Query 013300
Match_columns 446
No_of_seqs 197 out of 1362
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 02:27:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013300.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013300hhsearch_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 2E-129 5E-134 994.0 29.6 437 1-446 1-459 (459)
2 PLN03212 Transcription repress 100.0 1.7E-34 3.6E-39 279.3 13.4 130 3-132 14-143 (249)
3 KOG0048 Transcription factor, 100.0 8.2E-33 1.8E-37 266.7 12.4 119 9-127 4-122 (238)
4 KOG0049 Transcription factor, 99.8 1.8E-19 3.9E-24 191.7 7.1 108 1-109 347-455 (939)
5 KOG0049 Transcription factor, 99.7 3.8E-18 8.2E-23 181.8 5.6 130 4-133 243-427 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.6 8E-16 1.7E-20 118.2 4.0 60 17-78 1-60 (60)
7 KOG0050 mRNA splicing protein 99.6 1.2E-15 2.5E-20 159.9 4.8 148 12-161 5-153 (617)
8 COG5147 REB1 Myb superfamily p 99.5 9.5E-15 2.1E-19 154.9 6.0 109 8-117 14-122 (512)
9 KOG0051 RNA polymerase I termi 99.4 1.3E-13 2.8E-18 147.9 6.1 105 13-120 383-515 (607)
10 PF00249 Myb_DNA-binding: Myb- 99.3 2.2E-12 4.7E-17 95.8 5.4 46 67-112 1-48 (48)
11 PF00249 Myb_DNA-binding: Myb- 99.3 5.1E-13 1.1E-17 99.2 1.3 48 14-61 1-48 (48)
12 PF13921 Myb_DNA-bind_6: Myb-l 99.3 6E-13 1.3E-17 102.3 1.2 55 70-124 1-55 (60)
13 PLN03212 Transcription repress 99.3 1.6E-12 3.4E-17 127.0 3.7 81 47-134 12-94 (249)
14 PLN03091 hypothetical protein; 99.2 5.9E-12 1.3E-16 131.0 1.9 72 63-134 10-83 (459)
15 KOG0048 Transcription factor, 99.2 8E-12 1.7E-16 121.1 1.2 70 64-133 6-77 (238)
16 smart00717 SANT SANT SWI3, AD 99.1 8.5E-11 1.8E-15 84.0 5.8 47 67-113 1-48 (49)
17 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 7.3E-10 1.6E-14 78.1 6.0 43 69-111 1-44 (45)
18 smart00717 SANT SANT SWI3, AD 99.0 3.1E-10 6.6E-15 81.1 2.6 48 14-62 1-48 (49)
19 cd00167 SANT 'SWI3, ADA2, N-Co 98.8 2E-09 4.3E-14 75.9 2.3 44 16-60 1-44 (45)
20 KOG0051 RNA polymerase I termi 98.8 2.5E-09 5.4E-14 115.4 4.0 118 12-133 306-451 (607)
21 COG5147 REB1 Myb superfamily p 98.1 1.7E-06 3.7E-11 92.8 3.1 108 3-113 61-168 (512)
22 TIGR01557 myb_SHAQKYF myb-like 97.7 2.4E-05 5.2E-10 61.3 2.7 49 13-61 2-54 (57)
23 KOG0050 mRNA splicing protein 97.6 3.7E-05 8.1E-10 82.1 2.4 69 65-133 5-74 (617)
24 TIGR01557 myb_SHAQKYF myb-like 97.5 0.00026 5.7E-09 55.5 6.0 46 67-112 3-54 (57)
25 KOG0457 Histone acetyltransfer 97.4 7.3E-05 1.6E-09 78.6 2.1 50 12-62 70-119 (438)
26 KOG0457 Histone acetyltransfer 97.4 0.00027 5.8E-09 74.4 6.1 47 65-111 70-117 (438)
27 TIGR02894 DNA_bind_RsfA transc 97.0 0.00092 2E-08 62.4 5.0 53 66-119 3-62 (161)
28 PF13837 Myb_DNA-bind_4: Myb/S 96.9 0.0011 2.4E-08 54.0 3.8 50 67-116 1-68 (90)
29 PF13325 MCRS_N: N-terminal re 96.8 0.0038 8.2E-08 60.3 7.7 100 16-117 1-131 (199)
30 KOG1279 Chromatin remodeling f 96.8 0.0017 3.8E-08 70.1 5.4 45 66-110 252-296 (506)
31 COG5259 RSC8 RSC chromatin rem 96.6 0.0024 5.3E-08 68.0 4.6 45 67-111 279-323 (531)
32 COG5259 RSC8 RSC chromatin rem 96.4 0.0015 3.1E-08 69.7 1.6 45 13-59 278-322 (531)
33 PF08914 Myb_DNA-bind_2: Rap1 96.3 0.0056 1.2E-07 49.3 4.3 50 67-116 2-61 (65)
34 PRK13923 putative spore coat p 96.2 0.0068 1.5E-07 57.3 4.9 53 65-118 3-62 (170)
35 KOG1279 Chromatin remodeling f 96.2 0.0036 7.8E-08 67.7 3.2 46 12-59 251-296 (506)
36 TIGR02894 DNA_bind_RsfA transc 95.6 0.0039 8.5E-08 58.3 0.6 50 12-63 2-57 (161)
37 PF13837 Myb_DNA-bind_4: Myb/S 95.4 0.0048 1E-07 50.3 0.5 47 14-60 1-63 (90)
38 PF13873 Myb_DNA-bind_5: Myb/S 95.3 0.041 8.8E-07 44.3 5.6 49 67-115 2-72 (78)
39 COG5114 Histone acetyltransfer 95.2 0.021 4.5E-07 58.8 4.3 46 67-112 63-109 (432)
40 PF08914 Myb_DNA-bind_2: Rap1 95.2 0.0071 1.5E-07 48.7 0.7 51 14-64 2-60 (65)
41 COG5114 Histone acetyltransfer 95.0 0.0077 1.7E-07 61.9 0.6 48 14-62 63-110 (432)
42 PLN03142 Probable chromatin-re 94.8 0.074 1.6E-06 62.3 7.7 101 16-117 826-989 (1033)
43 PF13873 Myb_DNA-bind_5: Myb/S 93.7 0.019 4.2E-07 46.2 0.1 49 13-61 1-69 (78)
44 PRK13923 putative spore coat p 93.5 0.02 4.4E-07 54.1 -0.1 50 11-62 2-57 (170)
45 KOG4282 Transcription factor G 93.1 0.16 3.5E-06 51.9 5.7 52 67-118 54-119 (345)
46 PF12776 Myb_DNA-bind_3: Myb/S 91.1 0.43 9.3E-06 39.3 5.0 46 69-114 1-64 (96)
47 KOG2656 DNA methyltransferase 90.2 0.25 5.5E-06 52.2 3.4 56 67-122 130-191 (445)
48 COG5118 BDP1 Transcription ini 89.2 0.39 8.3E-06 50.8 3.8 47 68-114 366-412 (507)
49 PF09111 SLIDE: SLIDE; InterP 89.0 0.8 1.7E-05 41.0 5.2 53 64-116 46-114 (118)
50 PF08281 Sigma70_r4_2: Sigma-7 85.3 2.1 4.6E-05 31.8 4.9 42 72-114 12-53 (54)
51 KOG4167 Predicted DNA-binding 85.2 1.4 3.1E-05 49.9 5.5 44 14-59 619-662 (907)
52 KOG4167 Predicted DNA-binding 82.7 4.4 9.5E-05 46.2 8.0 55 56-110 605-662 (907)
