Query 045387
Match_columns 242
No_of_seqs 212 out of 1548
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 12:44:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045387.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045387hhsearch_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 3.8E-38 8.3E-43 294.6 11.4 131 1-131 1-131 (459)
2 PLN03212 Transcription repress 100.0 1E-37 2.2E-42 274.0 10.0 127 3-129 14-140 (249)
3 KOG0048 Transcription factor, 100.0 3.5E-36 7.7E-41 266.1 11.3 120 9-128 4-123 (238)
4 KOG0049 Transcription factor, 99.8 7.9E-21 1.7E-25 184.1 6.9 133 5-140 244-431 (939)
5 KOG0049 Transcription factor, 99.8 2.2E-20 4.7E-25 181.1 5.3 106 1-107 347-453 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.7 3.7E-17 8E-22 114.9 3.4 60 17-78 1-60 (60)
7 PLN03212 Transcription repress 99.6 2.2E-16 4.7E-21 139.4 4.5 89 62-153 20-110 (249)
8 KOG0048 Transcription factor, 99.6 1.6E-16 3.4E-21 140.7 3.2 88 63-153 5-94 (238)
9 COG5147 REB1 Myb superfamily p 99.6 1.7E-15 3.8E-20 146.1 6.0 108 9-117 15-122 (512)
10 KOG0050 mRNA splicing protein 99.6 1.2E-15 2.6E-20 145.3 2.3 105 12-118 5-109 (617)
11 PLN03091 hypothetical protein; 99.5 4.9E-15 1.1E-19 139.7 3.9 88 63-153 10-99 (459)
12 KOG0051 RNA polymerase I termi 99.5 3.7E-14 8.1E-19 138.4 5.5 103 13-118 383-513 (607)
13 PF00249 Myb_DNA-binding: Myb- 99.4 2E-14 4.3E-19 97.1 0.4 48 14-61 1-48 (48)
14 PF00249 Myb_DNA-binding: Myb- 99.4 2.1E-13 4.6E-18 92.0 4.0 46 67-112 1-48 (48)
15 PF13921 Myb_DNA-bind_6: Myb-l 99.4 2.3E-13 5E-18 95.5 3.5 58 70-130 1-58 (60)
16 smart00717 SANT SANT SWI3, AD 99.2 2E-11 4.3E-16 80.2 4.9 47 67-113 1-48 (49)
17 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 1.4E-10 3E-15 75.1 4.9 43 69-111 1-44 (45)
18 smart00717 SANT SANT SWI3, AD 99.1 3.7E-11 8.1E-16 78.9 2.0 48 14-62 1-48 (49)
19 KOG0051 RNA polymerase I termi 99.1 1E-10 2.2E-15 114.5 4.8 123 12-139 306-454 (607)
20 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 2.4E-10 5.3E-15 73.9 1.7 44 16-60 1-44 (45)
21 KOG0050 mRNA splicing protein 98.4 1.1E-07 2.4E-12 91.6 2.7 80 65-147 5-85 (617)
22 COG5147 REB1 Myb superfamily p 98.4 2E-08 4.4E-13 97.5 -3.2 97 13-112 290-396 (512)
23 TIGR01557 myb_SHAQKYF myb-like 98.0 3.4E-06 7.3E-11 59.3 2.0 48 14-61 3-54 (57)
24 KOG0457 Histone acetyltransfer 97.8 8.7E-06 1.9E-10 77.3 1.2 49 12-61 70-118 (438)
25 TIGR01557 myb_SHAQKYF myb-like 97.7 0.00011 2.3E-09 51.7 5.2 47 66-112 2-54 (57)
26 KOG0457 Histone acetyltransfer 97.4 0.00019 4.2E-09 68.3 5.1 48 65-112 70-118 (438)
27 TIGR02894 DNA_bind_RsfA transc 97.3 0.00024 5.2E-09 59.7 3.8 52 66-118 3-61 (161)
28 PF13325 MCRS_N: N-terminal re 97.0 0.0012 2.7E-08 57.3 5.7 100 16-117 1-131 (199)
29 COG5259 RSC8 RSC chromatin rem 97.0 0.00026 5.6E-09 68.1 1.3 46 13-60 278-323 (531)
30 PF13837 Myb_DNA-bind_4: Myb/S 96.9 0.00053 1.2E-08 51.0 2.3 49 67-115 1-67 (90)
31 PF08914 Myb_DNA-bind_2: Rap1 96.8 0.0015 3.2E-08 47.2 3.5 50 67-116 2-61 (65)
32 KOG1279 Chromatin remodeling f 96.7 0.00072 1.6E-08 66.2 2.0 47 12-60 251-297 (506)
33 KOG1279 Chromatin remodeling f 96.7 0.0019 4E-08 63.4 4.7 46 66-111 252-297 (506)
34 COG5259 RSC8 RSC chromatin rem 96.6 0.0016 3.5E-08 62.8 3.6 44 68-111 280-323 (531)
35 PF08914 Myb_DNA-bind_2: Rap1 96.4 0.0012 2.5E-08 47.7 1.0 51 14-64 2-60 (65)
36 PRK13923 putative spore coat p 96.3 0.0034 7.5E-08 53.3 3.4 52 65-117 3-61 (170)
37 TIGR02894 DNA_bind_RsfA transc 96.3 0.00094 2E-08 56.1 -0.4 49 12-62 2-56 (161)
38 PF13873 Myb_DNA-bind_5: Myb/S 96.0 0.017 3.8E-07 42.0 5.2 49 67-115 2-72 (78)
39 COG5114 Histone acetyltransfer 95.9 0.0021 4.6E-08 59.5 -0.2 48 14-62 63-110 (432)
40 PF13837 Myb_DNA-bind_4: Myb/S 95.7 0.0023 5E-08 47.5 -0.6 46 15-60 2-63 (90)
41 COG5114 Histone acetyltransfer 95.4 0.012 2.7E-07 54.5 3.0 46 67-112 63-109 (432)
42 PLN03142 Probable chromatin-re 94.8 0.06 1.3E-06 57.2 6.4 100 16-116 826-988 (1033)
43 PRK13923 putative spore coat p 94.2 0.0093 2E-07 50.7 -0.8 49 12-62 3-57 (170)
44 PF13873 Myb_DNA-bind_5: Myb/S 93.7 0.014 3.1E-07 42.5 -0.7 49 13-61 1-69 (78)
45 PF09111 SLIDE: SLIDE; InterP 93.0 0.13 2.8E-06 41.3 3.8 52 64-115 46-113 (118)
46 KOG2656 DNA methyltransferase 92.5 0.37 8E-06 46.0 6.6 82 36-118 75-187 (445)
47 KOG4282 Transcription factor G 91.8 0.27 5.8E-06 45.7 4.9 50 67-116 54-117 (345)
48 PF12776 Myb_DNA-bind_3: Myb/S 90.3 0.56 1.2E-05 35.0 4.6 46 69-114 1-64 (96)
49 COG5118 BDP1 Transcription ini 87.7 0.69 1.5E-05 44.1 4.1 46 68-113 366-411 (507)
50 PF09111 SLIDE: SLIDE; InterP 85.9 0.57 1.2E-05 37.6 2.2 34 11-44 46-82 (118)
51 COG5118 BDP1 Transcription ini 85.5 0.55 1.2E-05 44.7 2.3 69 10-80 361-437 (507)
52 KOG1194 Predicted DNA-binding 85.0 1.5 3.3E-05 42.7 5.0 47 67-113 187-233 (534)
53 PF08281 Sigma70_r4_2: Sigma-7 83.8 1.7 3.7E-05 29.0 3.6 41 72-113 12-52 (54)
54 KOG4167 Predicted DNA-binding 79.7 3.2 7E-05 42.7 5.2 44 14-59 619-662 (907)
55 PF11626 Rap1_C: TRF2-interact 78.6 2.1 4.5E-05 32.1 2.8 25 10-34 43-75 (87)
56 KOG4282 Transcription factor G 76.8 1.5 3.3E-05 40.6 1.9 47 14-60 54-112 (345)
57 KOG4167 Predicted DNA-binding 76.5 3.7 8E-05 42.3 4.5 45 67-111 619-663 (907)
58 PF13325 MCRS_N: N-terminal re 75.5 4.8 0.0001 35.2 4.5 44 69-113 1-47 (199)
59 KOG4468 Polycomb-group transcr 71.0 6.9 0.00015 39.6 4.9 52 67-118 88-149 (782)
60 PF11626 Rap1_C: TRF2-interact 65.6 6.5 0.00014 29.4 2.8 17 63-79 43-59 (87)
61 KOG2009 Transcription initiati 61.5 11 0.00025 37.8 4.4 46 66-111 408-453 (584)
62 smart00595 MADF subfamily of S 60.8 7.4 0.00016 28.5 2.3 25 89-114 30-54 (89)
63 PF04545 Sigma70_r4: Sigma-70, 60.4 13 0.00028 24.4 3.2 41 73-114 7-47 (50)
64 PF11035 SnAPC_2_like: Small n 56.2 37 0.0008 31.9 6.4 45 67-111 21-69 (344)
65 PF13404 HTH_AsnC-type: AsnC-t 53.3 4.1 8.8E-05 26.6 -0.2 38 20-59 3-40 (42)
66 TIGR02985 Sig70_bacteroi1 RNA 53.2 21 0.00044 28.1 3.9 38 76-114 119-156 (161)
67 KOG4329 DNA-binding protein [G 53.0 40 0.00087 32.4 6.2 44 68-111 278-322 (445)
68 KOG2656 DNA methyltransferase 52.4 9.8 0.00021 36.6 2.1 48 12-60 128-180 (445)
69 PRK11179 DNA-binding transcrip 51.3 20 0.00044 29.2 3.7 46 72-118 8-54 (153)
70 KOG0384 Chromodomain-helicase 51.0 17 0.00036 39.8 3.8 76 13-95 1132-1208(1373)
71 PF13404 HTH_AsnC-type: AsnC-t 50.3 26 0.00056 22.7 3.3 38 73-111 3-41 (42)
72 PRK11179 DNA-binding transcrip 49.9 6.2 0.00013 32.3 0.4 45 19-65 8-52 (153)
73 KOG2009 Transcription initiati 46.3 16 0.00034 36.9 2.6 51 7-59 402-452 (584)
74 KOG4468 Polycomb-group transcr 46.0 18 0.00039 36.7 2.9 46 14-61 88-143 (782)
75 PF04504 DUF573: Protein of un 45.2 41 0.0009 25.8 4.3 48 68-115 5-65 (98)
76 cd08803 Death_ank3 Death domai 43.9 26 0.00055 26.3 2.9 31 75-106 4-34 (84)
77 cd08319 Death_RAIDD Death doma 43.6 23 0.0005 26.5 2.6 29 75-104 2-30 (83)
78 PF07750 GcrA: GcrA cell cycle 43.3 21 0.00046 30.0 2.6 40 69-109 2-41 (162)
79 PRK11169 leucine-responsive tr 42.1 7.8 0.00017 32.1 -0.2 45 19-65 13-57 (164)
80 PRK11169 leucine-responsive tr 41.9 31 0.00067 28.5 3.4 45 72-117 13-58 (164)
81 PF01388 ARID: ARID/BRIGHT DNA 41.3 45 0.00097 24.5 3.9 38 77-114 40-90 (92)
82 PLN03142 Probable chromatin-re 39.6 21 0.00046 38.4 2.5 33 12-44 924-956 (1033)
83 smart00501 BRIGHT BRIGHT, ARID 39.2 48 0.001 24.7 3.8 39 77-115 36-87 (93)
84 PF10545 MADF_DNA_bdg: Alcohol 38.8 20 0.00044 25.3 1.6 26 89-114 29-55 (85)
85 TIGR02937 sigma70-ECF RNA poly 36.3 47 0.001 25.2 3.4 34 80-114 120-153 (158)
86 cd08317 Death_ank Death domain 36.2 28 0.0006 25.6 2.0 29 75-104 4-32 (84)
87 PF07638 Sigma70_ECF: ECF sigm 35.4 60 0.0013 27.2 4.2 38 74-112 139-176 (185)
88 PF11035 SnAPC_2_like: Small n 35.0 70 0.0015 30.1 4.8 86 14-113 21-127 (344)
89 PRK09645 RNA polymerase sigma 34.0 73 0.0016 25.7 4.4 28 85-113 133-160 (173)
90 cd08318 Death_NMPP84 Death dom 32.5 42 0.00091 25.0 2.5 26 78-104 10-35 (86)
91 PRK09652 RNA polymerase sigma 32.4 60 0.0013 26.0 3.6 31 83-114 141-171 (182)
92 PRK11924 RNA polymerase sigma 32.3 57 0.0012 26.0 3.5 30 84-114 139-168 (179)
93 KOG1194 Predicted DNA-binding 31.9 25 0.00055 34.5 1.4 45 13-59 186-230 (534)
94 PF09420 Nop16: Ribosome bioge 31.8 1.2E+02 0.0025 25.3 5.3 46 66-111 113-162 (164)
95 cd08804 Death_ank2 Death domai 31.7 43 0.00093 24.9 2.4 31 75-106 4-34 (84)
96 PRK12512 RNA polymerase sigma 30.3 96 0.0021 25.3 4.6 34 84-118 145-178 (184)
97 cd06171 Sigma70_r4 Sigma70, re 30.2 86 0.0019 19.2 3.4 40 70-111 11-50 (55)
98 PRK12523 RNA polymerase sigma 30.2 1E+02 0.0022 25.0 4.6 35 83-118 132-166 (172)
99 PRK09643 RNA polymerase sigma 29.0 74 0.0016 26.5 3.7 30 83-113 147-176 (192)
100 cd08805 Death_ank1 Death domai 28.5 51 0.0011 24.8 2.3 22 75-96 4-25 (84)
101 cd08779 Death_PIDD Death Domai 28.4 45 0.00098 24.9 2.1 21 76-96 3-23 (86)
102 smart00005 DEATH DEATH domain, 28.1 47 0.001 24.0 2.1 29 74-103 4-33 (88)
103 PRK09413 IS2 repressor TnpA; R 28.0 88 0.0019 24.5 3.8 45 13-61 9-53 (121)
104 PRK09642 RNA polymerase sigma 27.8 1.1E+02 0.0023 24.4 4.3 28 85-113 121-148 (160)
105 PRK09641 RNA polymerase sigma 27.1 81 0.0018 25.6 3.6 29 85-114 151-179 (187)
106 PRK04217 hypothetical protein; 26.6 1.6E+02 0.0035 23.2 5.0 45 68-114 41-85 (110)
107 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 26.3 74 0.0016 21.7 2.6 35 73-108 7-41 (50)
108 TIGR02954 Sig70_famx3 RNA poly 25.8 89 0.0019 25.2 3.6 29 85-114 134-162 (169)
109 PRK09637 RNA polymerase sigma 25.5 92 0.002 25.8 3.6 31 83-114 119-149 (181)
110 COG2197 CitB Response regulato 25.4 68 0.0015 27.6 2.9 46 68-116 147-192 (211)
111 PF07750 GcrA: GcrA cell cycle 24.2 48 0.001 27.9 1.6 39 16-57 2-40 (162)
112 smart00344 HTH_ASNC helix_turn 24.0 98 0.0021 23.1 3.3 45 73-118 3-48 (108)
113 KOG4329 DNA-binding protein [G 23.9 50 0.0011 31.8 1.8 44 15-59 278-321 (445)
114 cd08777 Death_RIP1 Death Domai 23.6 65 0.0014 24.1 2.1 30 76-106 3-32 (86)
115 PRK09648 RNA polymerase sigma 23.0 1.2E+02 0.0025 25.0 3.8 30 84-114 153-182 (189)
116 TIGR02939 RpoE_Sigma70 RNA pol 22.9 83 0.0018 25.6 2.9 28 86-114 154-181 (190)
117 PRK12515 RNA polymerase sigma 22.9 1.2E+02 0.0026 25.0 3.8 29 85-114 146-174 (189)
118 PRK09047 RNA polymerase factor 22.8 1.3E+02 0.0028 23.7 3.9 29 85-114 121-149 (161)
119 PRK12532 RNA polymerase sigma 22.8 1.5E+02 0.0033 24.5 4.5 35 84-119 150-187 (195)
120 TIGR02948 SigW_bacill RNA poly 22.4 1E+02 0.0022 25.0 3.3 28 86-114 152-179 (187)
121 PRK12529 RNA polymerase sigma 22.2 1.6E+02 0.0035 24.0 4.5 34 84-118 141-174 (178)
