799999999 888999988877654
No 91
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=29.47 E-value=33 Score=37.32 Aligned_cols=48 Identities=13% Similarity=0.310 Sum_probs=42.6
Q ss_pred CCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCccccccccccc
Q 018154 10 SGLKKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTN 59 (360)
Q Consensus 10 ~~lkKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n 59 (360)
++...++|+.+|-++...+....| .+...|+..++ .|..++++.++..
T Consensus 405 k~~~~~~w~~se~e~fyka~~~~g-s~~slis~l~p-~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 405 KKLETDKWDASETELFYKALSERG-SDFSLISNLFP-LRDRKQIKAKFKK 452 (584)
T ss_pred CccccCcccchhhHHhhhHHhhhc-ccccccccccc-cccHHHHHHHHhh
Confidence 556679999999999999999999 89999999998 9999999887654
No 92
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. 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-associati
Probab=29.40 E-value=41 Score=26.79 Aligned_cols=29 Identities=24% Similarity=0.695 Sum_probs=22.8
Q ss_pred HHHHHHHHHHhCCcchhhcccCCCCCHHHH
Q 018154 75 EETIIQLHSILGNKWSAIAARLPGRTDNEI 104 (360)
Q Consensus 75 De~Llelv~~~G~kWs~IA~~LpGRT~~qc 104 (360)
|..|..+.+..|..|.++|+.| |=+..+|
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI 32 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDI 32 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHH
Confidence 5567888899999999999999 5554433
No 93
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=28.07 E-value=81 Score=28.28 Aligned_cols=32 Identities=16% Similarity=0.125 Sum_probs=24.9
Q ss_pred HHHHHhCCcchhhcccCCCCCHHHHHHHHHHHh
Q 018154 80 QLHSILGNKWSAIAARLPGRTDNEIKNYWNTHI 112 (360)
Q Consensus 80 elv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lL 112 (360)
.+....|-...+||..+ |-+...++.|+...+
T Consensus 144 ~l~~~~g~s~~EIA~~l-g~s~~tV~~rl~rar 175 (192)
T PRK09643 144 VAVDMQGYSVADAARML-GVAEGTVKSRCARGR 175 (192)
T ss_pred HHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 33344567799999999 999999999995554
No 94
>PRK04217 hypothetical protein; Provisional
Probab=27.07 E-value=95 Score=26.62 Aligned_cols=44 Identities=16% Similarity=0.196 Sum_probs=35.3
Q ss_pred CCChHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHHhhH
Q 018154 69 RFAFEEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHIRK 114 (360)
Q Consensus 69 ~WT~EEDe~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLkk 114 (360)
.-+.+| ..++.++...|-...+||+.+ |-+...|+.+|....++
T Consensus 42 ~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkk 85 (110)
T PRK04217 42 FMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKK 85 (110)
T ss_pred cCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 355555 677777777788999999999 99999999999876543
No 95
>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=26.79 E-value=85 Score=31.93 Aligned_cols=86 Identities=15% Similarity=0.281 Sum_probs=61.0
Q ss_pred cCCCCHHHHHHHHHHHHHhCCC---CceecccccCCCCcccccccccccccCCCCccCCCChHHHHHHHHHHHH-h----
Q 018154 14 KGPWTPEEDQKLIDYIQKHGYG---NWRTLPKNAGLQRCGKSCRLRWTNYLRPDIKRGRFAFEEEETIIQLHSI-L---- 85 (360)
Q Consensus 14 Kg~WT~EEDe~L~~lV~k~G~~---nW~~IAk~l~~~Rt~kqCR~RW~n~L~p~lkkg~WT~EEDe~Llelv~~-~---- 85 (360)
...||.-|...|+++....... +-..|++.++ +|+...+++- .+.|+ +..+.+++.+ |
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~f-l~~LK------------~rvareaiqkv~~~g~ 86 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRDF-LQQLK------------GRVAREAIQKVHPGGL 86 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHHH-HHHHH------------HHHHHHHHHHhccccc
Confidence 3679999999999988866323 3456778887 8998888763 23332 3445555554 2
Q ss_pred -CCc------------chhhcccCCCCCHHHHHHHHHHHhh
Q 018154 86 -GNK------------WSAIAARLPGRTDNEIKNYWNTHIR 113 (360)
Q Consensus 86 -G~k------------Ws~IA~~LpGRT~~qcKnRW~~lLk 113 (360)
|.+ |..+|..+-|.-...+-.-|-..|.