53 smart00595 MADF subfamily of S 80.7 3 6.6E-05 33.9 4.6 26 89-115 30-55 (89)
54 PF11626 Rap1_C: TRF2-interact 78.4 1.2 2.6E-05 37.3 1.6 29 11-42 44-80 (87)
55 KOG4282 Transcription factor G 77.4 1.3 2.9E-05 45.2 1.8 47 14-60 54-112 (345)
56 KOG1194 Predicted DNA-binding 75.0 6.6 0.00014 42.7 6.2 49 66-114 186-234 (534)
57 PF09111 SLIDE: SLIDE; InterP 73.9 2.6 5.7E-05 37.7 2.5 34 11-44 46-82 (118)
58 KOG4468 Polycomb-group transcr 72.6 6.5 0.00014 44.0 5.6 54 66-119 87-150 (782)
59 PRK11179 DNA-binding transcrip 69.3 9.6 0.00021 34.6 5.2 44 72-116 8-52 (153)
60 PF04545 Sigma70_r4: Sigma-70, 67.2 17 0.00036 26.8 5.2 42 73-115 7-48 (50)
61 PF13404 HTH_AsnC-type: AsnC-t 64.8 17 0.00038 26.6 4.8 38 73-111 3-41 (42)
62 COG5118 BDP1 Transcription ini 64.0 5 0.00011 42.7 2.5 67 11-79 362-436 (507)
63 PRK11169 leucine-responsive tr 61.9 14 0.00029 34.1 4.7 44 72-116 13-57 (164)
64 TIGR02985 Sig70_bacteroi1 RNA 59.5 26 0.00056 30.3 5.9 39 76-115 119-157 (161)
65 PF07750 GcrA: GcrA cell cycle 56.0 13 0.00029 34.8 3.6 41 69-110 2-42 (162)
66 PF12776 Myb_DNA-bind_3: Myb/S 55.9 8.2 0.00018 31.7 2.0 43 16-58 1-59 (96)
67 PF11035 SnAPC_2_like: Small n 54.2 48 0.001 34.8 7.5 50 67-116 21-74 (344)
68 PF01388 ARID: ARID/BRIGHT DNA 51.2 40 0.00086 27.7 5.4 38 77-114 40-90 (92)
69 PF11035 SnAPC_2_like: Small n 50.3 58 0.0013 34.2 7.4 87 13-113 20-127 (344)
70 TIGR02937 sigma70-ECF RNA poly 48.8 45 0.00097 27.9 5.5 36 78-114 118-153 (158)
71 PF04504 DUF573: Protein of un 48.5 39 0.00084 29.1 5.0 48 68-115 5-65 (98)
72 PF13325 MCRS_N: N-terminal re 47.9 35 0.00076 33.4 5.2 44 69-113 1-47 (199)
73 PF10545 MADF_DNA_bdg: Alcohol 47.4 26 0.00056 27.5 3.6 28 89-116 29-57 (85)
74 KOG2656 DNA methyltransferase 47.2 7.8 0.00017 41.4 0.7 49 12-61 128-181 (445)
75 smart00501 BRIGHT BRIGHT, ARID 46.6 46 0.00099 27.7 5.1 39 77-115 36-87 (93)
76 KOG4329 DNA-binding protein [G 46.0 56 0.0012 35.0 6.6 43 68-110 278-321 (445)
77 PF13404 HTH_AsnC-type: AsnC-t 45.9 8.9 0.00019 28.2 0.6 37 20-58 3-39 (42)
78 PRK09652 RNA polymerase sigma 44.8 56 0.0012 28.9 5.7 37 78-115 136-172 (182)
79 KOG2009 Transcription initiati 44.7 21 0.00046 39.9 3.6 45 66-110 408-452 (584)
80 KOG0384 Chromodomain-helicase 44.7 25 0.00054 42.6 4.2 75 14-95 1133-1208(1373)
81 PF11626 Rap1_C: TRF2-interact 43.7 13 0.00027 31.2 1.3 17 63-79 43-59 (87)
82 smart00344 HTH_ASNC helix_turn 43.5 43 0.00092 28.0 4.5 44 72-116 2-46 (108)
83 PF09905 DUF2132: Uncharacteri 43.0 11 0.00023 30.8 0.7 44 22-78 12-62 (64)
84 PRK11924 RNA polymerase sigma 41.1 65 0.0014 28.4 5.5 30 84-114 139-168 (179)
85 PRK11179 DNA-binding transcrip 40.8 13 0.00029 33.6 1.1 45 19-65 8-52 (153)
86 PF07638 Sigma70_ECF: ECF sigm 40.5 68 0.0015 29.8 5.8 39 74-113 139-177 (185)
87 PRK09645 RNA polymerase sigma 40.1 82 0.0018 28.2 6.1 30 84-114 132-161 (173)
88 PRK12523 RNA polymerase sigma 39.3 90 0.0019 28.1 6.2 41 78-119 127-167 (172)
89 PF01388 ARID: ARID/BRIGHT DNA 38.1 8.6 0.00019 31.7 -0.5 39 24-62 40-89 (92)
90 PRK09643 RNA polymerase sigma 37.6 80 0.0017 29.2 5.7 36 79-115 143-178 (192)
91 PRK12512 RNA polymerase sigma 36.4 1E+02 0.0023 27.9 6.2 33 84-117 145-177 (184)
92 cd06171 Sigma70_r4 Sigma70, re 36.2 1E+02 0.0023 21.1 5.0 37 74-111 14-50 (55)
93 PRK11169 leucine-responsive tr 35.9 14 0.00031 33.9 0.5 45 19-65 13-57 (164)
94 PRK12532 RNA polymerase sigma 34.0 1.2E+02 0.0026 27.9 6.2 30 83-113 149-178 (195)
95 PRK09641 RNA polymerase sigma 32.6 1.1E+02 0.0023 27.6 5.6 30 85-115 151-180 (187)
96 PRK09648 RNA polymerase sigma 32.5 1.2E+02 0.0025 27.7 5.9 33 83-116 152-184 (189)
97 PRK04217 hypothetical protein; 31.8 1.3E+02 0.0028 26.7 5.8 46 68-115 41-86 (110)
98 TIGR02954 Sig70_famx3 RNA poly 31.6 1.1E+02 0.0025 27.2 5.6 31 85-116 134-164 (169)
99 PRK12529 RNA polymerase sigma 31.5 1.5E+02 0.0032 27.1 6.4 36 82-118 139-174 (178)
100 cd08319 Death_RAIDD Death doma 31.2 73 0.0016 26.8 3.9 22 75-96 2-23 (83)
101 smart00501 BRIGHT BRIGHT, ARID 30.3 18 0.00039 30.2 0.2 41 23-63 35-86 (93)
102 cd08803 Death_ank3 Death domai 30.2 83 0.0018 26.5 4.1 26 75-101 4-29 (84)
103 KOG4468 Polycomb-group transcr 30.2 51 0.0011 37.4 3.5 47 14-62 88-144 (782)
104 TIGR02939 RpoE_Sigma70 RNA pol 30.1 1E+02 0.0022 27.9 5.0 30 85-115 153-182 (190)
105 PRK09637 RNA polymerase sigma 29.9 1.3E+02 0.0027 27.8 5.7 31 83-114 119-149 (181)
106 PRK09047 RNA polymerase factor 29.8 1.6E+02 0.0034 25.8 6.1 31 84-115 120-150 (161)
107 PRK12515 RNA polymerase sigma 29.7 1.4E+02 0.003 27.3 5.9 30 84-114 145-174 (189)
108 PRK11923 algU RNA polymerase s 29.0 1.3E+02 0.0028 27.5 5.6 29 86-115 154-182 (193)
109 TIGR02943 Sig70_famx1 RNA poly 28.3 1.5E+02 0.0033 27.3 6.0 36 79-115 140-175 (188)