122 cd08311 Death_p75NR Death doma 22.1 61 0.0013 23.8 1.7 33 72-106 2-34 (77)
123 PF13936 HTH_38: Helix-turn-he 21.9 52 0.0011 21.2 1.2 37 68-106 3-39 (44)
124 TIGR02943 Sig70_famx1 RNA poly 21.6 1.3E+02 0.0029 24.9 3.9 31 83-114 144-174 (188)
125 PRK11923 algU RNA polymerase s 21.6 1.1E+02 0.0024 25.1 3.4 27 86-113 154-180 (193)
126 KOG3841 TEF-1 and related tran 21.5 5E+02 0.011 25.2 7.9 28 7-34 69-96 (455)
127 PF09420 Nop16: Ribosome bioge 21.0 63 0.0014 26.9 1.8 47 12-59 112-161 (164)
128 PRK12530 RNA polymerase sigma 20.4 1.4E+02 0.003 24.8 3.8 27 85-112 149-175 (189)
129 PRK12531 RNA polymerase sigma 20.2 1.4E+02 0.0031 24.7 3.8 29 85-114 156-184 (194)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=3.8e-38 Score=294.64 Aligned_cols=131 Identities=63% Similarity=1.130 Sum_probs=125.5
Q ss_pred CCCCCCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccccCCCCCCCCCCHHHHHHHHH
Q 045387 1 MGRPPSSDKNGLKKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYLRPDIKRGKFSLEEEEAIIQ 80 (242)
Q Consensus 1 ~gr~~~~~k~~~kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EED~~L~~ 80 (242)
|||++||.|.+++||+||+|||++|+++|.+||.++|..||+.++++|+++|||+||.++|+|.+++++||+|||++|++
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999998779999999999999999999999999999999999
Q ss_pred HHHHhCCcchhhcccCCCCCHHHHHHHHHHhhhhHHHhCCCCCCCcccchh
Q 045387 81 LHKVLGNKWSAIASRLPGRTDNEIKNYWNTHIKKKLLRMGIDPVTHSPRLD 131 (242)
Q Consensus 81 lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k~~~k~~~~p~t~~~~~~ 131 (242)
++.+||++|++||+.|+|||+++||+||+.++++++++.+++|.++.+...
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~kpl~e 131 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPLSE 131 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCCCCccc
Confidence 999999999999999999999999999999999999988888877766543
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=1e-37 Score=274.04 Aligned_cols=127 Identities=66% Similarity=1.268 Sum_probs=122.7
Q ss_pred CCCCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccccCCCCCCCCCCHHHHHHHHHHH
Q 045387 3 RPPSSDKNGLKKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYLRPDIKRGKFSLEEEEAIIQLH 82 (242)
Q Consensus 3 r~~~~~k~~~kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EED~~L~~lv 82 (242)
|+|||.|+++++++||+|||++|+++|++||..+|..||+.++++|+++|||+||.++|+|.+++++||+|||++|++++
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 68999999999999999999999999999998899999999976999999999999999999999999999999999999
Q ss_pred HHhCCcchhhcccCCCCCHHHHHHHHHHhhhhHHHhCCCCCCCcccc
Q 045387 83 KVLGNKWSAIASRLPGRTDNEIKNYWNTHIKKKLLRMGIDPVTHSPR 129 (242)
Q Consensus 83 ~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k~~~k~~~~p~t~~~~ 129 (242)
.+||++|+.||+.|||||+++||+||+.++++++.+.++.|.++.+.
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 99999999999999999999999999999999999999998887763
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=3.5e-36 Score=266.08 Aligned_cols=120 Identities=68% Similarity=1.166 Sum_probs=113.2
Q ss_pred CCCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccccCCCCCCCCCCHHHHHHHHHHHHHhCCc
Q 045387 9 KNGLKKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYLRPDIKRGKFSLEEEEAIIQLHKVLGNK 88 (242)
Q Consensus 9 k~~~kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EED~~L~~lv~~~G~~ 88 (242)
++.+.||+||+|||++|+++|.+||.++|..||+.+|++|++++||.||.+||+|++++|.||+|||.+|++++.++|++
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 44456899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhcccCCCCCHHHHHHHHHHhhhhHHHhCCCCCCCccc
Q 045387 89 WSAIASRLPGRTDNEIKNYWNTHIKKKLLRMGIDPVTHSP 128 (242)
Q Consensus 89 W~~IA~~lpgRT~~q~k~rW~~~l~k~~~k~~~~p~t~~~ 128 (242)
|+.||++|||||+++||++|+..+++++...+.++.+...
T Consensus 84 Ws~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~~~~~~~~~ 123 (238)
T KOG0048|consen 84 WSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMGIDPSTHRP 123 (238)
T ss_pred HHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcCCCCCcccc
Confidence 9999999999999999999999999999988876666544
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.82 E-value=7.9e-21 Score=184.13 Aligned_cols=133 Identities=18% Similarity=0.351 Sum_probs=115.8
Q ss_pred CCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccc------------------------------
Q 045387 5 PSSDKNGLKKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCR------------------------------ 54 (242)
Q Consensus 5 ~~~~k~~~kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr------------------------------ 54 (242)
.....|+++|..|++|||++|..+...+|..+|..||..+|++|+..||.
T Consensus 244 ~n~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~~ 323 (939)
T KOG0049|consen 244 YNELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKIT 323 (939)
T ss_pred hhhcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHh
Confidence 45678899999999999999999999999889999999999779999997
Q ss_pred ------------------------hhcccccCCCCCCCCCCHHHHHHHHHHHHHhCC-cchhhcccCCCCCHHHHHHHHH
Q 045387 55 ------------------------LRWTNYLRPDIKRGKFSLEEEEAIIQLHKVLGN-KWSAIASRLPGRTDNEIKNYWN 109 (242)
Q Consensus 55 ------------------------~Rw~~~L~p~lkkg~WT~EED~~L~~lv~~~G~-~W~~IA~~lpgRT~~q~k~rW~ 109 (242)
.||.+.|+|++++|+||++||.+|+.+|.+||. .|.+|...+|||++.|||.||.
T Consensus 324 ~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~ 403 (939)
T KOG0049|consen 324 SINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYT 403 (939)
T ss_pred hccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHH
Confidence 588888999999999999999999999999995 5999999999999999999999
Q ss_pred HhhhhHHHhCCCCCCCcccchhhhhhhhccC
Q 045387 110 THIKKKLLRMGIDPVTHSPRLDLLELSSILS 140 (242)
Q Consensus 110 ~~l~k~~~k~~~~p~t~~~~~~ll~~~si~~ 140 (242)
+.|....++..|. -.++..|+.+...+|
T Consensus 404 nvL~~s~K~~rW~---l~edeqL~~~V~~YG 431 (939)
T KOG0049|consen 404 NVLNRSAKVERWT---LVEDEQLLYAVKVYG 431 (939)
T ss_pred HHHHHhhccCcee---ecchHHHHHHHHHHc
Confidence 9999999996664 445555555555555
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.80 E-value=2.2e-20 Score=181.12 Aligned_cols=106 Identities=28% Similarity=0.520 Sum_probs=100.8
Q ss_pred CCCCCCCCCCCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccccCCCCCCCCCCHHHHHHHHH
Q 045387 1 MGRPPSSDKNGLKKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYLRPDIKRGKFSLEEEEAIIQ 80 (242)
Q Consensus 1 ~gr~~~~~k~~~kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EED~~L~~ 80 (242)
+||+..+..|++++|+||++||.+|..+|.+||..+|.+|-..+| ||+..|||+||.++|....|++.||-.||+.|+.
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-CcchhhcccCCCCCHHHHHHH
Q 045387 81 LHKVLG-NKWSAIASRLPGRTDNEIKNY 107 (242)
Q Consensus 81 lv~~~G-~~W~~IA~~lpgRT~~q~k~r 107 (242)
+|..|| ++|.+||..||.||..|...|
T Consensus 426 ~V~~YG~g~WakcA~~Lp~~t~~q~~rr 453 (939)
T KOG0049|consen 426 AVKVYGKGNWAKCAMLLPKKTSRQLRRR 453 (939)
T ss_pred HHHHHccchHHHHHHHccccchhHHHHH
Confidence 999999 889999999999999554433
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=99.66 E-value=3.7e-17 Score=114.85 Aligned_cols=60 Identities=42% Similarity=0.917 Sum_probs=55.1
Q ss_pred CCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccccCCCCCCCCCCHHHHHHH
Q 045387 17 WTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYLRPDIKRGKFSLEEEEAI 78 (242)
Q Consensus 17 WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EED~~L 78 (242)
||+|||++|+.+|..|| .+|..||+.|| .|++.+|+.||.++|++.+++++||++||.+|
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 59999999997 89999999999999999999999999999987
No 7
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.62 E-value=2.2e-16 Score=139.45 Aligned_cols=89 Identities=19% Similarity=0.349 Sum_probs=80.4
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhC-CcchhhcccC-CCCCHHHHHHHHHHhhhhHHHhCCCCCCCcccchhhhhhhhcc
Q 045387 62 RPDIKRGKFSLEEEEAIIQLHKVLG-NKWSAIASRL-PGRTDNEIKNYWNTHIKKKLLRMGIDPVTHSPRLDLLELSSIL 139 (242)
Q Consensus 62 ~p~lkkg~WT~EED~~L~~lv~~~G-~~W~~IA~~l-pgRT~~q~k~rW~~~l~k~~~k~~~~p~t~~~~~~ll~~~si~ 139 (242)
++++++++||+|||++|+++|++|| .+|..||+.+ ++||++||+.||.++|++.+++ ++|+.+++..|+.++..+
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~k---gpWT~EED~lLlel~~~~ 96 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKR---GGITSDEEDLILRLHRLL 96 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhccc---CCCChHHHHHHHHHHHhc
Confidence 3578999999999999999999999 6899999998 6999999999999999999999 666888888899999999
Q ss_pred CCCCCCCCcccccc
Q 045387 140 SSSLCNSTQLNASN 153 (242)
Q Consensus 140 ~s~~~~~s~~~~s~ 153 (242)
|+.|..++..-+.+
T Consensus 97 GnKWs~IAk~LpGR 110 (249)
T PLN03212 97 GNRWSLIAGRIPGR 110 (249)
T ss_pred cccHHHHHhhcCCC
Confidence 99999987655554
No 8
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.62 E-value=1.6e-16 Score=140.74 Aligned_cols=88 Identities=16% Similarity=0.263 Sum_probs=81.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhC-CcchhhcccCC-CCCHHHHHHHHHHhhhhHHHhCCCCCCCcccchhhhhhhhccC
Q 045387 63 PDIKRGKFSLEEEEAIIQLHKVLG-NKWSAIASRLP-GRTDNEIKNYWNTHIKKKLLRMGIDPVTHSPRLDLLELSSILS 140 (242)
Q Consensus 63 p~lkkg~WT~EED~~L~~lv~~~G-~~W~~IA~~lp-gRT~~q~k~rW~~~l~k~~~k~~~~p~t~~~~~~ll~~~si~~ 140 (242)
+.+.+|+||+|||++|+++|.+|| .+|..||+.++ +|++++||-||.++|++.++++.| +.+++..++.+|.++|
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~f---T~eEe~~Ii~lH~~~G 81 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNF---SDEEEDLIIKLHALLG 81 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCC---CHHHHHHHHHHHHHHC
Confidence 345579999999999999999999 67999999998 999999999999999999999555 8888999999999999
Q ss_pred CCCCCCCcccccc
Q 045387 141 SSLCNSTQLNASN 153 (242)
Q Consensus 141 s~~~~~s~~~~s~ 153 (242)
+.|..++...+.+
T Consensus 82 NrWs~IA~~LPGR 94 (238)
T KOG0048|consen 82 NRWSLIAGRLPGR 94 (238)
T ss_pred cHHHHHHhhCCCc
Confidence 9999998888877
No 9
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.58 E-value=1.7e-15 Score=146.09 Aligned_cols=108 Identities=30% Similarity=0.521 Sum_probs=102.9
Q ss_pred CCCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccccCCCCCCCCCCHHHHHHHHHHHHHhCCc
Q 045387 9 KNGLKKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYLRPDIKRGKFSLEEEEAIIQLHKVLGNK 88 (242)
Q Consensus 9 k~~~kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EED~~L~~lv~~~G~~ 88 (242)
....+.|.|+..||+.|..+|+.+|.++|+.||..+. -|++++|+.||.++++|.+++..|+.|||+.|+.+..++|..