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 211 9999999999999988888877763
No 96
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=26.61 E-value=1.3e+02 Score=26.22 Aligned_cols=40 Identities=20% Similarity=0.356 Sum_probs=29.0
Q ss_pred HHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHHhhHHHhh
Q 018154 78 IIQLHSILGNKWSAIAARLPGRTDNEIKNYWNTHIRKRLLR 118 (360)
Q Consensus 78 Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLkk~l~k 118 (360)
++.+....|-...+||..+ |.+...|+.+-..-+++-...
T Consensus 127 v~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~~~~ 166 (172)
T PRK12523 127 AFLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQCYIA 166 (172)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHH
Confidence 3344444567799999999 999999999887776554433
No 97
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. 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 (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=26.13 E-value=60 Score=26.15 Aligned_cols=26 Identities=35% Similarity=0.636 Sum_probs=19.5
Q ss_pred HHHHHHHhCCcchhhcccCCCCCHHHH
Q 018154 78 IIQLHSILGNKWSAIAARLPGRTDNEI 104 (360)
Q Consensus 78 Llelv~~~G~kWs~IA~~LpGRT~~qc 104 (360)
|..+....|.+|.++|+.| |-+..+|
T Consensus 10 l~~ia~~iG~~Wk~Lar~L-Gls~~dI 35 (86)
T cd08318 10 ITVFANKLGEDWKTLAPHL-EMKDKEI 35 (86)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 3446678899999999999 6555544
No 98
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=25.73 E-value=1.2e+02 Score=26.55 Aligned_cols=31 Identities=13% Similarity=0.207 Sum_probs=24.7
Q ss_pred HhCCcchhhcccCCCCCHHHHHHHHHHHhhHH
Q 018154 84 ILGNKWSAIAARLPGRTDNEIKNYWNTHIRKR 115 (360)
Q Consensus 84 ~~G~kWs~IA~~LpGRT~~qcKnRW~~lLkk~ 115 (360)
..|-...+||..| |-+...|+.+....+++-
T Consensus 145 ~~g~s~~eIA~~l-~is~~tV~~~l~ra~~~L 175 (184)
T PRK12512 145 VEGASIKETAAKL-SMSEGAVRVALHRGLAAL 175 (184)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 3466789999999 999999999887776543
No 99
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=25.64 E-value=93 Score=27.16 Aligned_cols=29 Identities=14% Similarity=0.011 Sum_probs=23.0
Q ss_pred HhCCcchhhcccCCCCCHHHHHHHHHHHhh
Q 018154 84 ILGNKWSAIAARLPGRTDNEIKNYWNTHIR 113 (360)
Q Consensus 84 ~~G~kWs~IA~~LpGRT~~qcKnRW~~lLk 113 (360)
..|..+.+||..+ |-+...++.+.....+
T Consensus 150 ~~~~s~~eIA~~l-gis~~~v~~~l~Rar~ 178 (187)
T PRK09641 150 IEDLSLKEISEIL-DLPVGTVKTRIHRGRE 178 (187)
T ss_pred hhCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3466789999999 8889999888766654
No 100
>PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=25.49 E-value=94 Score=27.48 Aligned_cols=42 Identities=24% Similarity=0.511 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHhC--CcchhhcccCCCCCHHHHHHHHHHHhhHHH
Q 018154 73 EEEETIIQLHSILG--NKWSAIAARLPGRTDNEIKNYWNTHIRKRL 116 (360)
Q Consensus 73 EEDe~Llelv~~~G--~kWs~IA~~LpGRT~~qcKnRW~~lLkk~l 116 (360)
+|+..++++.-.-+ ..|-.||..+ +-+..+|+ ||+.-+|..+
T Consensus 84 de~k~Ii~lry~~r~~~TW~~IA~~l-~i~erta~-r~~~~fK~~i 127 (130)
T PF05263_consen 84 DEEKRIIKLRYDRRSRRTWYQIAQKL-HISERTAR-RWRDRFKNDI 127 (130)
T ss_pred HHHHHHHHHHHcccccchHHHHHHHh-CccHHHHH-HHHHHHHHHh
Confidence 34555555554433 6799999988 45555555 4555555444
No 101
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=24.79 E-value=57 Score=25.41 Aligned_cols=30 Identities=27% Similarity=0.535 Sum_probs=21.5
Q ss_pred HHHHHHHHHHH-hCCcchhhcccCCCCCHHHH
Q 018154 74 EEETIIQLHSI-LGNKWSAIAARLPGRTDNEI 104 (360)
Q Consensus 74 EDe~Llelv~~-~G~kWs~IA~~LpGRT~~qc 104 (360)
-++.|..++.. .|.+|..+|++|+ -+..+|
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~Lg-~~~~~i 34 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKLG-LSEADI 34 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHcC-CCHHHH