110 TIGR02948 SigW_bacill RNA poly 28.3 1.3E+02 0.0028 27.1 5.4 29 86-115 152-180 (187)
111 COG1522 Lrp Transcriptional re 27.4 94 0.002 27.4 4.2 43 72-115 7-50 (154)
112 PRK09642 RNA polymerase sigma 27.4 1.8E+02 0.0038 25.7 6.0 30 84-114 120-149 (160)
113 COG2197 CitB Response regulato 27.1 87 0.0019 30.0 4.2 44 69-115 148-191 (211)
114 PRK12531 RNA polymerase sigma 27.0 1.6E+02 0.0036 27.1 5.9 30 85-115 156-185 (194)
115 PF04504 DUF573: Protein of un 26.9 75 0.0016 27.4 3.4 19 14-32 4-22 (98)
116 cd08317 Death_ank Death domain 26.7 77 0.0017 26.1 3.3 22 75-96 4-25 (84)
117 PRK12530 RNA polymerase sigma 26.5 1.6E+02 0.0035 27.1 5.8 30 84-114 148-177 (189)
118 KOG3841 TEF-1 and related tran 26.3 1.7E+02 0.0037 31.7 6.4 74 8-118 70-148 (455)
119 PF09420 Nop16: Ribosome bioge 26.1 1.3E+02 0.0029 27.9 5.1 46 66-111 113-162 (164)
120 KOG2009 Transcription initiati 25.7 52 0.0011 37.0 2.7 50 8-59 403-452 (584)
121 PRK12524 RNA polymerase sigma 24.5 1.8E+02 0.004 26.8 5.8 32 83-115 149-180 (196)
122 PRK06759 RNA polymerase factor 23.9 2E+02 0.0044 25.0 5.7 29 85-114 121-149 (154)
123 PRK12547 RNA polymerase sigma 23.6 2.2E+02 0.0048 25.4 6.0 32 84-116 126-157 (164)
124 TIGR02952 Sig70_famx2 RNA poly 23.4 2.1E+02 0.0046 25.2 5.7 29 85-114 137-165 (170)
125 PRK12527 RNA polymerase sigma 22.6 2E+02 0.0044 25.3 5.5 31 84-115 119-149 (159)
126 cd08318 Death_NMPP84 Death dom 22.4 1.2E+02 0.0027 25.2 3.8 26 78-104 10-35 (86)
127 PRK09649 RNA polymerase sigma 22.4 2.3E+02 0.005 26.0 5.9 32 85-117 145-176 (185)
128 TIGR02999 Sig-70_X6 RNA polyme 22.4 2.3E+02 0.0051 25.4 5.9 30 85-115 149-178 (183)
129 PRK12536 RNA polymerase sigma 22.4 2.3E+02 0.0049 25.8 5.9 33 83-116 142-174 (181)
130 PF02954 HTH_8: Bacterial regu 22.3 1.9E+02 0.004 20.8 4.2 34 73-107 5-38 (42)
131 PRK05602 RNA polymerase sigma 22.1 2.1E+02 0.0046 26.0 5.6 30 84-114 142-171 (186)
132 PF00196 GerE: Bacterial regul 22.0 1E+02 0.0022 23.3 2.9 43 70-115 4-46 (58)
133 PRK12516 RNA polymerase sigma 21.6 2.3E+02 0.005 26.2 5.8 37 78-115 124-160 (187)
134 cd08804 Death_ank2 Death domai 21.3 1.3E+02 0.0028 25.1 3.7 29 75-104 4-32 (84)
135 smart00005 DEATH DEATH domain, 21.1 1.1E+02 0.0025 24.5 3.3 25 74-98 4-29 (88)
136 COG4628 Uncharacterized conser 21.0 73 0.0016 29.1 2.2 43 22-77 21-70 (136)
137 TIGR02984 Sig-70_plancto1 RNA 20.9 2.4E+02 0.0052 25.3 5.7 31 84-115 154-184 (189)
138 TIGR02950 SigM_subfam RNA poly 20.9 90 0.0019 27.2 2.8 29 86-115 121-149 (154)
139 PRK12528 RNA polymerase sigma 20.8 2.3E+02 0.0049 25.1 5.4 31 83-114 126-156 (161)
140 PRK12542 RNA polymerase sigma 20.7 2.5E+02 0.0053 25.6 5.8 31 84-115 136-166 (185)
141 TIGR02983 SigE-fam_strep RNA p 20.4 2.6E+02 0.0057 24.6 5.7 41 75-116 115-155 (162)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=2.3e-129 Score=994.03 Aligned_cols=437 Identities=70% Similarity=1.126 Sum_probs=403.0
Q ss_pred CCCCcccccCCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccCCCCccCccCHHHHHHHHH
Q 013300 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (446)
Q Consensus 1 mgR~~~~~k~klkKG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~P~lkrg~WT~EED~kLle 80 (446)
|||+.||+|++++||+||+|||++|+++|++||.++|..||+.++.+|+++|||+||.+||+|.+++++||+|||++|++
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 99999999999999999999999999999999999999999998778999999999999999999999999999999999
Q ss_pred HHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHHHHhcCCCCCCCCCCcccccCCCCCCCCC--CCCCCCCccCccccc
Q 013300 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPVTHKPLSEVENGEDKNQTTN--SQDKVSGVSGELNLL 158 (446)
Q Consensus 81 lv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkklr~~g~~p~~~k~l~ele~k~~k~~~~~--~~~~s~~~~~el~ll 158 (446)
++++||++|++||++|+|||+++||+||+.++|++++++++++.+++++.+.++.+++..... ....+..+..|++++
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~kpl~e~E~~~d~~p~~~~~~~~~s~~~~~el~~~ 160 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPLSEVENGEDKNPPTDDKSDKASSVVSNELNLL 160 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCCCCccccccccccCCccccccccchhhhhhhhhhh
Confidence 999999999999999999999999999999999999999999999999999998887765332 223345788999999
Q ss_pred chhhhcccCcccccccCCCCccccccccccccccCCCC-------------C-CCCCCCCCccccccccccCCCCCccCC
Q 013300 159 NTELTAKHGTTAALNEQKPTSVTAQAYHLSEIQGSSIP-------------S-TVNNNRSNFYTHRFASSNQESSSITNS 224 (446)
Q Consensus 159 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~-~~~~~~~~~~~~~f~~~~~~~~~~~~~ 224 (446)
..+.+ +|.++. -..++++|++.+|. ++++.++++ + +...+++|||||||+.++|+ + +++|
T Consensus 161 ~~~~~-~~~~~~--~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fld~~~~~~~~-~-~~~c 234 (459)