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 3457889999999999999999999999999999998 699999999999999999999999999999999999999999
Q ss_pred chhhcccCCCCCHHHHHHHHHHhhhhHHH
Q 045387 89 WSAIASRLPGRTDNEIKNYWNTHIKKKLL 117 (242)
Q Consensus 89 W~~IA~~lpgRT~~q~k~rW~~~l~k~~~ 117 (242)
|+.||..+++||..+|.+||...+.....
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 99999999999999999999999877766
No 10
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.55 E-value=1.2e-15 Score=145.32 Aligned_cols=105 Identities=28% Similarity=0.605 Sum_probs=100.1
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccccCCCCCCCCCCHHHHHHHHHHHHHhCCcchh
Q 045387 12 LKKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYLRPDIKRGKFSLEEEEAIIQLHKVLGNKWSA 91 (242)
Q Consensus 12 ~kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EED~~L~~lv~~~G~~W~~ 91 (242)
++.|.|+.-||+.|..+|.+||.+.|++|++.+. ..+++||+.||..+++|.+++..|+.|||++|+.+...+...|..
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 5788999999999999999999999999999998 899999999999999999999999999999999999999999999
Q ss_pred hcccCCCCCHHHHHHHHHHhhhhHHHh
Q 045387 92 IASRLPGRTDNEIKNYWNTHIKKKLLR 118 (242)
Q Consensus 92 IA~~lpgRT~~q~k~rW~~~l~k~~~k 118 (242)
||..| ||+.++|-.||.+++......
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 999999999999998776554
No 11
>PLN03091 hypothetical protein; Provisional
Probab=99.52 E-value=4.9e-15 Score=139.72 Aligned_cols=88 Identities=17% Similarity=0.344 Sum_probs=80.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhC-CcchhhcccC-CCCCHHHHHHHHHHhhhhHHHhCCCCCCCcccchhhhhhhhccC
Q 045387 63 PDIKRGKFSLEEEEAIIQLHKVLG-NKWSAIASRL-PGRTDNEIKNYWNTHIKKKLLRMGIDPVTHSPRLDLLELSSILS 140 (242)
Q Consensus 63 p~lkkg~WT~EED~~L~~lv~~~G-~~W~~IA~~l-pgRT~~q~k~rW~~~l~k~~~k~~~~p~t~~~~~~ll~~~si~~ 140 (242)
..+++++||+|||++|+++|.+|| .+|..||+.+ +||+++|||.||.++|++.+++ ++|+.+++..|++++..+|
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 578899999999999999999999 5799999988 5999999999999999999998 6779999999999999999
Q ss_pred CCCCCCCcccccc
Q 045387 141 SSLCNSTQLNASN 153 (242)
Q Consensus 141 s~~~~~s~~~~s~ 153 (242)
+.|..++..-+.+
T Consensus 87 nKWskIAk~LPGR 99 (459)
T PLN03091 87 NRWSQIAAQLPGR 99 (459)
T ss_pred cchHHHHHhcCCC
Confidence 9999987655554
No 12
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.47 E-value=3.7e-14 Score=138.36 Aligned_cols=103 Identities=28% Similarity=0.620 Sum_probs=92.8
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccccCCCC--CCCCCCHHHHHHHHHHHH-------
Q 045387 13 KKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYLRPDI--KRGKFSLEEEEAIIQLHK------- 83 (242)
Q Consensus 13 kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~p~l--kkg~WT~EED~~L~~lv~------- 83 (242)
.+|.||+||++.|..+|..|| ++|.+|++.|+ |.+..|++||.+|...+- +++.||.||++.|+++|.
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 59999999987 999999999999998874 899999999999999995
Q ss_pred Hh-------------------CCcchhhcccCCCCCHHHHHHHHHHhhhhHHHh
Q 045387 84 VL-------------------GNKWSAIASRLPGRTDNEIKNYWNTHIKKKLLR 118 (242)
Q Consensus 84 ~~-------------------G~~W~~IA~~lpgRT~~q~k~rW~~~l~k~~~k 118 (242)
.+ +-.|..|++.+..|+.-+|+.+|+.++......
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n 513 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFN 513 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhh
Confidence 23 125999999889999999999999988766544
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=99.43 E-value=2e-14 Score=97.08 Aligned_cols=48 Identities=42% Similarity=0.864 Sum_probs=43.2
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhccccc
Q 045387 14 KGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYL 61 (242)
Q Consensus 14 kg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L 61 (242)
|++||+|||++|+++|.+||.++|..||..||.+||+.||+.||.+++
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 689999999999999999998669999999998999999999998864
No 14
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.40 E-value=2.1e-13 Score=92.02 Aligned_cols=46 Identities=33% Similarity=0.710 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCc-chhhcccCC-CCCHHHHHHHHHHhh
Q 045387 67 RGKFSLEEEEAIIQLHKVLGNK-WSAIASRLP-GRTDNEIKNYWNTHI 112 (242)
Q Consensus 67 kg~WT~EED~~L~~lv~~~G~~-W~~IA~~lp-gRT~~q~k~rW~~~l 112 (242)
+++||+|||++|+++|.+||.+ |..||..|+ |||..||++||++++
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 5799999999999999999988 999999999 999999999998764
No 15
>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=99.39 E-value=2.3e-13 Score=95.48 Aligned_cols=58 Identities=34% Similarity=0.656 Sum_probs=47.4
Q ss_pred CCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhhhHHHhCCCCCCCcccch
Q 045387 70 FSLEEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYWNTHIKKKLLRMGIDPVTHSPRL 130 (242)
Q Consensus 70 WT~EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k~~~k~~~~p~t~~~~~ 130 (242)
||+|||.+|+++|..||++|..||+.|+.||+.+|++||...|++.+.+ .+++..++.
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~---~~wt~eEd~ 58 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISR---GPWTKEEDQ 58 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTS---SSSSHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccC---CCcCHHHHh
Confidence 9999999999999999999999999996699999999999988877666 444555443
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.21 E-value=2e-11 Score=80.21 Aligned_cols=47 Identities=43% Similarity=0.852 Sum_probs=44.2
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhh
Q 045387 67 RGKFSLEEEEAIIQLHKVLG-NKWSAIASRLPGRTDNEIKNYWNTHIK 113 (242)
Q Consensus 67 kg~WT~EED~~L~~lv~~~G-~~W~~IA~~lpgRT~~q~k~rW~~~l~ 113 (242)
+++||++||.+|+.++..|| .+|..||..|++||+.+|++||..+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999988764
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=99.10 E-value=1.4e-10 Score=75.05 Aligned_cols=43 Identities=35% Similarity=0.719 Sum_probs=41.3
Q ss_pred CCCHHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHh
Q 045387 69 KFSLEEEEAIIQLHKVLG-NKWSAIASRLPGRTDNEIKNYWNTH 111 (242)
Q Consensus 69 ~WT~EED~~L~~lv~~~G-~~W~~IA~~lpgRT~~q~k~rW~~~ 111 (242)
+||+|||..|+.++..|| .+|..||..+++||..+|++||..+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 599999999999999999 9999999999999999999999865
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.09 E-value=3.7e-11 Score=78.87 Aligned_cols=48 Identities=40% Similarity=0.890 Sum_probs=44.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccccC
Q 045387 14 KGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYLR 62 (242)
Q Consensus 14 kg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~ 62 (242)
+++||++||++|..++..||..+|..||..++ +|++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~-~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcC-CCCHHHHHHHHHHHcC
Confidence 46899999999999999999669999999999 9999999999988764
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.07 E-value=1e-10 Score=114.52 Aligned_cols=123 Identities=26% Similarity=0.347 Sum_probs=99.4
Q ss_pred CCcCCCCHHHHHHHHHHHHHh----CCC-------------------CceecccccCcccCccccch---hcccccCCCC
Q 045387 12 LKKGPWTAEEDQKLVDYIQKH----GHG-------------------RWRTLPKNAGLKRCGKSCRL---RWTNYLRPDI 65 (242)
Q Consensus 12 ~kkg~WT~EEDe~L~~~V~~~----G~~-------------------~W~~Ia~~l~~~Rt~~qCr~---Rw~~~L~p~l 65 (242)
++-+.|+++||++|...|..| |-. -|..|...|| -|+..++.. |-.+.+.+
T Consensus 306 ~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~-- 382 (607)
T KOG0051|consen 306 INLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFEN-- 382 (607)
T ss_pred hhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCcccc--
Confidence 445889999999999988776 211 1677888899 599999987 43344443
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhhhHHHhCCCCCCCcccchhhhhhhhcc
Q 045387 66 KRGKFSLEEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYWNTHIKKKLLRMGIDPVTHSPRLDLLELSSIL 139 (242)
Q Consensus 66 kkg~WT~EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k~~~k~~~~p~t~~~~~~ll~~~si~ 139 (242)
++|.||+||++.|..+|.++|+.|..|++.| ||.+.+|++||..+....-++ +.++|+.++...|+++..+.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~-~r~~Ws~eEe~~Llk~V~~~ 454 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKR-NRGAWSIEEEEKLLKTVNEM 454 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhcccccc-ccCcchHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999 999999999999988776432 33777888888888876543
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=98.96 E-value=2.4e-10 Score=73.90 Aligned_cols=44 Identities=41% Similarity=0.875 Sum_probs=41.4
Q ss_pred CCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccc
Q 045387 16 PWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNY 60 (242)
Q Consensus 16 ~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~ 60 (242)
+||+|||+.|..++..+|.++|..||+.++ +|++.+|+.||.++
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 599999999999999999779999999999 89999999999765
No 21
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.42 E-value=1.1e-07 Score=91.55 Aligned_cols=80 Identities=24% Similarity=0.356 Sum_probs=73.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhhhHHHhCCCCCCCcccchhhhhhhhccCCCC
Q 045387 65 IKRGKFSLEEEEAIIQLHKVLG-NKWSAIASRLPGRTDNEIKNYWNTHIKKKLLRMGIDPVTHSPRLDLLELSSILSSSL 143 (242)
Q Consensus 65 lkkg~WT~EED~~L~~lv~~~G-~~W~~IA~~lpgRT~~q~k~rW~~~l~k~~~k~~~~p~t~~~~~~ll~~~si~~s~~ 143 (242)
++.|.|+.-||+.|..+|.+|| +.|++|++.++-.|..||++||...+.+.+++.. |++++++.+|.+...+...|
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~te---ws~eederlLhlakl~p~qw 81 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTE---WSREEDERLLHLAKLEPTQW 81 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhh---hhhhHHHHHHHHHHhcCCcc
Confidence 5788999999999999999999 6799999999999999999999999999999944 59999999999999999888
Q ss_pred CCCC
Q 045387 144 CNST 147 (242)
Q Consensus 144 ~~~s 147 (242)
..+.
T Consensus 82 rtIa 85 (617)
T KOG0050|consen 82 RTIA 85 (617)
T ss_pred chHH
Confidence 7764
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=98.39 E-value=2e-08 Score=97.51 Aligned_cols=97 Identities=32% Similarity=0.685 Sum_probs=85.3
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccccCC--CCCCCCCCHHHHHHHHHHHHHhC----
Q 045387 13 KKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYLRP--DIKRGKFSLEEEEAIIQLHKVLG---- 86 (242)
Q Consensus 13 kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~p--~lkkg~WT~EED~~L~~lv~~~G---- 86 (242)
.+|.||+||+..|...+.++| +.|..|.+.++ |-+..||+||.+|... .+++++|+.||+..|...|.+.-
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 478999999999999999999 59999999876 9999999999999988 68889999999999999987542
Q ss_pred ----CcchhhcccCCCCCHHHHHHHHHHhh
Q 045387 87 ----NKWSAIASRLPGRTDNEIKNYWNTHI 112 (242)
Q Consensus 87 ----~~W~~IA~~lpgRT~~q~k~rW~~~l 112 (242)
-.|..|+..++.|+...|+.++....
T Consensus 367 ~~~~~~~~li~~~~~~~~~~~~~~~~~~~~ 396 (512)
T COG5147 367 QSSRILWLLIAQNIRNRLQHHCRDKYGVLI 396 (512)
T ss_pred hhhhhhHHHHHHhhhccccCCCCCcccccc
Confidence 24999999999999988888775544
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=97.99 E-value=3.4e-06 Score=59.33 Aligned_cols=48 Identities=15% Similarity=0.325 Sum_probs=42.9
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCc---eecccccCccc-Cccccchhccccc
Q 045387 14 KGPWTAEEDQKLVDYIQKHGHGRW---RTLPKNAGLKR-CGKSCRLRWTNYL 61 (242)
Q Consensus 14 kg~WT~EEDe~L~~~V~~~G~~~W---~~Ia~~l~~~R-t~~qCr~Rw~~~L 61 (242)
+-.||+||.++++++|..+|.++| ..|++.|...| |..||+.+++.|.