Confidence 35566777777 8999999999994 344433
No 102
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=24.78 E-value=1e+02 Score=26.74 Aligned_cols=29 Identities=17% Similarity=0.344 Sum_probs=23.0
Q ss_pred hCCcchhhcccCCCCCHHHHHHHHHHHhhH
Q 018154 85 LGNKWSAIAARLPGRTDNEIKNYWNTHIRK 114 (360)
Q Consensus 85 ~G~kWs~IA~~LpGRT~~qcKnRW~~lLkk 114 (360)
.|-...+||..+ |-+...|+.++...+++
T Consensus 134 ~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~ 162 (169)
T TIGR02954 134 HDLTIKEIAEVM-NKPEGTVKTYLHRALKK 162 (169)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 456688999998 88999999988777643
No 103
>cd08804 Death_ank2 Death domain of Ankyrin-2. Death Domain (DD) of Ankyrin-2 (ANK-2) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-2, also called ankyrin-B (for broadly expressed), is required for proper function of the Na/Ca ion exchanger-1 in cardiomyocytes, and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. Human ANK-2 is associated with "Ankyrin-B syndrome", an atypical arrythmia disorder with risk of sudden cardiac death. It also plays key roles in the brain and striated muscle. Loss of ANK-2 is associated with significant nervous system defects and sarcomere disorganization. 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
Probab=24.67 E-value=65 Score=25.99 Aligned_cols=30 Identities=30% Similarity=0.550 Sum_probs=23.9
Q ss_pred HHHHHHHHHHhCCcchhhcccCCCCCHHHHH
Q 018154 75 EETIIQLHSILGNKWSAIAARLPGRTDNEIK 105 (360)
Q Consensus 75 De~Llelv~~~G~kWs~IA~~LpGRT~~qcK 105 (360)
|..|..+....|.+|..+|+.| |=+...|.
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI~ 33 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQIH 33 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 5677888899999999999999 65555554
No 104
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=24.13 E-value=97 Score=21.46 Aligned_cols=35 Identities=23% Similarity=0.120 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHH
Q 018154 73 EEEETIIQLHSILGNKWSAIAARLPGRTDNEIKNYW 108 (360)
Q Consensus 73 EEDe~Llelv~~~G~kWs~IA~~LpGRT~~qcKnRW 108 (360)
-|...|.++...+|++..+.|+.| |=+...+..|-
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~kl 39 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRKL 39 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHH
Confidence 367788899999999999999998 66666555543
No 105
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=24.06 E-value=1e+02 Score=27.40 Aligned_cols=31 Identities=19% Similarity=0.107 Sum_probs=24.3
Q ss_pred HHHhCCcchhhcccCCCCCHHHHHHHHHHHhh
Q 018154 82 HSILGNKWSAIAARLPGRTDNEIKNYWNTHIR 113 (360)
Q Consensus 82 v~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLk 113 (360)
....|-...+||..| |-+...|+.+....++
T Consensus 118 ~~~~g~~~~EIA~~l-gis~~tV~~~l~Rar~ 148 (181)
T PRK09637 118 TELEGLSQKEIAEKL-GLSLSGAKSRVQRGRV 148 (181)
T ss_pred HHhcCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 334567799999999 8889999988876653
No 106
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=23.67 E-value=1.1e+02 Score=26.99 Aligned_cols=30 Identities=7% Similarity=0.030 Sum_probs=23.7
Q ss_pred HHhCCcchhhcccCCCCCHHHHHHHHHHHhh
Q 018154 83 SILGNKWSAIAARLPGRTDNEIKNYWNTHIR 113 (360)
Q Consensus 83 ~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLk 113 (360)
...|-...+||..| |-+...++.++...++
T Consensus 144 ~~~~~s~~eIA~~l-gis~~tV~~~l~Rar~ 173 (189)
T PRK12515 144 YYHEKSVEEVGEIV-GIPESTVKTRMFYARK 173 (189)
T ss_pred HHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 34566789999999 8899999998876653
No 107
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoE. This protein may be called sigma-24, sigma-E factor, sigma-H factor, fecI-like sigma factor or alternative sigma factor AlgU.