T PLN03091 161 KADNS-KPLAAL--QEKRSSSISPAGYQ-LEVESSSSSKINNSNNNNHSNSNLMTPTPNKDFFLDRFTTSHES-S-TTSC 234 (459)
T ss_pred hhhcc-Cccccc--hhcccccccccccc-cccccccccccccccccCCccccccCCCCcchhhhhhhcccccc-C-ccCC
Confidence 99999 774432 24577888998887 666665444 3 66789999999999986664 3 8999
Q ss_pred CCCCCcCCCCCcccccCCCCccCCCCCCCCceecccCCCccccccCCCCCCCccC-CCCCCCcccCCCCCCcccCCCCCC
Q 013300 225 QPSDFVGHFPLQQLNCASNARLSTAASNSPLWFMQTSKSFDINSQFSSNAMPTIL-PPVSSSSLFSAPMSYKTSVTLPSD 303 (446)
Q Consensus 225 ~ps~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~f~~~~~~~il-p~vs~s~l~~~~~~~k~~~~~p~d 303 (446)
+|||+++|||||+|||.++++++.+++ ++|||+|++++||||+||+++||++|| |+|++|+| +|+|||||+|+||+|
T Consensus 235 ~ps~~~~~f~~qql~y~~~~~~s~~~~-~~~~~~~~~~~~~~~~e~~~s~~~~~~~p~~~~s~~-~~~~~~k~~~~~p~~ 312 (459)
T PLN03091 235 RPSDLVGHFPFQQLNYASNARLSTNPN-PTLWFSQNSKSFEMNSEFSSSMTPSILPPSVTSSFL-PTPMSYKPSISLPSD 312 (459)
T ss_pred CCCccccccchhhcccccccccCcCCC-cceeeccCCCcccccccccccccccccCCCcccccc-cCccccccccCCCCC
Confidence 999999999999999999999999998 999999999999999999999999988 88999998 999999999999999
Q ss_pred CCCCCccccCCccccccCCCCCCC---CCCCCccccccccccccCCCCCCccccCCCcccccccccCCCCCCCCCCcccc
Q 013300 304 NHSIPSFTVNGSRYWEAGGASNSN---SVSSSSTELQSTSSFLESSIFPWGLADCSSSEKEGQINLIDSHPDDVKWPEYF 380 (446)
Q Consensus 304 n~~~~~~~~~~~~~we~~~~~n~~---~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~e~~kw~e~~ 380 (446)
|+++++|+|+|++|||+++++|++ ++|++|+|||++|+||||++|+||||||++++||+|+|+++.++|||||+|||
T Consensus 313 n~s~~s~~~~~~~~we~~~~sn~~~~~~~~~~s~e~qs~ss~f~n~~fsw~~~d~~~s~k~~q~h~~~~~~eeiKW~eyl 392 (459)
T PLN03091 313 NPSIPSFTVNGVRNWEAGAFSNNSNSSNGSSSSIELQSNSSFFENSIFSWGLADCGKSDKEAQIHLLESDPEDIKWPEYL 392 (459)
T ss_pred CCCCCCcccCCccccccCCCCCCCCCCCCCCccccccccchhhccCcccccccccccchhhhhhhccccchhhcchHHHh
Confidence 999999999999999999999883 67778899999999999999999999999888999999999999999999999
Q ss_pred cChhHHHHHHhhcccchhhhhhhccccccccCCCccccc--ccccCcccCcchhhhhhhHHHhhcCCC
Q 013300 381 QTPSLLMAAALQNQTSQSLYNEIKSETHILTDSSSGIWP--QNQQQPLQNSDICAKEIQRLTATYGHI 446 (446)
Q Consensus 381 ~~~~~~~~~~~q~~~~~~~~~~~k~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~kd~qr~~~~~g~~ 446 (446)
|+|| |||+|+|||++|+||+|||+||||++||++++|+ ||||+++|++|||+||||||+|+||||
T Consensus 393 ~~~~-~~~~~~q~q~~q~ly~~ik~et~~~~~~~~~~w~~~q~~q~~~~~~d~~~kdlqr~~~~fg~~ 459 (459)
T PLN03091 393 QNPF-LMAATLQNQTPQPLYNEIKPETHFITEGSSTMWPHNQQQQEPLQNPDIYTKDLQRLTAAFGQI 459 (459)
T ss_pred cchh-hhhhhhhhcCchhhhhhccchhhccccccccccccccccccccccccccchHHHHHHHhhccC
Confidence 9999 9999999999999999999999999999999996 556777899999999999999999997
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=1.7e-34 Score=279.29 Aligned_cols=130 Identities=60% Similarity=1.134 Sum_probs=124.3
Q ss_pred CCcccccCCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccCCCCccCccCHHHHHHHHHHH
Q 013300 3 RHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELH 82 (446)
Q Consensus 3 R~~~~~k~klkKG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~P~lkrg~WT~EED~kLlelv 82 (446)
|..||.|++++|++||+|||++|+++|++||..+|..||+.++.+|+++|||+||.++|+|.+++++||+|||++|++++
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 56899999999999999999999999999999999999999866899999999999999999999999999999999999
Q ss_pred HHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHHHHhcCCCCCCCCCCccc
Q 013300 83 AVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPVTHKPLSEV 132 (446)
Q Consensus 83 ~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkklr~~g~~p~~~k~l~el 132 (446)
.+||++|+.||+.|+|||+++|||||+.++++++.+.++.+.+++++...
T Consensus 94 ~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~~~kp~~~~ 143 (249)
T PLN03212 94 RLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTHKPLDAN 143 (249)
T ss_pred HhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCCCCCCCCcc
Confidence 99999999999999999999999999999999999999999988876533
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=8.2e-33 Score=266.69 Aligned_cols=119 Identities=64% Similarity=1.121 Sum_probs=111.4
Q ss_pred cCCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccCCCCccCccCHHHHHHHHHHHHHhCCC
Q 013300 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88 (446)
Q Consensus 9 k~klkKG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~P~lkrg~WT~EED~kLlelv~~yGnk 88 (446)
|+.+.||+||+|||++|+++|++||.++|..||+.++.+|++++||.||.|||+|++++|.||+|||++|+++|+.||++
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 34466899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHhhhCCCCCHHHHHHHHHHHhHHHHHhcCCCCCCCC
Q 013300 89 WSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPVTHK 127 (446)
Q Consensus 89 WskIAk~LpgRT~~qcKnRW~~iLkkklr~~g~~p~~~k 127 (446)
|+.||++|||||++.|||+|+..+|++++..+.++....