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 457999999999999999998899 99999887566 9999999988764
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.76 E-value=8.7e-06 Score=77.29 Aligned_cols=49 Identities=20% Similarity=0.592 Sum_probs=45.5
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhccccc
Q 045387 12 LKKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYL 61 (242)
Q Consensus 12 ~kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L 61 (242)
+-...||.+|+-+|++++..+|.|||..||..+| .|+..+|+++|.+++
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 4467799999999999999999999999999999 999999999998854
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=97.66 E-value=0.00011 Score=51.71 Aligned_cols=47 Identities=15% Similarity=0.257 Sum_probs=40.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC-cc---hhhcccCC-CC-CHHHHHHHHHHhh
Q 045387 66 KRGKFSLEEEEAIIQLHKVLGN-KW---SAIASRLP-GR-TDNEIKNYWNTHI 112 (242)
Q Consensus 66 kkg~WT~EED~~L~~lv~~~G~-~W---~~IA~~lp-gR-T~~q~k~rW~~~l 112 (242)
.+-.||+||....++++..+|. +| ..|+..|. .| |..+|+.+...+.
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 3568999999999999999995 99 99999873 45 9999999987654
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.42 E-value=0.00019 Score=68.31 Aligned_cols=48 Identities=23% Similarity=0.454 Sum_probs=43.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhh
Q 045387 65 IKRGKFSLEEEEAIIQLHKVLG-NKWSAIASRLPGRTDNEIKNYWNTHI 112 (242)
Q Consensus 65 lkkg~WT~EED~~L~~lv~~~G-~~W~~IA~~lpgRT~~q~k~rW~~~l 112 (242)
+-...||.+||..|++++..|| ++|..||.++..||..+|+.+|.+++
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 99999999999999999999997553
No 27
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.30 E-value=0.00024 Score=59.65 Aligned_cols=52 Identities=17% Similarity=0.319 Sum_probs=45.0
Q ss_pred CCCCCCHHHHHHHHHHHHHh---CC----cchhhcccCCCCCHHHHHHHHHHhhhhHHHh
Q 045387 66 KRGKFSLEEEEAIIQLHKVL---GN----KWSAIASRLPGRTDNEIKNYWNTHIKKKLLR 118 (242)
Q Consensus 66 kkg~WT~EED~~L~~lv~~~---G~----~W~~IA~~lpgRT~~q~k~rW~~~l~k~~~k 118 (242)
....||.|||.+|.+.|-.| |+ -+..++..| +||+.+|.=||+..+|+.+..
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 45689999999999999887 32 288999999 999999999999999987654
No 28
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.04 E-value=0.0012 Score=57.34 Aligned_cols=100 Identities=22% Similarity=0.386 Sum_probs=70.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCCceeccccc--CcccCccccchhccccc-CCCC--------------------CCCCCCH
Q 045387 16 PWTAEEDQKLVDYIQKHGHGRWRTLPKNA--GLKRCGKSCRLRWTNYL-RPDI--------------------KRGKFSL 72 (242)
Q Consensus 16 ~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l--~~~Rt~~qCr~Rw~~~L-~p~l--------------------kkg~WT~ 72 (242)
+|++++|-.|+.+|.... +-..|+.-+ ...-|-..+.+||+..| +|.+ .+.+||.
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 599999999999998765 456666543 23445566678998876 3333 2568999
Q ss_pred HHHHHHHHHHHHhCC---cchhhc----ccC-CCCCHHHHHHHHHHhhhhHHH
Q 045387 73 EEEEAIIQLHKVLGN---KWSAIA----SRL-PGRTDNEIKNYWNTHIKKKLL 117 (242)
Q Consensus 73 EED~~L~~lv~~~G~---~W~~IA----~~l-pgRT~~q~k~rW~~~l~k~~~ 117 (242)
+||++|......... .+.+|- ..| ++||+.++.++|..+.+..+.
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 999999987655432 244442 223 889999999999866555544
No 29
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.01 E-value=0.00026 Score=68.08 Aligned_cols=46 Identities=20% Similarity=0.531 Sum_probs=42.7
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccc
Q 045387 13 KKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNY 60 (242)
Q Consensus 13 kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~ 60 (242)
....||.+|..+|+++|..||. +|.+||.+++ +|+..||..|+.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 5668999999999999999996 9999999999 99999999999764
No 30
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.94 E-value=0.00053 Score=50.97 Aligned_cols=49 Identities=33% Similarity=0.527 Sum_probs=34.6
Q ss_pred CCCCCHHHHHHHHHHHHH------hC--C------cchhhcccC----CCCCHHHHHHHHHHhhhhH
Q 045387 67 RGKFSLEEEEAIIQLHKV------LG--N------KWSAIASRL----PGRTDNEIKNYWNTHIKKK 115 (242)
Q Consensus 67 kg~WT~EED~~L~~lv~~------~G--~------~W~~IA~~l----pgRT~~q~k~rW~~~l~k~ 115 (242)
+..||.+|...|++++.. ++ + -|..||..| ..||+.||+++|.++.+..
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Y 67 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKY 67 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Confidence 357999999999999877 21 1 399999987 3699999999999876544
No 31
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.80 E-value=0.0015 Score=47.16 Aligned_cols=50 Identities=22% Similarity=0.440 Sum_probs=32.7
Q ss_pred CCCCCHHHHHHHHHHHHHhC--------Cc-chhhcccCC-CCCHHHHHHHHHHhhhhHH
Q 045387 67 RGKFSLEEEEAIIQLHKVLG--------NK-WSAIASRLP-GRTDNEIKNYWNTHIKKKL 116 (242)
Q Consensus 67 kg~WT~EED~~L~~lv~~~G--------~~-W~~IA~~lp-gRT~~q~k~rW~~~l~k~~ 116 (242)
+.+||.|||..|+..|.++. ++ |.+++..-+ .+|-.+.|+||...|+...
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~ 61 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRP 61 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence 45899999999999997652 22 999999887 8999999999988876653
No 32
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.73 E-value=0.00072 Score=66.23 Aligned_cols=47 Identities=21% Similarity=0.553 Sum_probs=43.3
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccc
Q 045387 12 LKKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNY 60 (242)
Q Consensus 12 ~kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~ 60 (242)
.-++.||.+|+-+|+++|.+||. +|.+||.+++ +|+..||..++.+.
T Consensus 251 ~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 251 SARPNWTEQETLLLLEAIEMYGD-DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred cCCCCccHHHHHHHHHHHHHhcc-cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 45778999999999999999996 9999999999 99999999998764
No 33
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.72 E-value=0.0019 Score=63.38 Aligned_cols=46 Identities=11% Similarity=0.301 Sum_probs=43.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHh
Q 045387 66 KRGKFSLEEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYWNTH 111 (242)
Q Consensus 66 kkg~WT~EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~ 111 (242)
.++.||.+|..+|++++..||.+|.+||.++.+||..+|-.++..+
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 3578999999999999999999999999999999999999999755
No 34
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.64 E-value=0.0016 Score=62.76 Aligned_cols=44 Identities=14% Similarity=0.248 Sum_probs=41.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHh
Q 045387 68 GKFSLEEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYWNTH 111 (242)
Q Consensus 68 g~WT~EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~ 111 (242)
..||.+|..+|++.+..||..|.+||.++..||..||--||.++
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 48999999999999999999999999999999999999999854
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=96.45 E-value=0.0012 Score=47.70 Aligned_cols=51 Identities=29% Similarity=0.598 Sum_probs=33.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCC------CC--ceecccccCcccCccccchhcccccCCC
Q 045387 14 KGPWTAEEDQKLVDYIQKHGH------GR--WRTLPKNAGLKRCGKSCRLRWTNYLRPD 64 (242)
Q Consensus 14 kg~WT~EEDe~L~~~V~~~G~------~~--W~~Ia~~l~~~Rt~~qCr~Rw~~~L~p~ 64 (242)
+.+||.|||+.|+++|..+.. |+ |..+++.-++.+|-.+-|+||.+.|.+.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~ 60 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGR 60 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT---
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcc
Confidence 357999999999999976532 22 9999988877899999999999988754
No 36
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.33 E-value=0.0034 Score=53.32 Aligned_cols=52 Identities=13% Similarity=0.272 Sum_probs=42.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCc-------chhhcccCCCCCHHHHHHHHHHhhhhHHH
Q 045387 65 IKRGKFSLEEEEAIIQLHKVLGNK-------WSAIASRLPGRTDNEIKNYWNTHIKKKLL 117 (242)
Q Consensus 65 lkkg~WT~EED~~L~~lv~~~G~~-------W~~IA~~lpgRT~~q~k~rW~~~l~k~~~ 117 (242)
.+...||.|||.+|.+.|-.|+.. ...++..| +||..+|..||+..+++.+.
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 356789999999999999888632 66667777 99999999999999987643
No 37
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=96.26 E-value=0.00094 Score=56.12 Aligned_cols=49 Identities=29% Similarity=0.691 Sum_probs=41.7
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCC-C-----CceecccccCcccCccccchhcccccC
Q 045387 12 LKKGPWTAEEDQKLVDYIQKHGH-G-----RWRTLPKNAGLKRCGKSCRLRWTNYLR 62 (242)
Q Consensus 12 ~kkg~WT~EEDe~L~~~V~~~G~-~-----~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~ 62 (242)
.+...||.|||..|.+.|-+|-. | ...+|+..++ ||+.-|.-||.-+++
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 46778999999999999999832 1 4888998886 999999999998876
No 38
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.95 E-value=0.017 Score=42.00 Aligned_cols=49 Identities=31% Similarity=0.506 Sum_probs=40.0
Q ss_pred CCCCCHHHHHHHHHHHHHhC----C-------------cchhhcccC-----CCCCHHHHHHHHHHhhhhH
Q 045387 67 RGKFSLEEEEAIIQLHKVLG----N-------------KWSAIASRL-----PGRTDNEIKNYWNTHIKKK 115 (242)
Q Consensus 67 kg~WT~EED~~L~~lv~~~G----~-------------~W~~IA~~l-----pgRT~~q~k~rW~~~l~k~ 115 (242)
...||++|...|++++.+|. + -|..|+..| +.||..+++.+|.++....
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 45799999999999998863 1 299999876 3599999999999886543
No 39
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.85 E-value=0.0021 Score=59.46 Aligned_cols=48 Identities=19% Similarity=0.513 Sum_probs=44.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccccC
Q 045387 14 KGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYLR 62 (242)
Q Consensus 14 kg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~ 62 (242)
.--|+..|+-.|++.....|-|||..||..+| .|+...|+++|.++..
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 34599999999999999999999999999999 9999999999988654
No 40
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.68 E-value=0.0023 Score=47.52 Aligned_cols=46 Identities=26% Similarity=0.698 Sum_probs=31.6
Q ss_pred CCCCHHHHHHHHHHHHHh------C--C---C--Cceeccccc---CcccCccccchhcccc
Q 045387 15 GPWTAEEDQKLVDYIQKH------G--H---G--RWRTLPKNA---GLKRCGKSCRLRWTNY 60 (242)
Q Consensus 15 g~WT~EEDe~L~~~V~~~------G--~---~--~W~~Ia~~l---~~~Rt~~qCr~Rw~~~ 60 (242)
..||.+|...|++++... + . + -|..||..| |..|++.||+.+|.+.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 479999999999988772 1 1 1 399999875 5689999999999874
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.40 E-value=0.012 Score=54.52 Aligned_cols=46 Identities=26% Similarity=0.442 Sum_probs=42.3
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhh
Q 045387 67 RGKFSLEEEEAIIQLHKVLG-NKWSAIASRLPGRTDNEIKNYWNTHI 112 (242)
Q Consensus 67 kg~WT~EED~~L~~lv~~~G-~~W~~IA~~lpgRT~~q~k~rW~~~l 112 (242)
-..|+.+|+..|++...-+| ++|..||.++..|+...||.+|..+.
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y 109 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMY 109 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHH
Confidence 34799999999999999999 89999999999999999999998654
No 42
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.79 E-value=0.06 Score=57.22 Aligned_cols=100 Identities=14% Similarity=0.287 Sum_probs=76.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccch-------hcccc----------------------------
Q 045387 16 PWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRL-------RWTNY---------------------------- 60 (242)
Q Consensus 16 ~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~-------Rw~~~---------------------------- 60 (242)
.|+.-+=..++.+..+||..+-..||..+. +++...++. ||..+
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~ 904 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG 904 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477777777888899999888999999997 788887762 22111
Q ss_pred --------------c-CCCCCCCCCCHHHHHHHHHHHHHhC-Ccchhhcc------------cCCCCCHHHHHHHHHHhh
Q 045387 61 --------------L-RPDIKRGKFSLEEEEAIIQLHKVLG-NKWSAIAS------------RLPGRTDNEIKNYWNTHI 112 (242)
Q Consensus 61 --------------L-~p~lkkg~WT~EED~~L~~lv~~~G-~~W~~IA~------------~lpgRT~~q~k~rW~~~l 112 (242)
+ .+..++..||+|||..|+-.+.+|| .+|.+|-. ++..||+..+..|...++
T Consensus 905 ~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~ 984 (1033)
T PLN03142 905 KKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI 984 (1033)
T ss_pred HHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence 0 1222345699999999999999999 67998843 236799999999999888
Q ss_pred hhHH
Q 045387 113 KKKL 116 (242)
Q Consensus 113 ~k~~ 116 (242)
+-..