Probab=23.41 E-value=85 Score=27.47 Aligned_cols=28 Identities=11% Similarity=0.044 Sum_probs=22.4
Q ss_pred hCCcchhhcccCCCCCHHHHHHHHHHHhh
Q 018154 85 LGNKWSAIAARLPGRTDNEIKNYWNTHIR 113 (360)
Q Consensus 85 ~G~kWs~IA~~LpGRT~~qcKnRW~~lLk 113 (360)
.|-...+||..+ |-+...|+.+....++
T Consensus 153 ~~~s~~EIA~~l-gis~~tv~~~l~rar~ 180 (190)
T TIGR02939 153 EGLSYEDIARIM-DCPVGTVRSRIFRARE 180 (190)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 356689999999 8889999988876654
No 108
>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=23.34 E-value=41 Score=30.56 Aligned_cols=38 Identities=16% Similarity=0.250 Sum_probs=28.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCceecccccCCCCcccccccc
Q 018154 16 PWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLR 56 (360)
Q Consensus 16 ~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~R 56 (360)
.||+|+.++|.++..+ | ..=..||+.|| +.+...+.-+
T Consensus 2 ~Wtde~~~~L~~lw~~-G-~SasqIA~~lg-~vsRnAViGk 39 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-G-LSASQIARQLG-GVSRNAVIGK 39 (162)
T ss_pred CCCHHHHHHHHHHHHc-C-CCHHHHHHHhC-Ccchhhhhhh
Confidence 5999999999999965 4 46689999998 4444444433
No 109
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=22.97 E-value=70 Score=26.09 Aligned_cols=22 Identities=27% Similarity=0.536 Sum_probs=19.7
Q ss_pred HHHHHHHHHHhCCcchhhcccC
Q 018154 75 EETIIQLHSILGNKWSAIAARL 96 (360)
Q Consensus 75 De~Llelv~~~G~kWs~IA~~L 96 (360)
|.+|..+....|..|.++|..|
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L 25 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL 25 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc
Confidence 5678888899999999999998
No 110
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=22.84 E-value=3.7e+02 Score=28.23 Aligned_cols=30 Identities=17% Similarity=0.306 Sum_probs=24.1
Q ss_pred CCCCCCCCCcCCCCHHHHHHHHHHHHHhCC
Q 018154 5 PCCDKSGLKKGPWTPEEDQKLIDYIQKHGY 34 (360)
Q Consensus 5 p~~~K~~lkKg~WT~EEDe~L~~lV~k~G~ 34 (360)
...|+.+...|.|+++=|+.+.++.+-|.+
T Consensus 67 ~~~D~~~daegvWSpdIEqsFqEALaiypp 96 (455)
T KOG3841|consen 67 KFTDNQRDAEGVWSPDIEQSFQEALAIYPP 96 (455)
T ss_pred cCCccccccccccChhHHHHHHHHHhhcCC
Confidence 344556677899999999999999988863
No 111
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=22.74 E-value=1.2e+02 Score=26.75 Aligned_cols=33 Identities=15% Similarity=0.246 Sum_probs=24.9
Q ss_pred HHHHhCCcchhhcccCCCCCHHHHHHHHHHHhhH
Q 018154 81 LHSILGNKWSAIAARLPGRTDNEIKNYWNTHIRK 114 (360)
Q Consensus 81 lv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLkk 114 (360)
++...|-...+||..| |-+...|+.+....+++
T Consensus 150 l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 150 LRVVVGLSAEETAEAV-GSTPGAVRVAQHRALAR 182 (189)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334467799999999 88899998888766543
No 112
>PLN03105 TCP24 transcription factor TCP24 (TEOSINTE BRANCHED1, CYCLOIDEA, AND PCF FAMILY 24); Provisional
Probab=22.30 E-value=1.2e+02 Score=29.87 Aligned_cols=32 Identities=38% Similarity=0.484 Sum_probs=19.4
Q ss_pred CcccccCCCCCCcceeeeeecCCCCCccCCCCCc
Q 018154 297 TSNFHSNNSNQSFNFASVLSTPSSGSTPLNSNST 330 (360)
Q Consensus 297 ~~~~~~~~~~~~~~~~s~~~t~~ss~~~l~s~~~ 330 (360)
.+.|-.|| .|+--.+-+|+.+||+.|+.+.+-
T Consensus 249 ~sl~~~~~--~~~~qr~~~~~~~~~~sp~d~~~~ 280 (324)
T PLN03105 249 QSLFLNNN--NNITQRSSISSSSSSSSPMDSQSI 280 (324)
T ss_pred hhhcccCC--cchhhhcccccccccCCCCCcCcc
Confidence 35554333 233333456778888899998774
No 113
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=21.57 E-value=1.9e+02 Score=25.52 Aligned_cols=37 Identities=22% Similarity=0.167 Sum_probs=28.9
Q ss_pred HHHHhCCcchhhcccCCCCCHHHHHHHHHHHhhHHHhh
Q 018154 81 LHSILGNKWSAIAARLPGRTDNEIKNYWNTHIRKRLLR 118 (360)
Q Consensus 81 lv~~~G~kWs~IA~~LpGRT~~qcKnRW~~lLkk~l~k 118 (360)
++...|-...+||..| |-+...+|.|...-+.+-..+
T Consensus 138 L~~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~~ 174 (178)
T PRK12529 138 MATLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLSL 174 (178)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHh
Confidence 3344567799999999 999999999998887665544
No 114
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=21.33 E-value=1e+02 Score=26.22 Aligned_cols=45 Identities=11% Similarity=0.107 Sum_probs=36.1
Q ss_pred hHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHHhhHHHh
Q 018154 72 FEEEETIIQLHSILG-NKWSAIAARLPGRTDNEIKNYWNTHIRKRLL 117 (360)
Q Consensus 72 ~EEDe~Llelv~~~G-~kWs~IA~~LpGRT~~qcKnRW~~lLkk~l~ 117 (360)
.+-|.+|+++...-| -.+.+||+.+ |-+...|++|-+.+.+.-+.