T Consensus 84 Ws~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~~~~~~~~ 122 (238)
T KOG0048|consen 84 WSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMGIDPSTHR 122 (238)
T ss_pred HHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcCCCCCccc
Confidence 999999999999999999999999999998875554433
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.78 E-value=1.8e-19 Score=191.70 Aligned_cols=108 Identities=24% Similarity=0.489 Sum_probs=102.4
Q ss_pred CCCCcccccCCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccCCCCccCccCHHHHHHHHH
Q 013300 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (446)
Q Consensus 1 mgR~~~~~k~klkKG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~P~lkrg~WT~EED~kLle 80 (446)
||||.+.+.|.+++|+||++||-+|+.+|.+||..+|.+|-..++ +|+..|||+||.+.|....|.+.|+-.||+.|++
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 689999999999999999999999999999999999999999999 9999999999999999999999999999999999
Q ss_pred HHHHhC-CChHHHhhhCCCCCHHHHHHHHH
Q 013300 81 LHAVLG-NRWSQIAAQLPGRTDNEIKNLWN 109 (446)
Q Consensus 81 lv~~yG-nkWskIAk~LpgRT~~qcKnRW~ 109 (446)
+|.+|| ++|.+||.+||.||..|.+.|=.
T Consensus 426 ~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~ 455 (939)
T KOG0049|consen 426 AVKVYGKGNWAKCAMLLPKKTSRQLRRRRL 455 (939)
T ss_pred HHHHHccchHHHHHHHccccchhHHHHHHH
Confidence 999999 89999999999999966544433
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.72 E-value=3.8e-18 Score=181.75 Aligned_cols=130 Identities=22% Similarity=0.385 Sum_probs=115.3
Q ss_pred CcccccCCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccc-----------------------------
Q 013300 4 HSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCR----------------------------- 54 (446)
Q Consensus 4 ~~~~~k~klkKG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR----------------------------- 54 (446)
|.+++.|+++|..|+.|||++|+.+...+|.-+|..||..++..|+..||.
T Consensus 243 W~n~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~ 322 (939)
T KOG0049|consen 243 WYNELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKI 322 (939)
T ss_pred HhhhcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHH
Confidence 677889999999999999999999999888888888888887557777775
Q ss_pred -------------------------hhhhcccCCCCccCccCHHHHHHHHHHHHHhCC-ChHHHhhhCCCCCHHHHHHHH
Q 013300 55 -------------------------LRWINYLRPDLKRGTFSQQEENLIIELHAVLGN-RWSQIAAQLPGRTDNEIKNLW 108 (446)
Q Consensus 55 -------------------------~RW~n~L~P~lkrg~WT~EED~kLlelv~~yGn-kWskIAk~LpgRT~~qcKnRW 108 (446)
.||.+.|+|.+++|+||.+||.+|+.+|.+||. .|.+|-..+|||++.|||.||
T Consensus 323 ~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY 402 (939)
T KOG0049|consen 323 TSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERY 402 (939)
T ss_pred hhccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHH
Confidence 577788899999999999999999999999995 599999999999999999999
Q ss_pred HHHhHHHHHhcCCCCCCCCCCcccc
Q 013300 109 NSCLKKKLRQRGIDPVTHKPLSEVE 133 (446)
Q Consensus 109 ~~iLkkklr~~g~~p~~~k~l~ele 133 (446)
.+.|....+...|.-.++..|.+..
T Consensus 403 ~nvL~~s~K~~rW~l~edeqL~~~V 427 (939)
T KOG0049|consen 403 TNVLNRSAKVERWTLVEDEQLLYAV 427 (939)
T ss_pred HHHHHHhhccCceeecchHHHHHHH
Confidence 9999999999999888876665444
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=99.59 E-value=8e-16 Score=118.24 Aligned_cols=60 Identities=42% Similarity=0.908 Sum_probs=55.3
Q ss_pred CCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccCCCCccCccCHHHHHHH
Q 013300 17 WSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLI 78 (446)
Q Consensus 17 WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~P~lkrg~WT~EED~kL 78 (446)
||+|||++|+++|.+|| .+|..||+.|+ .|++.+|+.||.++|.+.+++++||.+||.+|
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 67999999998 89999999999999999999999999999987
No 7
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.57 E-value=1.2e-15 Score=159.90 Aligned_cols=148 Identities=24% Similarity=0.480 Sum_probs=123.1
Q ss_pred CCccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccCCCCccCccCHHHHHHHHHHHHHhCCChHH
Q 013300 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQ 91 (446)
Q Consensus 12 lkKG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~P~lkrg~WT~EED~kLlelv~~yGnkWsk 91 (446)
++.|.|+-.||+.|..+|.+||.+.|.+|++.+. ..+++||+.||..+|+|.+++..|+.|||++||.+.+.+...|..
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 4678999999999999999999999999999998 899999999999999999999999999999999999999999999
Q ss_pred HhhhCCCCCHHHHHHHHHHHhHHHHHhcC-CCCCCCCCCcccccCCCCCCCCCCCCCCCCccCcccccchh
Q 013300 92 IAAQLPGRTDNEIKNLWNSCLKKKLRQRG-IDPVTHKPLSEVENGEDKNQTTNSQDKVSGVSGELNLLNTE 161 (446)
Q Consensus 92 IAk~LpgRT~~qcKnRW~~iLkkklr~~g-~~p~~~k~l~ele~k~~k~~~~~~~~~s~~~~~el~ll~~~ 161 (446)
||..| ||+.+||-.||..++........ -++..+..|...+............+.......|+.++..+
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s~~~~~~~~~D~rLk~gE~ePn~e~~~aRpd~~dmdEde~eMl~ea 153 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVSYHYHSEPYIDAKLKEGEIEPNQETNPARPDGFDMDEDEGEMLSEA 153 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHhhhcccccccccccCCCcCCCccccccccCCcccchHHHHHHHHHH
Confidence 99999 99999999999999987765443 34555555666665555555555555555555555554443
No 8
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.52 E-value=9.5e-15 Score=154.85 Aligned_cols=109 Identities=31% Similarity=0.515 Sum_probs=104.0
Q ss_pred ccCCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccCCCCccCccCHHHHHHHHHHHHHhCC
Q 013300 8 YKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGN 87 (446)
Q Consensus 8 ~k~klkKG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~P~lkrg~WT~EED~kLlelv~~yGn 87 (446)
+..+++.|.|+..||+.|+.+|+++|.++|..||..+. .|+++||+.||.++++|.++++.|+.|||+.|+.+..++|.
T Consensus 14 ~~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~ 92 (512)
T COG5147 14 MQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGT 92 (512)
T ss_pred ccceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCc
Confidence 45678899999999999999999999999999999999 69999999999999999999999999999999999999999
Q ss_pred ChHHHhhhCCCCCHHHHHHHHHHHhHHHHH
Q 013300 88 RWSQIAAQLPGRTDNEIKNLWNSCLKKKLR 117 (446)
Q Consensus 88 kWskIAk~LpgRT~~qcKnRW~~iLkkklr 117 (446)
+|+.||..+++|+..+|.+||...+.....