T Consensus 985 ~~~~ 988 (1033)
T PLN03142 985 RLIE 988 (1033)
T ss_pred HHHH
Confidence 6553
No 43
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=94.22 E-value=0.0093 Score=50.71 Aligned_cols=49 Identities=22% Similarity=0.556 Sum_probs=38.7
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCC------CceecccccCcccCccccchhcccccC
Q 045387 12 LKKGPWTAEEDQKLVDYIQKHGHG------RWRTLPKNAGLKRCGKSCRLRWTNYLR 62 (242)
Q Consensus 12 ~kkg~WT~EEDe~L~~~V~~~G~~------~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~ 62 (242)
.+...||.|||.+|.+.|..|+.. -...++..+. |++..|..||.-+++
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 467889999999999999998643 2555666665 999999999966554
No 44
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=93.67 E-value=0.014 Score=42.51 Aligned_cols=49 Identities=27% Similarity=0.512 Sum_probs=39.0
Q ss_pred CcCCCCHHHHHHHHHHHHHhCC----------------CCceeccccc----CcccCccccchhccccc
Q 045387 13 KKGPWTAEEDQKLVDYIQKHGH----------------GRWRTLPKNA----GLKRCGKSCRLRWTNYL 61 (242)
Q Consensus 13 kkg~WT~EEDe~L~~~V~~~G~----------------~~W~~Ia~~l----~~~Rt~~qCr~Rw~~~L 61 (242)
++..||++|.+.|+++|.+|.. .-|..|+..+ +..|+..+++.+|.++.
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 3567999999999999998821 1399999764 23799999999998754
No 45
>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=92.96 E-value=0.13 Score=41.29 Aligned_cols=52 Identities=27% Similarity=0.394 Sum_probs=40.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC----cchhhccc------------CCCCCHHHHHHHHHHhhhhH
Q 045387 64 DIKRGKFSLEEEEAIIQLHKVLGN----KWSAIASR------------LPGRTDNEIKNYWNTHIKKK 115 (242)
Q Consensus 64 ~lkkg~WT~EED~~L~~lv~~~G~----~W~~IA~~------------lpgRT~~q~k~rW~~~l~k~ 115 (242)
..++..||++||..|+-.+.+||- .|..|-.. +..||+..+..|...+++-.
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 456779999999999999999996 68888653 35699999999999887644
No 46
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=92.49 E-value=0.37 Score=45.96 Aligned_cols=82 Identities=21% Similarity=0.315 Sum_probs=64.9
Q ss_pred CceecccccCcccCccccchhcccccCCCC-------------------------CCCCCCHHHHHHHHHHHHHhCCcch
Q 045387 36 RWRTLPKNAGLKRCGKSCRLRWTNYLRPDI-------------------------KRGKFSLEEEEAIIQLHKVLGNKWS 90 (242)
Q Consensus 36 ~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~p~l-------------------------kkg~WT~EED~~L~~lv~~~G~~W~ 90 (242)
.|..++=..+ .|...-...||.+..++.. ....||.||-.-|.++++.|.-+|-
T Consensus 75 ~W~w~pFtn~-aRkD~~~l~HWvr~~d~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf~ 153 (445)
T KOG2656|consen 75 PWKWVPFTNS-ARKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRFF 153 (445)
T ss_pred CceeeccCCc-cccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeEE
Confidence 6877775555 6777777788887733321 1246999999999999999999999
Q ss_pred hhccc-----CCC-CCHHHHHHHHHHhhhhHHHh
Q 045387 91 AIASR-----LPG-RTDNEIKNYWNTHIKKKLLR 118 (242)
Q Consensus 91 ~IA~~-----lpg-RT~~q~k~rW~~~l~k~~~k 118 (242)
.||.+ ++. ||-..+|+||+...++-++.
T Consensus 154 VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kA 187 (445)
T KOG2656|consen 154 VIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKA 187 (445)
T ss_pred EEeeccchhhccccccHHHHHHHHHHHHHHHHHc
Confidence 99998 555 99999999999888776654
No 47
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=91.79 E-value=0.27 Score=45.70 Aligned_cols=50 Identities=22% Similarity=0.339 Sum_probs=40.3
Q ss_pred CCCCCHHHHHHHHHHHHHh----------CCcchhhcccC----CCCCHHHHHHHHHHhhhhHH
Q 045387 67 RGKFSLEEEEAIIQLHKVL----------GNKWSAIASRL----PGRTDNEIKNYWNTHIKKKL 116 (242)
Q Consensus 67 kg~WT~EED~~L~~lv~~~----------G~~W~~IA~~l----pgRT~~q~k~rW~~~l~k~~ 116 (242)
...|+.+|-..|+++..+. +..|..||+.+ .-||+.+||.+|.++.++.-
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk 117 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYK 117 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 4689999999999998653 23499999955 34999999999998876543
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=90.25 E-value=0.56 Score=34.95 Aligned_cols=46 Identities=30% Similarity=0.536 Sum_probs=34.8
Q ss_pred CCCHHHHHHHHHHHHHh---CC----------cchhhcccC---CC--CCHHHHHHHHHHhhhh
Q 045387 69 KFSLEEEEAIIQLHKVL---GN----------KWSAIASRL---PG--RTDNEIKNYWNTHIKK 114 (242)
Q Consensus 69 ~WT~EED~~L~~lv~~~---G~----------~W~~IA~~l---pg--RT~~q~k~rW~~~l~k 114 (242)
.||++++..|++++.+. |+ .|..|+..| .| .|..+|++||..+.+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~ 64 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKD 64 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHH
Confidence 49999999999998653 21 289998877 22 4789999999766544
No 49
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=87.74 E-value=0.69 Score=44.08 Aligned_cols=46 Identities=26% Similarity=0.358 Sum_probs=42.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhh
Q 045387 68 GKFSLEEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYWNTHIK 113 (242)
Q Consensus 68 g~WT~EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~ 113 (242)
.+||.+|-++...+....|..++.|+..+|.|...|||.+|.+--+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek 411 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEK 411 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhh
Confidence 4899999999999999999999999999999999999999975443
No 50
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=85.89 E-value=0.57 Score=37.58 Aligned_cols=34 Identities=29% Similarity=0.500 Sum_probs=28.4
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCC---CCceeccccc
Q 045387 11 GLKKGPWTAEEDQKLVDYIQKHGH---GRWRTLPKNA 44 (242)
Q Consensus 11 ~~kkg~WT~EEDe~L~~~V~~~G~---~~W~~Ia~~l 44 (242)
.-++..||.|||.-|+-++.+||. +.|..|-..+
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 567788999999999999999999 8999998754
No 51
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=85.53 E-value=0.55 Score=44.73 Aligned_cols=69 Identities=13% Similarity=0.208 Sum_probs=53.8
Q ss_pred CCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccc--cCCC------CCCCCCCHHHHHHHHH
Q 045387 10 NGLKKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNY--LRPD------IKRGKFSLEEEEAIIQ 80 (242)
Q Consensus 10 ~~~kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~--L~p~------lkkg~WT~EED~~L~~ 80 (242)
.+..--+||.+|-+++.+++..+|. ++.-|+..+| +|..+|++.+|.+- .+|. ..+-|+..+|-.++..
T Consensus 361 ~~~~~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP-~R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k~~~ 437 (507)
T COG5118 361 KKKGALRWSKKEIEKFYKALSIWGT-DFSLISSLFP-NRERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNKLRS 437 (507)
T ss_pred CCCCCCcccHHHHHHHHHHHHHhcc-hHHHHHHhcC-chhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhhHHH
Confidence 3445567999999999999999997 9999999999 99999999998763 2221 1245788877765543
No 52
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=85.02 E-value=1.5 Score=42.69 Aligned_cols=47 Identities=19% Similarity=0.345 Sum_probs=42.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhh
Q 045387 67 RGKFSLEEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYWNTHIK 113 (242)
Q Consensus 67 kg~WT~EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~ 113 (242)
...||.||-.++-++...||.++.+|-..||.|+-..+..+|+...+
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK 233 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKK 233 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHH
Confidence 46899999999999999999999999999999999999998876643
No 53
>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=83.82 E-value=1.7 Score=28.97 Aligned_cols=41 Identities=24% Similarity=0.323 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhh
Q 045387 72 LEEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYWNTHIK 113 (242)
Q Consensus 72 ~EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~ 113 (242)
++++..++.++...|-.|.+||..+ |.+...|+.+....++
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 5678888888888999999999999 9999999998876554
No 54
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=79.74 E-value=3.2 Score=42.68 Aligned_cols=44 Identities=11% Similarity=0.163 Sum_probs=36.6
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhccc
Q 045387 14 KGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTN 59 (242)
Q Consensus 14 kg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~ 59 (242)
...||+.|-.++.+++..|.. ++..|++.++ +++.++|-+-|..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~K-DF~~v~km~~-~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSK-DFIFVQKMVK-SKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhcc-cHHHHHHHhc-cccHHHHHHHHHH
Confidence 456999999999999999984 8999999888 9999999776544
No 55
>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=78.55 E-value=2.1 Score=32.15 Aligned_cols=25 Identities=40% Similarity=0.667 Sum_probs=14.5
Q ss_pred CCCCcCCCCHHHHHHH--------HHHHHHhCC
Q 045387 10 NGLKKGPWTAEEDQKL--------VDYIQKHGH 34 (242)
Q Consensus 10 ~~~kkg~WT~EEDe~L--------~~~V~~~G~ 34 (242)
|.--.|-||+|+|+.| .+++++||.
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG~ 75 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHGE 75 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH-H
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhCH
Confidence 4445788999999999 356788883
No 56
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=76.75 E-value=1.5 Score=40.64 Aligned_cols=47 Identities=21% Similarity=0.502 Sum_probs=36.7
Q ss_pred cCCCCHHHHHHHHHHHHHh----CC-----CCceecccc---cCcccCccccchhcccc
Q 045387 14 KGPWTAEEDQKLVDYIQKH----GH-----GRWRTLPKN---AGLKRCGKSCRLRWTNY 60 (242)
Q Consensus 14 kg~WT~EEDe~L~~~V~~~----G~-----~~W~~Ia~~---l~~~Rt~~qCr~Rw~~~ 60 (242)
...|+.+|-..|+++..+. .. ..|..||+. .+..|++.+|+.+|.+.
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl 112 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENL 112 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence 3689999999999886543 11 259999983 45579999999999874
No 57
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=76.53 E-value=3.7 Score=42.31 Aligned_cols=45 Identities=11% Similarity=0.148 Sum_probs=41.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHh
Q 045387 67 RGKFSLEEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYWNTH 111 (242)
Q Consensus 67 kg~WT~EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~ 111 (242)
...||+.|-...-+++..|..++..|++.++++|-++|-.+|+..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHH
Confidence 358999999999999999999999999999999999998887654
No 58
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=75.46 E-value=4.8 Score=35.20 Aligned_cols=44 Identities=16% Similarity=0.227 Sum_probs=33.9
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhcccC---CCCCHHHHHHHHHHhhh
Q 045387 69 KFSLEEEEAIIQLHKVLGNKWSAIASRL---PGRTDNEIKNYWNTHIK 113 (242)
Q Consensus 69 ~WT~EED~~L~~lv~~~G~~W~~IA~~l---pgRT~~q~k~rW~~~l~ 113 (242)
+|++++|-.|+.+|. .|+.-..|+..+ -.-|-..|..||+.+|.
T Consensus 1 rW~~~DDl~Li~av~-~~~~L~~v~~gvkFS~~fT~~Ei~~RW~~lly 47 (199)
T PF13325_consen 1 RWKPEDDLLLINAVE-QTNDLESVHLGVKFSCKFTLQEIEERWYALLY 47 (199)
T ss_pred CCCchhhHHHHHHHH-HhcCHHHHHccCCcCCcCcHHHHHHHHHHHHc
Confidence 599999999999984 455555665543 34588999999998883
No 59
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=71.01 E-value=6.9 Score=39.57 Aligned_cols=52 Identities=15% Similarity=0.447 Sum_probs=42.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCcchhh----------cccCCCCCHHHHHHHHHHhhhhHHHh
Q 045387 67 RGKFSLEEEEAIIQLHKVLGNKWSAI----------ASRLPGRTDNEIKNYWNTHIKKKLLR 118 (242)
Q Consensus 67 kg~WT~EED~~L~~lv~~~G~~W~~I----------A~~lpgRT~~q~k~rW~~~l~k~~~k 118 (242)
+..||..|++-...+.+++|.++.+| -..+.-+|-.+++.+|+..+++.-+-
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 56899999999999999999999988 22334568889999999888776544
No 60
>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=65.57 E-value=6.5 Score=29.43 Aligned_cols=17 Identities=29% Similarity=0.526 Sum_probs=10.2
Q ss_pred CCCCCCCCCHHHHHHHH
Q 045387 63 PDIKRGKFSLEEEEAII 79 (242)
Q Consensus 63 p~lkkg~WT~EED~~L~ 79 (242)
|....|-||+|+|..|.
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 55678999999999994
No 61
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=61.48 E-value=11 Score=37.85 Aligned_cols=46 Identities=22% Similarity=0.336 Sum_probs=42.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHh
Q 045387 66 KRGKFSLEEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYWNTH 111 (242)
Q Consensus 66 kkg~WT~EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~ 111 (242)
..++|+.+|-++......+.|.+.+.|+..+|+|...+||.++..-
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~e 453 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKE 453 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhh
Confidence 4578999999999999999999999999999999999999988644
No 62
>smart00595 MADF subfamily of SANT domain.
Probab=60.76 E-value=7.4 Score=28.47 Aligned_cols=25 Identities=32% Similarity=0.646 Sum_probs=21.2
Q ss_pred chhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 89 WSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 89 W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
|..||..| |-+...|+.+|+++-..