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI 52 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVI 52 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCce
Confidence 356788888888777 5699999999 89999999999777655443
No 115
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=21.10 E-value=1.2e+02 Score=26.49 Aligned_cols=28 Identities=11% Similarity=-0.008 Sum_probs=22.1
Q ss_pred CCcchhhcccCCCCCHHHHHHHHHHHhhH
Q 018154 86 GNKWSAIAARLPGRTDNEIKNYWNTHIRK 114 (360)
Q Consensus 86 G~kWs~IA~~LpGRT~~qcKnRW~~lLkk 114 (360)
|-...+||..+ |.+...++.+....+++
T Consensus 152 g~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T TIGR02948 152 DLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 56688999998 88899999888766543
No 116
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=20.85 E-value=1.5e+02 Score=25.08 Aligned_cols=29 Identities=14% Similarity=0.133 Sum_probs=22.8
Q ss_pred HhCCcchhhcccCCCCCHHHHHHHHHHHhh
Q 018154 84 ILGNKWSAIAARLPGRTDNEIKNYWNTHIR 113 (360)
Q Consensus 84 ~~G~kWs~IA~~LpGRT~~qcKnRW~~lLk 113 (360)
..|-.-.+||..| |-+...|+.|....++
T Consensus 120 ~~g~s~~EIA~~l-gis~~tV~~~l~ra~~ 148 (161)
T PRK09047 120 WEDMDVAETAAAM-GCSEGSVKTHCSRATH 148 (161)
T ss_pred HhcCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3456689999999 8899999888766653
No 117
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=20.77 E-value=47 Score=35.30 Aligned_cols=48 Identities=15% Similarity=0.125 Sum_probs=40.5
Q ss_pred CCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCCCCccccccccccc
Q 018154 10 SGLKKGPWTPEEDQKLIDYIQKHGYGNWRTLPKNAGLQRCGKSCRLRWTN 59 (360)
Q Consensus 10 ~~lkKg~WT~EEDe~L~~lV~k~G~~nW~~IAk~l~~~Rt~kqCR~RW~n 59 (360)
.+-....||.||--++.++..-|| .++.+|-+.|+ .|+-.+++.-|..
T Consensus 183 r~~~~d~WT~Ed~vlFe~aF~~~G-K~F~kIrq~LP-~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 183 RTEFPDEWTAEDIVLFEQAFQFFG-KDFHKIRQALP-HRSLASLVQYYYS 230 (534)
T ss_pred cCCCcccchHHHHHHHHHHHHHhc-ccHHHHHHHcc-CccHHHHHHHHHH
Confidence 344567899999999999999999 89999999998 8888887775543
No 118
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=20.68 E-value=1.3e+02 Score=26.71 Aligned_cols=27 Identities=11% Similarity=0.092 Sum_probs=21.3
Q ss_pred CCcchhhcccCCCCCHHHHHHHHHHHhh
Q 018154 86 GNKWSAIAARLPGRTDNEIKNYWNTHIR 113 (360)
Q Consensus 86 G~kWs~IA~~LpGRT~~qcKnRW~~lLk 113 (360)
|-...+||..+ |-+...|+.+....++
T Consensus 154 g~s~~eIA~~l-gis~~tv~~~l~Rar~ 180 (193)
T PRK11923 154 GLSYEDIASVM-QCPVGTVRSRIFRARE 180 (193)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 45688999999 8889899888766653
Done!