T Consensus 93 ~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 93 QWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 999999999999999999999988877665
No 9
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.42 E-value=1.3e-13 Score=147.88 Aligned_cols=105 Identities=26% Similarity=0.556 Sum_probs=94.6
Q ss_pred CccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccCCCC--ccCccCHHHHHHHHHHHH-------
Q 013300 13 RKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDL--KRGTFSQQEENLIIELHA------- 83 (446)
Q Consensus 13 kKG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~P~l--krg~WT~EED~kLlelv~------- 83 (446)
.+|+||+||++.|..+|.++| ++|.+|++.|+ |.+..||+||.+|..+.- +++.||.||+++|+.+|.
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 799999999999999999999 77999999997 999999999999999884 899999999999999995
Q ss_pred Hh-------C------------CChHHHhhhCCCCCHHHHHHHHHHHhHHHHHhcC
Q 013300 84 VL-------G------------NRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRG 120 (446)
Q Consensus 84 ~y-------G------------nkWskIAk~LpgRT~~qcKnRW~~iLkkklr~~g 120 (446)
++ | =+|+.|++.+..|+..|||.+|+.++........
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~ 515 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKR 515 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhcc
Confidence 33 1 1499999999999999999999999987765544
No 10
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.32 E-value=2.2e-12 Score=95.84 Aligned_cols=46 Identities=28% Similarity=0.683 Sum_probs=41.7
Q ss_pred cCccCHHHHHHHHHHHHHhCCC-hHHHhhhCC-CCCHHHHHHHHHHHh
Q 013300 67 RGTFSQQEENLIIELHAVLGNR-WSQIAAQLP-GRTDNEIKNLWNSCL 112 (446)
Q Consensus 67 rg~WT~EED~kLlelv~~yGnk-WskIAk~Lp-gRT~~qcKnRW~~iL 112 (446)
|++||+|||++|+++|.+||.+ |..||..|+ +||..||++||+.++
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 5899999999999999999988 999999999 999999999998764
No 11
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.31 E-value=5.1e-13 Score=99.22 Aligned_cols=48 Identities=44% Similarity=0.832 Sum_probs=43.4
Q ss_pred ccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhccc
Q 013300 14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYL 61 (446)
Q Consensus 14 KG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L 61 (446)
|++||+|||++|+++|.+||.++|..||..|+.+|++.||+.||.++|
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 689999999999999999997779999999998999999999999875
No 12
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.30 E-value=6e-13 Score=102.29 Aligned_cols=55 Identities=29% Similarity=0.593 Sum_probs=46.0
Q ss_pred cCHHHHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHHHHhcCCCCC
Q 013300 70 FSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPV 124 (446)
Q Consensus 70 WT~EED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkklr~~g~~p~ 124 (446)
||+|||++|+++|.+||++|.+||+.|+.||..+|++||+..|++.+....|++.
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~e 55 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKE 55 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHH
Confidence 9999999999999999999999999997799999999999977766666666543
No 13
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.29 E-value=1.6e-12 Score=127.04 Aligned_cols=81 Identities=16% Similarity=0.414 Sum_probs=71.1
Q ss_pred ccCccccchhhhcccCCCCccCccCHHHHHHHHHHHHHhC-CChHHHhhhC-CCCCHHHHHHHHHHHhHHHHHhcCCCCC
Q 013300 47 QRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLG-NRWSQIAAQL-PGRTDNEIKNLWNSCLKKKLRQRGIDPV 124 (446)
Q Consensus 47 gRt~kQCR~RW~n~L~P~lkrg~WT~EED~kLlelv~~yG-nkWskIAk~L-pgRT~~qcKnRW~~iLkkklr~~g~~p~ 124 (446)
+|++.-|-. +.+++++||+|||++|+++|++|| .+|..||+.+ ++|+..|||.||.+.|++.+++..|+.+
T Consensus 12 ~~~~pcc~K-------~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~E 84 (249)
T PLN03212 12 KKTTPCCTK-------MGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSD 84 (249)
T ss_pred CCCCCCccc-------CCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChH
Confidence 566554533 478999999999999999999999 6899999998 5999999999999999999999999999
Q ss_pred CCCCCccccc
Q 013300 125 THKPLSEVEN 134 (446)
Q Consensus 125 ~~k~l~ele~ 134 (446)
++..|.++..
T Consensus 85 ED~lLlel~~ 94 (249)
T PLN03212 85 EEDLILRLHR 94 (249)
T ss_pred HHHHHHHHHH
Confidence 9887776653
No 14
>PLN03091 hypothetical protein; Provisional
Probab=99.18 E-value=5.9e-12 Score=131.04 Aligned_cols=72 Identities=18% Similarity=0.385 Sum_probs=66.0
Q ss_pred CCCccCccCHHHHHHHHHHHHHhC-CChHHHhhhCC-CCCHHHHHHHHHHHhHHHHHhcCCCCCCCCCCccccc
Q 013300 63 PDLKRGTFSQQEENLIIELHAVLG-NRWSQIAAQLP-GRTDNEIKNLWNSCLKKKLRQRGIDPVTHKPLSEVEN 134 (446)
Q Consensus 63 P~lkrg~WT~EED~kLlelv~~yG-nkWskIAk~Lp-gRT~~qcKnRW~~iLkkklr~~g~~p~~~k~l~ele~ 134 (446)
..+++++||+|||++|+++|++|| .+|..||+.++ +|+++|||.||.+.|++.+++..|+++++..|.++..
T Consensus 10 qklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k 83 (459)
T PLN03091 10 QKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHA 83 (459)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHH
Confidence 578999999999999999999999 57999999984 9999999999999999999999999999987776554
No 15
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.15 E-value=8e-12 Score=121.14 Aligned_cols=70 Identities=14% Similarity=0.288 Sum_probs=64.5
Q ss_pred CCccCccCHHHHHHHHHHHHHhC-CChHHHhhhCC-CCCHHHHHHHHHHHhHHHHHhcCCCCCCCCCCcccc
Q 013300 64 DLKRGTFSQQEENLIIELHAVLG-NRWSQIAAQLP-GRTDNEIKNLWNSCLKKKLRQRGIDPVTHKPLSEVE 133 (446)
Q Consensus 64 ~lkrg~WT~EED~kLlelv~~yG-nkWskIAk~Lp-gRT~~qcKnRW~~iLkkklr~~g~~p~~~k~l~ele 133 (446)
.+.+|+||.|||++|+++|++|| ++|..|++.++ +|+.++||-||.+.|++.++++.|+++++..+.++-
T Consensus 6 ~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH 77 (238)
T KOG0048|consen 6 ELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLH 77 (238)
T ss_pred cccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHH
Confidence 44579999999999999999999 67999999999 999999999999999999999999999988776654
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.14 E-value=8.5e-11 Score=83.96 Aligned_cols=47 Identities=43% Similarity=0.894 Sum_probs=44.2
Q ss_pred cCccCHHHHHHHHHHHHHhC-CChHHHhhhCCCCCHHHHHHHHHHHhH
Q 013300 67 RGTFSQQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSCLK 113 (446)
Q Consensus 67 rg~WT~EED~kLlelv~~yG-nkWskIAk~LpgRT~~qcKnRW~~iLk 113 (446)
+++||++||.+|+.++.+|| .+|..||..|++||..+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999997664
No 17
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.01 E-value=7.3e-10 Score=78.14 Aligned_cols=43 Identities=33% Similarity=0.771 Sum_probs=41.3
Q ss_pred ccCHHHHHHHHHHHHHhC-CChHHHhhhCCCCCHHHHHHHHHHH
Q 013300 69 TFSQQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSC 111 (446)
Q Consensus 69 ~WT~EED~kLlelv~~yG-nkWskIAk~LpgRT~~qcKnRW~~i 111 (446)
+||+|||.+|+.++.+|| .+|..||+.|++|+..+|++||..+
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=98.97 E-value=3.1e-10 Score=81.07 Aligned_cols=48 Identities=42% Similarity=0.875 Sum_probs=44.6
Q ss_pred ccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccC
Q 013300 14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLR 62 (446)
Q Consensus 14 KG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~ 62 (446)
++.||++||++|+.++.+||..+|..||..++ +|++.+|+.||.+.+.