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~~ 54 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRDR 54 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 99999999 55999999999977533
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=60.44 E-value=13 Score=24.38 Aligned_cols=41 Identities=27% Similarity=0.413 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 73 EEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 73 EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
+++..++.++-..|-.+.+||..+ |-+...|+.+-...+++
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 455556666655567799999999 88999999888776654
No 64
>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=56.21 E-value=37 Score=31.89 Aligned_cols=45 Identities=24% Similarity=0.521 Sum_probs=36.1
Q ss_pred CCCCCHHHHHHHHHHHHHh-CCc---chhhcccCCCCCHHHHHHHHHHh
Q 045387 67 RGKFSLEEEEAIIQLHKVL-GNK---WSAIASRLPGRTDNEIKNYWNTH 111 (242)
Q Consensus 67 kg~WT~EED~~L~~lv~~~-G~~---W~~IA~~lpgRT~~q~k~rW~~~ 111 (242)
-..||.-|...|+.+.... |.. -.+|++.++||+..+|++.-..+
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 4589999999999888765 433 56888999999999999866543
No 65
>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=53.32 E-value=4.1 Score=26.56 Aligned_cols=38 Identities=24% Similarity=0.413 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHhCCCCceecccccCcccCccccchhccc
Q 045387 20 EEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTN 59 (242)
Q Consensus 20 EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~ 59 (242)
+=|.+|+.++...|...|..||+.+| =+...|..|+.+
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 45889999999999889999999987 667888888654
No 66
>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=53.24 E-value=21 Score=28.09 Aligned_cols=38 Identities=21% Similarity=0.347 Sum_probs=28.2
Q ss_pred HHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 76 EAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 76 ~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
..++.+....|-.+.+||..+ |.+...|+.+....+++
T Consensus 119 r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 119 RKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333444344577899999998 99999999999876544
No 67
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=52.97 E-value=40 Score=32.36 Aligned_cols=44 Identities=18% Similarity=0.290 Sum_probs=39.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCcchhhcc-cCCCCCHHHHHHHHHHh
Q 045387 68 GKFSLEEEEAIIQLHKVLGNKWSAIAS-RLPGRTDNEIKNYWNTH 111 (242)
Q Consensus 68 g~WT~EED~~L~~lv~~~G~~W~~IA~-~lpgRT~~q~k~rW~~~ 111 (242)
..|+++|-...-+..+.||.++..|.. .++.|+--.|-.+|+-.
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHh
Confidence 479999999999999999999999965 48999999999888644
No 68
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=52.38 E-value=9.8 Score=36.58 Aligned_cols=48 Identities=19% Similarity=0.340 Sum_probs=41.7
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCceecccc-----cCcccCccccchhcccc
Q 045387 12 LKKGPWTAEEDQKLVDYIQKHGHGRWRTLPKN-----AGLKRCGKSCRLRWTNY 60 (242)
Q Consensus 12 ~kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~-----l~~~Rt~~qCr~Rw~~~ 60 (242)
+....||.||.+-|.++.+.|.- .|-.||.. ++..||....++||..+
T Consensus 128 l~dn~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 128 LNDNSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred hccccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHH
Confidence 34567999999999999999996 79999987 67569999999999754
No 69
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=51.35 E-value=20 Score=29.20 Aligned_cols=46 Identities=9% Similarity=0.132 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhhhHHHh
Q 045387 72 LEEEEAIIQLHKVLG-NKWSAIASRLPGRTDNEIKNYWNTHIKKKLLR 118 (242)
Q Consensus 72 ~EED~~L~~lv~~~G-~~W~~IA~~lpgRT~~q~k~rW~~~l~k~~~k 118 (242)
.+-|.+|+.+..+-| ..|++||+.+ |-+...|+.|++.+....+.+
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 357888888888777 5699999999 999999999997766554433
No 70
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=50.97 E-value=17 Score=39.77 Aligned_cols=76 Identities=18% Similarity=0.265 Sum_probs=52.2
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccccCCCCCCCCCCHHHHHHHHHHHHHh-CCcchh
Q 045387 13 KKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYLRPDIKRGKFSLEEEEAIIQLHKVL-GNKWSA 91 (242)
Q Consensus 13 kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EED~~L~~lv~~~-G~~W~~ 91 (242)
...-|..+||.+|+-.|-+||.|+|..|-.- +.-|... ...+...+..+.+=..+-..|+.+...+ +.+|.+
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------PDLGLTD-KIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPK 1204 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccC------ccccchh-hhcccccCCchHHHHHHHHHHHHHHhhcccCCCch
Confidence 4556999999999999999999999998642 1222211 1112222456677777888888888877 666766
Q ss_pred hccc
Q 045387 92 IASR 95 (242)
Q Consensus 92 IA~~ 95 (242)
..+.
T Consensus 1205 ~~~~ 1208 (1373)
T KOG0384|consen 1205 KLKR 1208 (1373)
T ss_pred hhhc
Confidence 5544
No 71
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=50.32 E-value=26 Score=22.69 Aligned_cols=38 Identities=18% Similarity=0.366 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHh
Q 045387 73 EEEEAIIQLHKVLG-NKWSAIASRLPGRTDNEIKNYWNTH 111 (242)
Q Consensus 73 EED~~L~~lv~~~G-~~W~~IA~~lpgRT~~q~k~rW~~~ 111 (242)
+-|.+|+.+...-| -.|.+||+.+ |=+...|..|+..+
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 45788888888877 4599999999 99999999998653
No 72
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=49.91 E-value=6.2 Score=32.30 Aligned_cols=45 Identities=13% Similarity=0.237 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccccCCCC
Q 045387 19 AEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYLRPDI 65 (242)
Q Consensus 19 ~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~p~l 65 (242)
.+-|.+|+.++++.|.-.|.+||+.++ -+...|+.|+.+....++
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 357999999999999889999999987 788999999988766553
No 73
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=46.29 E-value=16 Score=36.89 Aligned_cols=51 Identities=14% Similarity=0.276 Sum_probs=44.9
Q ss_pred CCCCCCCcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhccc
Q 045387 7 SDKNGLKKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTN 59 (242)
Q Consensus 7 ~~k~~~kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~ 59 (242)
+..+....++|+.+|-++........|. +.+.|+..++ .|..++++..+..
T Consensus 402 t~sk~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p-~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 402 TYSKKLETDKWDASETELFYKALSERGS-DFSLISNLFP-LRDRKQIKAKFKK 452 (584)
T ss_pred hccCccccCcccchhhHHhhhHHhhhcc-cccccccccc-cccHHHHHHHHhh
Confidence 3456677899999999999999999996 8999999998 9999999988754
No 74
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=45.99 E-value=18 Score=36.71 Aligned_cols=46 Identities=15% Similarity=0.393 Sum_probs=34.2
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCceeccc----------ccCcccCccccchhccccc
Q 045387 14 KGPWTAEEDQKLVDYIQKHGHGRWRTLPK----------NAGLKRCGKSCRLRWTNYL 61 (242)
Q Consensus 14 kg~WT~EEDe~L~~~V~~~G~~~W~~Ia~----------~l~~~Rt~~qCr~Rw~~~L 61 (242)
|..||..|++.+.+++..+|. ++..|-. ... -++..|.|.+|.+.+
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~-~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQ-SKTKDQVRHYYYRLV 143 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchh-hhhhHHHHHHHHHHH
Confidence 668999999999999999995 8988822 222 355567777766543
No 75
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=45.23 E-value=41 Score=25.81 Aligned_cols=48 Identities=23% Similarity=0.151 Sum_probs=31.1
Q ss_pred CCCCHHHHHHHHHHHHHh----C----Ccchhhccc----CC-CCCHHHHHHHHHHhhhhH
Q 045387 68 GKFSLEEEEAIIQLHKVL----G----NKWSAIASR----LP-GRTDNEIKNYWNTHIKKK 115 (242)
Q Consensus 68 g~WT~EED~~L~~lv~~~----G----~~W~~IA~~----lp-gRT~~q~k~rW~~~l~k~ 115 (242)
.-||+|+|..|++.+..| | ..|..+-.. +. .=+..|+.++-..+-++.
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky 65 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKY 65 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHH
Confidence 469999999999998776 5 234333333 31 236677777776655443
No 76
>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=43.87 E-value=26 Score=26.29 Aligned_cols=31 Identities=23% Similarity=0.416 Sum_probs=24.6
Q ss_pred HHHHHHHHHHhCCcchhhcccCCCCCHHHHHH
Q 045387 75 EEAIIQLHKVLGNKWSAIASRLPGRTDNEIKN 106 (242)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~ 106 (242)
|..|..+....|..|..+|..| |=+...|..
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI~~ 34 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEINQ 34 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHHHH
Confidence 6778888999999999999998 655554433
No 77
>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=43.65 E-value=23 Score=26.53 Aligned_cols=29 Identities=28% Similarity=0.588 Sum_probs=22.9
Q ss_pred HHHHHHHHHHhCCcchhhcccCCCCCHHHH
Q 045387 75 EEAIIQLHKVLGNKWSAIASRLPGRTDNEI 104 (242)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~lpgRT~~q~ 104 (242)
|+.|..+....|..|..+|..| |=|..+|
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 5678888999999999999988 5444433
No 78
>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=43.25 E-value=21 Score=30.02 Aligned_cols=40 Identities=25% Similarity=0.230 Sum_probs=33.3
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHH
Q 045387 69 KFSLEEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYWN 109 (242)
Q Consensus 69 ~WT~EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~ 109 (242)
.||+|+.+.|.++. .-|..=++||..|.|.|.++|--+-+
T Consensus 2 ~Wtde~~~~L~~lw-~~G~SasqIA~~lg~vsRnAViGk~h 41 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGLSASQIARQLGGVSRNAVIGKAH 41 (162)
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHhCCcchhhhhhhhh
Confidence 59999999999887 45666789999997799999877654
No 79
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=42.14 E-value=7.8 Score=32.13 Aligned_cols=45 Identities=22% Similarity=0.278 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHhCCCCceecccccCcccCccccchhcccccCCCC
Q 045387 19 AEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYLRPDI 65 (242)
Q Consensus 19 ~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L~p~l 65 (242)
.+-|.+|+.+.++.|.-.|.+||+.++ =+...|+.|+.+..+.++
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 567999999999999889999999987 777889999988766554
No 80
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=41.87 E-value=31 Score=28.50 Aligned_cols=45 Identities=9% Similarity=0.053 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhhhHHH
Q 045387 72 LEEEEAIIQLHKVLG-NKWSAIASRLPGRTDNEIKNYWNTHIKKKLL 117 (242)
Q Consensus 72 ~EED~~L~~lv~~~G-~~W~~IA~~lpgRT~~q~k~rW~~~l~k~~~ 117 (242)
.+-|.+|+.+..+-| -.|++||+.+ |=+...|+.|++.+.+..+.
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI 58 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFI 58 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCe
Confidence 567888888777776 5699999999 99999999999777655443
No 81
>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=41.25 E-value=45 Score=24.55 Aligned_cols=38 Identities=16% Similarity=0.313 Sum_probs=26.6
Q ss_pred HHHHHHHHhCC--------cchhhcccCCC---CC--HHHHHHHHHHhhhh
Q 045387 77 AIIQLHKVLGN--------KWSAIASRLPG---RT--DNEIKNYWNTHIKK 114 (242)
Q Consensus 77 ~L~~lv~~~G~--------~W~~IA~~lpg---RT--~~q~k~rW~~~l~k 114 (242)
.|..+|...|+ +|..||..|.- -+ ..+++..|..+|.+
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 36677777773 59999999822 22 36788888877754
No 82
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=39.64 E-value=21 Score=38.43 Aligned_cols=33 Identities=24% Similarity=0.366 Sum_probs=28.3
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCceeccccc
Q 045387 12 LKKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNA 44 (242)
Q Consensus 12 ~kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l 44 (242)
-++..||.|||..|+-++.+||.++|.+|-..+
T Consensus 924 ~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i 956 (1033)
T PLN03142 924 NKGKLYNEECDRFMLCMVHKLGYGNWDELKAAF 956 (1033)
T ss_pred CCCCcCCHHHHHHHHHHHHHhccchHHHHHHHH
Confidence 345569999999999999999999999996543
No 83
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=39.22 E-value=48 Score=24.67 Aligned_cols=39 Identities=18% Similarity=0.310 Sum_probs=27.7
Q ss_pred HHHHHHHHhCC--------cchhhcccCCC-----CCHHHHHHHHHHhhhhH
Q 045387 77 AIIQLHKVLGN--------KWSAIASRLPG-----RTDNEIKNYWNTHIKKK 115 (242)
Q Consensus 77 ~L~~lv~~~G~--------~W~~IA~~lpg-----RT~~q~k~rW~~~l~k~ 115 (242)
.|..+|.+.|+ .|..||..|.- .....++..|..+|.+.
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~y 87 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPF 87 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHH
Confidence 36667777764 59999998822 23567888888887654
No 84
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=38.77 E-value=20 Score=25.33 Aligned_cols=26 Identities=23% Similarity=0.489 Sum_probs=20.7
Q ss_pred chhhcccCCC-CCHHHHHHHHHHhhhh
Q 045387 89 WSAIASRLPG-RTDNEIKNYWNTHIKK 114 (242)
Q Consensus 89 W~~IA~~lpg-RT~~q~k~rW~~~l~k 114 (242)
|..||..+.. -+...|+.+|.++...