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 47899999999999999999778999999999 9999999999998764
No 19
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.81 E-value=2e-09 Score=75.88 Aligned_cols=44 Identities=43% Similarity=0.853 Sum_probs=41.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcc
Q 013300 16 LWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINY 60 (446)
Q Consensus 16 ~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~ 60 (446)
+||++||++|+.++.+||..+|..||..++ +|++.+|+.||.++
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 599999999999999999778999999999 89999999999765
No 20
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.81 E-value=2.5e-09 Score=115.43 Aligned_cols=118 Identities=24% Similarity=0.337 Sum_probs=94.0
Q ss_pred CCccCCCHHHHHHHHHHHHHh----CC-------------------CCccccccccCcccCccccch---hhhcccCCCC
Q 013300 12 LRKGLWSPEEDEKLLRHITKY----GH-------------------GCWSSVPKQAGLQRCGKSCRL---RWINYLRPDL 65 (446)
Q Consensus 12 lkKG~WT~EEDe~LlelV~ky----G~-------------------~nW~kIAk~m~~gRt~kQCR~---RW~n~L~P~l 65 (446)
++-+.|+.+||+.|-..|..| |- +.|..|-..++ .|+...+.. |=.+.+.+
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 344899999999999999877 11 12677778888 588888876 33333443
Q ss_pred ccCccCHHHHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHH--HHhcCCCCCCCCCCcccc
Q 013300 66 KRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK--LRQRGIDPVTHKPLSEVE 133 (446)
Q Consensus 66 krg~WT~EED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk--lr~~g~~p~~~k~l~ele 133 (446)
++|.||+||++.|..+|.++|+.|..|++.| ||.+..||+||+++++.. .....|+..+...|..+.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V 451 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTV 451 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHH
Confidence 8999999999999999999999999999999 999999999999988776 355567666666665554
No 21
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.09 E-value=1.7e-06 Score=92.76 Aligned_cols=108 Identities=19% Similarity=0.220 Sum_probs=95.2
Q ss_pred CCcccccCCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccCCCCccCccCHHHHHHHHHHH
Q 013300 3 RHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELH 82 (446)
Q Consensus 3 R~~~~~k~klkKG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~P~lkrg~WT~EED~kLlelv 82 (446)
||...+.+.++++.|+.|||+.|+.+-..+|.. |..||..++ +|+..+|.+||.+.+.+... ..|+..++...+..+
T Consensus 61 rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~-wstia~~~d-~rt~~~~~ery~~~~~~~~s-~~~s~~~~~~~f~k~ 137 (512)
T COG5147 61 RWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ-WSTIADYKD-RRTAQQCVERYVNTLEDLSS-THDSKLQRRNEFDKI 137 (512)
T ss_pred hhhhhhchhcccccccHHHHHHHHHHHHhcCch-hhhhccccC-ccchHHHHHHHHHHhhhhhc-cccccccchhhcccc
Confidence 777889999999999999999999999999965 999999999 99999999999999987655 889999999888889
Q ss_pred HHhCCChHHHhhhCCCCCHHHHHHHHHHHhH
Q 013300 83 AVLGNRWSQIAAQLPGRTDNEIKNLWNSCLK 113 (446)
Q Consensus 83 ~~yGnkWskIAk~LpgRT~~qcKnRW~~iLk 113 (446)
..|+..|.++......+-..-|.+++..+..
T Consensus 138 d~f~~~~~~~~~~~~~~~~~~~~N~~~~~~~ 168 (512)
T COG5147 138 DPFNENSARRPDIYEDELLEREVNREASYRL 168 (512)
T ss_pred CchhhhhhhhhhhhhcccchhhhhHHHHHHH
Confidence 9999889888887777777778887765443
No 22
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.70 E-value=2.4e-05 Score=61.28 Aligned_cols=49 Identities=12% Similarity=0.326 Sum_probs=43.6
Q ss_pred CccCCCHHHHHHHHHHHHHhCCCCc---cccccccCccc-Cccccchhhhccc
Q 013300 13 RKGLWSPEEDEKLLRHITKYGHGCW---SSVPKQAGLQR-CGKSCRLRWINYL 61 (446)
Q Consensus 13 kKG~WT~EEDe~LlelV~kyG~~nW---~kIAk~m~~gR-t~kQCR~RW~n~L 61 (446)
++-.||+||.++++++|+.+|.++| ..|+..|...| |..||+.+++.|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 3567999999999999999998899 99999887566 9999999988774
No 23
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.55 E-value=3.7e-05 Score=82.14 Aligned_cols=69 Identities=22% Similarity=0.429 Sum_probs=62.7
Q ss_pred CccCccCHHHHHHHHHHHHHhC-CChHHHhhhCCCCCHHHHHHHHHHHhHHHHHhcCCCCCCCCCCcccc
Q 013300 65 LKRGTFSQQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPVTHKPLSEVE 133 (446)
Q Consensus 65 lkrg~WT~EED~kLlelv~~yG-nkWskIAk~LpgRT~~qcKnRW~~iLkkklr~~g~~p~~~k~l~ele 133 (446)
++.|.|+.-||+.|-.+|.+|| +.|++|+..+..++..||++||...+.+.+++-.|...++..+.-+-
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhla 74 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLA 74 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHH
Confidence 4678999999999999999999 77999999999999999999999999999999999988877665443
No 24
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.51 E-value=0.00026 Score=55.45 Aligned_cols=46 Identities=13% Similarity=0.292 Sum_probs=40.3
Q ss_pred cCccCHHHHHHHHHHHHHhCC-Ch---HHHhhhCC-CC-CHHHHHHHHHHHh
Q 013300 67 RGTFSQQEENLIIELHAVLGN-RW---SQIAAQLP-GR-TDNEIKNLWNSCL 112 (446)
Q Consensus 67 rg~WT~EED~kLlelv~~yGn-kW---skIAk~Lp-gR-T~~qcKnRW~~iL 112 (446)
+-.||+||..+++++++.||. +| ..|++.|. .| |..||+.|.....
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 457999999999999999995 99 99999985 45 9999999987543
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.39 E-value=7.3e-05 Score=78.55 Aligned_cols=50 Identities=20% Similarity=0.596 Sum_probs=46.4
Q ss_pred CCccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccC
Q 013300 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLR 62 (446)
Q Consensus 12 lkKG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~ 62 (446)
+-..-||.+|+-+|++++..||-|||..||.++| .|+..+|+++|.+++.