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~~ 55 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRDR 55 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHHH
Confidence 9999999943 5788999999876543
No 85
>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=36.29 E-value=47 Score=25.20 Aligned_cols=34 Identities=26% Similarity=0.267 Sum_probs=25.8
Q ss_pred HHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 80 QLHKVLGNKWSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 80 ~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
.++...|..+.+||+.+ |=+...|+.+....+++
T Consensus 120 ~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 120 VLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred hhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33334577899999999 77999999988876554
No 86
>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=36.25 E-value=28 Score=25.64 Aligned_cols=29 Identities=24% Similarity=0.682 Sum_probs=22.4
Q ss_pred HHHHHHHHHHhCCcchhhcccCCCCCHHHH
Q 045387 75 EEAIIQLHKVLGNKWSAIASRLPGRTDNEI 104 (242)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~lpgRT~~q~ 104 (242)
|..|..+.+..|.+|.++|..| |=+..+|
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 4567788889999999999998 5554433
No 87
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=35.41 E-value=60 Score=27.16 Aligned_cols=38 Identities=18% Similarity=0.301 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhh
Q 045387 74 EEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYWNTHI 112 (242)
Q Consensus 74 ED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l 112 (242)
+...++.+....|-.+.+||..+ |-+...|+.+|....
T Consensus 139 ~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR 176 (185)
T PF07638_consen 139 RQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR 176 (185)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 33444445445678899999999 999999999997654
No 88
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=35.04 E-value=70 Score=30.11 Aligned_cols=86 Identities=16% Similarity=0.275 Sum_probs=61.5
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCC---ceecccccCcccCccccchhcccccCCCCCCCCCCHHHHHHHHHHHHH-h----
Q 045387 14 KGPWTAEEDQKLVDYIQKHGHGR---WRTLPKNAGLKRCGKSCRLRWTNYLRPDIKRGKFSLEEEEAIIQLHKV-L---- 85 (242)
Q Consensus 14 kg~WT~EEDe~L~~~V~~~G~~~---W~~Ia~~l~~~Rt~~qCr~Rw~~~L~p~lkkg~WT~EED~~L~~lv~~-~---- 85 (242)
...||.-|...|+.+.+...... -.+|++.++ +|+..++++- .+.|+ +..+.+++.+ |
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 45699999999999988764333 456778888 9999888763 23332 3445555554 2
Q ss_pred -CC------------cchhhcccCCCCCHHHHHHHHHHhhh
Q 045387 86 -GN------------KWSAIASRLPGRTDNEIKNYWNTHIK 113 (242)
Q Consensus 86 -G~------------~W~~IA~~lpgRT~~q~k~rW~~~l~ 113 (242)
|- -|..+|..+-|.-...+-.-|-.+|-
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 11 19999999999999888888876663
No 89
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=33.99 E-value=73 Score=25.71 Aligned_cols=28 Identities=21% Similarity=0.305 Sum_probs=22.4
Q ss_pred hCCcchhhcccCCCCCHHHHHHHHHHhhh
Q 045387 85 LGNKWSAIASRLPGRTDNEIKNYWNTHIK 113 (242)
Q Consensus 85 ~G~~W~~IA~~lpgRT~~q~k~rW~~~l~ 113 (242)
.|-.-.+||..| |.+...|+.+....++
T Consensus 133 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~ 160 (173)
T PRK09645 133 RGWSTAQIAADL-GIPEGTVKSRLHYALR 160 (173)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 456689999999 9999999998875543
No 90
>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=32.52 E-value=42 Score=24.98 Aligned_cols=26 Identities=35% Similarity=0.641 Sum_probs=19.4
Q ss_pred HHHHHHHhCCcchhhcccCCCCCHHHH
Q 045387 78 IIQLHKVLGNKWSAIASRLPGRTDNEI 104 (242)
Q Consensus 78 L~~lv~~~G~~W~~IA~~lpgRT~~q~ 104 (242)
|..+....|.+|..+|..| |=+..+|
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 3335578899999999998 6666555
No 91
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=32.40 E-value=60 Score=26.01 Aligned_cols=31 Identities=13% Similarity=0.162 Sum_probs=24.1
Q ss_pred HHhCCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 83 KVLGNKWSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 83 ~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
...|-.+..||..+ |-+...|+.+....+++
T Consensus 141 ~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 141 EIEGLSYEEIAEIM-GCPIGTVRSRIFRAREA 171 (182)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34467899999999 88999998887755443
No 92
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=32.29 E-value=57 Score=26.02 Aligned_cols=30 Identities=23% Similarity=0.218 Sum_probs=23.5
Q ss_pred HhCCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 84 VLGNKWSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 84 ~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
..|-....||..| |-+...|+.++....++
T Consensus 139 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 139 VEGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466799999999 88999999988765433
No 93
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=31.95 E-value=25 Score=34.52 Aligned_cols=45 Identities=18% Similarity=0.175 Sum_probs=39.1
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhccc
Q 045387 13 KKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTN 59 (242)
Q Consensus 13 kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~ 59 (242)
....||.||--++..+...||. ++.+|-+.|| .|+-.+++.-|..
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK-~F~kIrq~LP-~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGK-DFHKIRQALP-HRSLASLVQYYYS 230 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcc-cHHHHHHHcc-CccHHHHHHHHHH
Confidence 4567999999999999999995 9999999999 9998888766543
No 94
>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=31.84 E-value=1.2e+02 Score=25.29 Aligned_cols=46 Identities=22% Similarity=0.193 Sum_probs=38.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCcchhhcccC----CCCCHHHHHHHHHHh
Q 045387 66 KRGKFSLEEEEAIIQLHKVLGNKWSAIASRL----PGRTDNEIKNYWNTH 111 (242)
Q Consensus 66 kkg~WT~EED~~L~~lv~~~G~~W~~IA~~l----pgRT~~q~k~rW~~~ 111 (242)
....-|+.|...|..++.+||.++...|.-. --.|..+|+.+...+
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 4557899999999999999999999988753 358999999887654
No 95
>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=31.74 E-value=43 Score=24.92 Aligned_cols=31 Identities=29% Similarity=0.542 Sum_probs=24.3
Q ss_pred HHHHHHHHHHhCCcchhhcccCCCCCHHHHHH
Q 045387 75 EEAIIQLHKVLGNKWSAIASRLPGRTDNEIKN 106 (242)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~ 106 (242)
|..|..+....|.+|..+|+.| |=+...|..
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI~~ 34 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQIHQ 34 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 5667788889999999999998 666655544
No 96
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=30.31 E-value=96 Score=25.32 Aligned_cols=34 Identities=12% Similarity=0.185 Sum_probs=26.0
Q ss_pred HhCCcchhhcccCCCCCHHHHHHHHHHhhhhHHHh
Q 045387 84 VLGNKWSAIASRLPGRTDNEIKNYWNTHIKKKLLR 118 (242)
Q Consensus 84 ~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k~~~k 118 (242)
..|-...+||..| |-+...|+.+....+++-...
T Consensus 145 ~~g~s~~eIA~~l-~is~~tV~~~l~ra~~~Lr~~ 178 (184)
T PRK12512 145 VEGASIKETAAKL-SMSEGAVRVALHRGLAALAAK 178 (184)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHH
Confidence 3466789999999 999999999988766554433
No 97
>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=30.16 E-value=86 Score=19.25 Aligned_cols=40 Identities=20% Similarity=0.263 Sum_probs=26.9
Q ss_pred CCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHh
Q 045387 70 FSLEEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYWNTH 111 (242)
Q Consensus 70 WT~EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~ 111 (242)
++++ +..++.++..-|-.+..||+.+ |=+...|+.+....
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 4444 4455555556677899999998 77777777766543
No 98
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=30.16 E-value=1e+02 Score=25.03 Aligned_cols=35 Identities=20% Similarity=0.403 Sum_probs=27.0
Q ss_pred HHhCCcchhhcccCCCCCHHHHHHHHHHhhhhHHHh
Q 045387 83 KVLGNKWSAIASRLPGRTDNEIKNYWNTHIKKKLLR 118 (242)
Q Consensus 83 ~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k~~~k 118 (242)
...|-...+||..+ |-+...|+.+-...+++-...
T Consensus 132 ~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~~~~ 166 (172)
T PRK12523 132 RLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQCYIA 166 (172)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHH
Confidence 34466789999999 999999999888776655443
No 99
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=29.03 E-value=74 Score=26.53 Aligned_cols=30 Identities=17% Similarity=0.175 Sum_probs=23.9
Q ss_pred HHhCCcchhhcccCCCCCHHHHHHHHHHhhh
Q 045387 83 KVLGNKWSAIASRLPGRTDNEIKNYWNTHIK 113 (242)
Q Consensus 83 ~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~ 113 (242)
...|-...+||..| |-+...|+.++....+
T Consensus 147 ~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~ 176 (192)
T PRK09643 147 DMQGYSVADAARML-GVAEGTVKSRCARGRA 176 (192)
T ss_pred HHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 34567799999999 9999999999965443
No 100
>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=28.47 E-value=51 Score=24.76 Aligned_cols=22 Identities=27% Similarity=0.552 Sum_probs=19.4
Q ss_pred HHHHHHHHHHhCCcchhhcccC
Q 045387 75 EEAIIQLHKVLGNKWSAIASRL 96 (242)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~l 96 (242)
|..|..+....|..|.++|..|
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L 25 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL 25 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc
Confidence 5677788899999999999988
No 101
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. 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
Probab=28.44 E-value=45 Score=24.86 Aligned_cols=21 Identities=29% Similarity=0.580 Sum_probs=18.4
Q ss_pred HHHHHHHHHhCCcchhhcccC
Q 045387 76 EAIIQLHKVLGNKWSAIASRL 96 (242)
Q Consensus 76 ~~L~~lv~~~G~~W~~IA~~l 96 (242)
.-|..+....|..|..+|..|
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L 23 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL 23 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc
Confidence 457788899999999999988
No 102
>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=28.13 E-value=47 Score=23.98 Aligned_cols=29 Identities=28% Similarity=0.603 Sum_probs=20.8
Q ss_pred HHHHHHHHHHH-hCCcchhhcccCCCCCHHH
Q 045387 74 EEEAIIQLHKV-LGNKWSAIASRLPGRTDNE 103 (242)
Q Consensus 74 ED~~L~~lv~~-~G~~W~~IA~~lpgRT~~q 103 (242)
-++.|..++.. .|.+|..+|+.| |=+..+
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~L-g~~~~~ 33 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKL-GLSEAD 33 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHc-CCCHHH
Confidence 45566667777 899999999998 434443
No 103
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=27.95 E-value=88 Score=24.50 Aligned_cols=45 Identities=18% Similarity=0.260 Sum_probs=31.8
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhccccc
Q 045387 13 KKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTNYL 61 (242)
Q Consensus 13 kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~~L 61 (242)
++..||.|+-...+..+...|. .=..||+.++. ..+-..+|.+..
T Consensus 9 ~rr~ys~EfK~~aV~~~~~~g~-sv~evA~e~gI---s~~tl~~W~r~y 53 (121)
T PRK09413 9 KRRRRTTQEKIAIVQQSFEPGM-TVSLVARQHGV---AASQLFLWRKQY 53 (121)
T ss_pred CCCCCCHHHHHHHHHHHHcCCC-CHHHHHHHHCc---CHHHHHHHHHHH
Confidence 3567999998888887777774 67788888884 233455676644
No 104
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=27.84 E-value=1.1e+02 Score=24.40 Aligned_cols=28 Identities=11% Similarity=-0.039 Sum_probs=22.2
Q ss_pred hCCcchhhcccCCCCCHHHHHHHHHHhhh
Q 045387 85 LGNKWSAIASRLPGRTDNEIKNYWNTHIK 113 (242)
Q Consensus 85 ~G~~W~~IA~~lpgRT~~q~k~rW~~~l~ 113 (242)
.|-.-.+||..+ |-+...|+.+....++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 148 (160)
T PRK09642 121 EEKSYQEIALQE-KIEVKTVEMKLYRARK 148 (160)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 456689999999 9999999988775543
No 105
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=27.05 E-value=81 Score=25.63 Aligned_cols=29 Identities=10% Similarity=-0.028 Sum_probs=23.1
Q ss_pred hCCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 85 LGNKWSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 85 ~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
.|..+.+||..+ |-+...|+.+.....++
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466789999999 88999999888765543
No 106
>PRK04217 hypothetical protein; Provisional
Probab=26.64 E-value=1.6e+02 Score=23.19 Aligned_cols=45 Identities=18% Similarity=0.132 Sum_probs=35.5
Q ss_pred CCCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 68 GKFSLEEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 68 g~WT~EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
..-|.+| ..++.+....|-...+||+.+ |-+...|+.++....++
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkk 85 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKK 85 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 4466666 577777777788899999999 99999999999865544
No 107
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=26.28 E-value=74 Score=21.67 Aligned_cols=35 Identities=31% Similarity=0.545 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHH
Q 045387 73 EEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYW 108 (242)
Q Consensus 73 EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW 108 (242)
++|+..+.++...|-.-.+||+.+ ||+...|+++-
T Consensus 7 ~~Eqaqid~m~qlG~s~~~isr~i-~RSr~~Ir~yl 41 (50)
T PF11427_consen 7 DAEQAQIDVMHQLGMSLREISRRI-GRSRTCIRRYL 41 (50)
T ss_dssp HHHHHHHHHHHHTT--HHHHHHHH-T--HHHHHHHH
T ss_pred HHHHHHHHHHHHhchhHHHHHHHh-CccHHHHHHHh
Confidence 455566677788998899999999 99999888754
No 108
>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=25.81 E-value=89 Score=25.15 Aligned_cols=29 Identities=21% Similarity=0.352 Sum_probs=22.9
Q ss_pred hCCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 85 LGNKWSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 85 ~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
.|-...+||..+ |-|...|+.++...+++
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 456788999988 78999999988766544
No 109
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=25.47 E-value=92 Score=25.78 Aligned_cols=31 Identities=23% Similarity=0.149 Sum_probs=24.4
Q ss_pred HHhCCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 83 KVLGNKWSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 83 ~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
...|-...+||..| |-+...|+.+....+++
T Consensus 119 ~~~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 119 ELEGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred HhcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 34567799999999 89999999988755543
No 110
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=25.42 E-value=68 Score=27.59 Aligned_cols=46 Identities=20% Similarity=0.177 Sum_probs=37.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHHHHHHhhhhHH
Q 045387 68 GKFSLEEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKNYWNTHIKKKL 116 (242)
Q Consensus 68 g~WT~EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k~~ 116 (242)
...|+.|-+.|.-+.+ |-.=++||..| +.+..-||.+..++++|--
T Consensus 147 ~~LT~RE~eVL~lla~--G~snkeIA~~L-~iS~~TVk~h~~~i~~KL~ 192 (211)
T COG2197 147 ELLTPRELEVLRLLAE--GLSNKEIAEEL-NLSEKTVKTHVSNILRKLG 192 (211)
T ss_pred CCCCHHHHHHHHHHHC--CCCHHHHHHHH-CCCHhHHHHHHHHHHHHcC
Confidence 3789999888876664 43446999999 9999999999999987753
No 111
>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=24.15 E-value=48 Score=27.88 Aligned_cols=39 Identities=13% Similarity=0.141 Sum_probs=28.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhc
Q 045387 16 PWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRW 57 (242)
Q Consensus 16 ~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw 57 (242)
.||.|+.++|.++....- .=..||+.|| +.+...+.-+-
T Consensus 2 ~Wtde~~~~L~~lw~~G~--SasqIA~~lg-~vsRnAViGk~ 40 (162)
T PF07750_consen 2 SWTDERVERLRKLWAEGL--SASQIARQLG-GVSRNAVIGKA 40 (162)
T ss_pred CCCHHHHHHHHHHHHcCC--CHHHHHHHhC-Ccchhhhhhhh
Confidence 599999999999996533 4689999999 44444444443
No 112
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=23.99 E-value=98 Score=23.12 Aligned_cols=45 Identities=11% Similarity=0.186 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHhC-CcchhhcccCCCCCHHHHHHHHHHhhhhHHHh
Q 045387 73 EEEEAIIQLHKVLG-NKWSAIASRLPGRTDNEIKNYWNTHIKKKLLR 118 (242)
Q Consensus 73 EED~~L~~lv~~~G-~~W~~IA~~lpgRT~~q~k~rW~~~l~k~~~k 118 (242)
+.|..|+.+....| -.++.||+.+ |-+...|+.+...+.+..+.+
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 56888888888877 5699999999 999999999997776654433
No 113
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=23.88 E-value=50 Score=31.76 Aligned_cols=44 Identities=14% Similarity=0.160 Sum_probs=35.9
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCceecccccCcccCccccchhccc
Q 045387 15 GPWTAEEDQKLVDYIQKHGHGRWRTLPKNAGLKRCGKSCRLRWTN 59 (242)
Q Consensus 15 g~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~~~Rt~~qCr~Rw~~ 59 (242)
..|+.+|-..+.+.++.||. ++..|-+.--..|+...|-+-|.-
T Consensus 278 ~~wsEeEcr~FEegl~~yGK-DF~lIr~nkvrtRsvgElVeyYYl 321 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGK-DFHLIRANKVRTRSVGELVEYYYL 321 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcc-cHHHHHhcccccchHHHHHHHHHH
Confidence 45999999999999999995 898887754448988888776643
No 114
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=23.63 E-value=65 Score=24.12 Aligned_cols=30 Identities=37% Similarity=0.630 Sum_probs=22.3
Q ss_pred HHHHHHHHHhCCcchhhcccCCCCCHHHHHH
Q 045387 76 EAIIQLHKVLGNKWSAIASRLPGRTDNEIKN 106 (242)
Q Consensus 76 ~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~ 106 (242)
+.|-.+....|.+|..+|+.| |=+..+|..
T Consensus 3 ~~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 3 KHLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 345556678899999999999 766666654
No 115
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=23.04 E-value=1.2e+02 Score=25.01 Aligned_cols=30 Identities=17% Similarity=0.238 Sum_probs=23.8
Q ss_pred HhCCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 84 VLGNKWSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 84 ~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
..|....+||..| |=+...|+.+....+++
T Consensus 153 ~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 153 VVGLSAEETAEAV-GSTPGAVRVAQHRALAR 182 (189)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3467799999999 88899999988766544
No 116
>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=22.93 E-value=83 Score=25.64 Aligned_cols=28 Identities=11% Similarity=0.087 Sum_probs=22.2
Q ss_pred CCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 86 GNKWSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 86 G~~W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
|-...+||..+ |=+...|+.+....+++
T Consensus 154 ~~s~~EIA~~l-gis~~tv~~~l~rar~~ 181 (190)
T TIGR02939 154 GLSYEDIARIM-DCPVGTVRSRIFRAREA 181 (190)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 55689999998 88899999988766544
No 117
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=22.89 E-value=1.2e+02 Score=25.02 Aligned_cols=29 Identities=14% Similarity=0.106 Sum_probs=23.2
Q ss_pred hCCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 85 LGNKWSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 85 ~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
.|-...+||..| |-+...|+.++...+++
T Consensus 146 ~~~s~~eIA~~l-gis~~tV~~~l~Rar~~ 174 (189)
T PRK12515 146 HEKSVEEVGEIV-GIPESTVKTRMFYARKK 174 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 466789999999 88999999988765533
No 118
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=22.77 E-value=1.3e+02 Score=23.75 Aligned_cols=29 Identities=10% Similarity=0.134 Sum_probs=22.9
Q ss_pred hCCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 85 LGNKWSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 85 ~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
.|-.-.+||..| |-+...|+.+....+++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 121 EDMDVAETAAAM-GCSEGSVKTHCSRATHA 149 (161)
T ss_pred hcCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466689999999 88999999988755433
No 119
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=22.77 E-value=1.5e+02 Score=24.48 Aligned_cols=35 Identities=14% Similarity=0.178 Sum_probs=25.2
Q ss_pred HhCCcchhhcccCCCCCHHHHHHHHHH---hhhhHHHhC
Q 045387 84 VLGNKWSAIASRLPGRTDNEIKNYWNT---HIKKKLLRM 119 (242)
Q Consensus 84 ~~G~~W~~IA~~lpgRT~~q~k~rW~~---~l~k~~~k~ 119 (242)
..|-.-.+||..| |-+...|+.+... .|++.+.+.
T Consensus 150 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~~l~~~ 187 (195)
T PRK12532 150 ILGFSSDEIQQMC-GISTSNYHTIMHRARESLRQCLQIK 187 (195)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 3466789999999 8899999888775 444455443
No 120
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=22.36 E-value=1e+02 Score=25.02 Aligned_cols=28 Identities=11% Similarity=0.004 Sum_probs=22.2
Q ss_pred CCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 86 GNKWSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 86 G~~W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
|..-.+||..| |-+...|+.+....+++
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 88999999988765544
No 121
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=22.21 E-value=1.6e+02 Score=24.04 Aligned_cols=34 Identities=24% Similarity=0.138 Sum_probs=27.5
Q ss_pred HhCCcchhhcccCCCCCHHHHHHHHHHhhhhHHHh
Q 045387 84 VLGNKWSAIASRLPGRTDNEIKNYWNTHIKKKLLR 118 (242)
Q Consensus 84 ~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k~~~k 118 (242)
..|-...+||..| |-+...|+.+....+..-..+
T Consensus 141 ~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~~ 174 (178)
T PRK12529 141 LDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLSL 174 (178)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHh
Confidence 3466799999999 999999999998777666544
No 122
>cd08311 Death_p75NR Death domain of p75 Neurotophin Receptor. Death Domain (DD) found in p75 neurotrophin receptor (p75NTR, NGFR, TNFRSF16). p75NTR binds members of the neurotrophin (NT) family including nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT3, among others. It contains an NT-binding extracellular region that bears four cysteine-rich repeats, a transmembrane domain, and an intracellular DD. p75NTR plays roles in the immune, vascular, and nervous systems, and has been shown to promote cell death or survival, and to induce neurite outgrowth or collapse depending on its ligands and co-receptors. 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 adaptor
Probab=22.05 E-value=61 Score=23.84 Aligned_cols=33 Identities=30% Similarity=0.551 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHH
Q 045387 72 LEEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKN 106 (242)
Q Consensus 72 ~EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~ 106 (242)
.||-++|+.. -..|.+|..+|..| |=+...|+.
T Consensus 2 ~~~v~~ll~~-~nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLES-GRPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhC-CCCccCHHHHHHHc-CCCHHHHHH
Confidence 5777777732 24678999999999 777777665
No 123
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=21.88 E-value=52 Score=21.24 Aligned_cols=37 Identities=30% Similarity=0.390 Sum_probs=17.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCcchhhcccCCCCCHHHHHH
Q 045387 68 GKFSLEEEEAIIQLHKVLGNKWSAIASRLPGRTDNEIKN 106 (242)
Q Consensus 68 g~WT~EED~~L~~lv~~~G~~W~~IA~~lpgRT~~q~k~ 106 (242)
..+|.+|-..|..++ .-|..=.+||+.| ||+...|..
T Consensus 3 ~~Lt~~eR~~I~~l~-~~G~s~~~IA~~l-g~s~sTV~r 39 (44)
T PF13936_consen 3 KHLTPEERNQIEALL-EQGMSIREIAKRL-GRSRSTVSR 39 (44)
T ss_dssp ---------HHHHHH-CS---HHHHHHHT-T--HHHHHH
T ss_pred cchhhhHHHHHHHHH-HcCCCHHHHHHHH-CcCcHHHHH
Confidence 357888888777664 4566678999999 999887765
No 124
>TIGR02943 Sig70_famx1 RNA polymerase sigma-70 factor, TIGR02943 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.
Probab=21.61 E-value=1.3e+02 Score=24.93 Aligned_cols=31 Identities=16% Similarity=0.104 Sum_probs=24.0
Q ss_pred HHhCCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 83 KVLGNKWSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 83 ~~~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
...|-...+||..| |-+...|+.|....+++
T Consensus 144 ~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~ 174 (188)
T TIGR02943 144 EVLGFESDEICQEL-EISTSNCHVLLYRARLS 174 (188)
T ss_pred HHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 33466789999999 99999999987765433
No 125
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=21.61 E-value=1.1e+02 Score=25.15 Aligned_cols=27 Identities=15% Similarity=0.116 Sum_probs=21.4
Q ss_pred CCcchhhcccCCCCCHHHHHHHHHHhhh
Q 045387 86 GNKWSAIASRLPGRTDNEIKNYWNTHIK 113 (242)
Q Consensus 86 G~~W~~IA~~lpgRT~~q~k~rW~~~l~ 113 (242)
|-...+||..+ |-+...|+.+....++
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 55688999998 8889999988875543
No 126
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=21.48 E-value=5e+02 Score=25.25 Aligned_cols=28 Identities=14% Similarity=0.316 Sum_probs=23.0
Q ss_pred CCCCCCCcCCCCHHHHHHHHHHHHHhCC
Q 045387 7 SDKNGLKKGPWTAEEDQKLVDYIQKHGH 34 (242)
Q Consensus 7 ~~k~~~kkg~WT~EEDe~L~~~V~~~G~ 34 (242)
.++.+...|.|+++=|+.+.+++..|..
T Consensus 69 ~D~~~daegvWSpdIEqsFqEALaiypp 96 (455)
T KOG3841|consen 69 TDNQRDAEGVWSPDIEQSFQEALAIYPP 96 (455)
T ss_pred CccccccccccChhHHHHHHHHHhhcCC
Confidence 3444567899999999999999998875
No 127
>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=21.04 E-value=63 Score=26.92 Aligned_cols=47 Identities=15% Similarity=0.264 Sum_probs=32.9
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCCceecccccC---cccCccccchhccc
Q 045387 12 LKKGPWTAEEDQKLVDYIQKHGHGRWRTLPKNAG---LKRCGKSCRLRWTN 59 (242)
Q Consensus 12 ~kkg~WT~EEDe~L~~~V~~~G~~~W~~Ia~~l~---~~Rt~~qCr~Rw~~ 59 (242)
.+...=|..|.+-+..+|.+||. |+...+.-.. ...|+.||+.+...
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGd-Dy~aMarD~KLN~~Q~T~~qlrrki~~ 161 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGD-DYKAMARDRKLNYMQHTPGQLRRKIRK 161 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCc-cHHHHhccCCCCcccCCHHHHHHHHHH
Confidence 45667889999999999999995 7777765321 14566666655443
No 128
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=20.39 E-value=1.4e+02 Score=24.79 Aligned_cols=27 Identities=7% Similarity=-0.031 Sum_probs=22.3
Q ss_pred hCCcchhhcccCCCCCHHHHHHHHHHhh
Q 045387 85 LGNKWSAIASRLPGRTDNEIKNYWNTHI 112 (242)
Q Consensus 85 ~G~~W~~IA~~lpgRT~~q~k~rW~~~l 112 (242)
.|-...+||..| |-+...|+.|....+
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~RAr 175 (189)
T PRK12530 149 LELSSEQICQEC-DISTSNLHVLLYRAR 175 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 366799999999 999999999877544
No 129
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=20.24 E-value=1.4e+02 Score=24.71 Aligned_cols=29 Identities=10% Similarity=0.031 Sum_probs=22.9
Q ss_pred hCCcchhhcccCCCCCHHHHHHHHHHhhhh
Q 045387 85 LGNKWSAIASRLPGRTDNEIKNYWNTHIKK 114 (242)
Q Consensus 85 ~G~~W~~IA~~lpgRT~~q~k~rW~~~l~k 114 (242)
.|-...+||..| |-+...|+.|....+++
T Consensus 156 eg~s~~EIA~~l-gis~~tVk~rl~ra~~~ 184 (194)
T PRK12531 156 EELPHQQVAEMF-DIPLGTVKSRLRLAVEK 184 (194)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 356689999998 99999999888766544
Done!