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHHh
Confidence 4567799999999999999999999999999999 9999999999998764
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.38 E-value=0.00027 Score=74.43 Aligned_cols=47 Identities=23% Similarity=0.447 Sum_probs=43.1
Q ss_pred CccCccCHHHHHHHHHHHHHhC-CChHHHhhhCCCCCHHHHHHHHHHH
Q 013300 65 LKRGTFSQQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSC 111 (446)
Q Consensus 65 lkrg~WT~EED~kLlelv~~yG-nkWskIAk~LpgRT~~qcKnRW~~i 111 (446)
+-...||.+||.+||+++..|| ++|..||.+++.|+..+||.+|.++
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~ 117 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKH 117 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHH
Confidence 4456899999999999999999 9999999999999999999999743
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=97.01 E-value=0.00092 Score=62.44 Aligned_cols=53 Identities=17% Similarity=0.343 Sum_probs=45.9
Q ss_pred ccCccCHHHHHHHHHHHHHhC---C----ChHHHhhhCCCCCHHHHHHHHHHHhHHHHHhc
Q 013300 66 KRGTFSQQEENLIIELHAVLG---N----RWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQR 119 (446)
Q Consensus 66 krg~WT~EED~kLlelv~~yG---n----kWskIAk~LpgRT~~qcKnRW~~iLkkklr~~ 119 (446)
+...||.|||.+|.+.|.+|- + -..++++.| +||..+|.=||+..+|+.+...
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~~ 62 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEEA 62 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHHH
Confidence 457899999999999999883 2 278888889 9999999999999999887654
No 28
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.86 E-value=0.0011 Score=54.03 Aligned_cols=50 Identities=32% Similarity=0.585 Sum_probs=35.3
Q ss_pred cCccCHHHHHHHHHHHHH------hC--C------ChHHHhhhCC----CCCHHHHHHHHHHHhHHHH
Q 013300 67 RGTFSQQEENLIIELHAV------LG--N------RWSQIAAQLP----GRTDNEIKNLWNSCLKKKL 116 (446)
Q Consensus 67 rg~WT~EED~kLlelv~~------yG--n------kWskIAk~Lp----gRT~~qcKnRW~~iLkkkl 116 (446)
|..||.+|...||+++.+ ++ + -|..||..|. .||..||++||+++.+...
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk 68 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYK 68 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence 457999999999999877 22 1 3999999973 5999999999998554443
No 29
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=96.84 E-value=0.0038 Score=60.29 Aligned_cols=100 Identities=22% Similarity=0.412 Sum_probs=73.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCc--ccCccccchhhhcccC----------------CCC-----ccCccCH
Q 013300 16 LWSPEEDEKLLRHITKYGHGCWSSVPKQAGL--QRCGKSCRLRWINYLR----------------PDL-----KRGTFSQ 72 (446)
Q Consensus 16 ~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~--gRt~kQCR~RW~n~L~----------------P~l-----krg~WT~ 72 (446)
+|++++|-+|+.+|..-. +-..|++-+.. .-|-..+.+||+..|. |.. .+.+||.
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 699999999999998754 46666664443 3356677889986652 221 4569999
Q ss_pred HHHHHHHHHHHHhCC---ChHHHhhh----C-CCCCHHHHHHHHHHHhHHHHH
Q 013300 73 QEENLIIELHAVLGN---RWSQIAAQ----L-PGRTDNEIKNLWNSCLKKKLR 117 (446)
Q Consensus 73 EED~kLlelv~~yGn---kWskIAk~----L-pgRT~~qcKnRW~~iLkkklr 117 (446)
+||++|......... .+.+|-.. | ++||+.++.++|+.+.+..+.
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 999999997765542 47777443 3 789999999999976666544
No 30
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.77 E-value=0.0017 Score=70.09 Aligned_cols=45 Identities=18% Similarity=0.409 Sum_probs=42.4
Q ss_pred ccCccCHHHHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHH
Q 013300 66 KRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNS 110 (446)
Q Consensus 66 krg~WT~EED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~ 110 (446)
-++.||++|..+|++++..||..|.+||.++++||..||-.|+.+
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~ 296 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLR 296 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHh
Confidence 457899999999999999999999999999999999999999964
No 31
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.56 E-value=0.0024 Score=68.01 Aligned_cols=45 Identities=20% Similarity=0.331 Sum_probs=42.2
Q ss_pred cCccCHHHHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHH
Q 013300 67 RGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSC 111 (446)
Q Consensus 67 rg~WT~EED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~i 111 (446)
...||.+|..+|++.++.||..|.+||.+++.|+..||--||.++
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 348999999999999999999999999999999999999999754
No 32
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.37 E-value=0.0015 Score=69.65 Aligned_cols=45 Identities=31% Similarity=0.639 Sum_probs=41.7
Q ss_pred CccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhc
Q 013300 13 RKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWIN 59 (446)
Q Consensus 13 kKG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n 59 (446)
+...||.+|..+|+++|+.|| .+|.+||++++ +|+..||..|+.+
T Consensus 278 ~dk~WS~qE~~LLLEGIe~yg-DdW~kVA~HVg-tKt~EqCIl~FL~ 322 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYG-DDWDKVARHVG-TKTKEQCILHFLQ 322 (531)
T ss_pred ccccccHHHHHHHHHHHHHhh-hhHHHHHHHhC-CCCHHHHHHHHHc
Confidence 566899999999999999999 67999999999 9999999999874
No 33
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.32 E-value=0.0056 Score=49.27 Aligned_cols=50 Identities=12% Similarity=0.341 Sum_probs=32.5
Q ss_pred cCccCHHHHHHHHHHHHHhC-------CC--hHHHhhhCC-CCCHHHHHHHHHHHhHHHH
Q 013300 67 RGTFSQQEENLIIELHAVLG-------NR--WSQIAAQLP-GRTDNEIKNLWNSCLKKKL 116 (446)
Q Consensus 67 rg~WT~EED~kLlelv~~yG-------nk--WskIAk~Lp-gRT~~qcKnRW~~iLkkkl 116 (446)
|.+||.|||..|++.|+++. ++ |.++++.-+ .+|-...|+||...|+.+.
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 56899999999999997653 11 999999987 8999999999987776554
No 34
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.19 E-value=0.0068 Score=57.25 Aligned_cols=53 Identities=19% Similarity=0.381 Sum_probs=43.7
Q ss_pred CccCccCHHHHHHHHHHHHHhCCC-------hHHHhhhCCCCCHHHHHHHHHHHhHHHHHh
Q 013300 65 LKRGTFSQQEENLIIELHAVLGNR-------WSQIAAQLPGRTDNEIKNLWNSCLKKKLRQ 118 (446)
Q Consensus 65 lkrg~WT~EED~kLlelv~~yGnk-------WskIAk~LpgRT~~qcKnRW~~iLkkklr~ 118 (446)
.+.+.||.|||.+|.+.|..|+.. ...++..| +||..+|..||+.++++.+..
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Yee 62 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQE 62 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHHH
Confidence 356789999999999999988732 56666777 899999999999999976543
No 35
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.15 E-value=0.0036 Score=67.74 Aligned_cols=46 Identities=26% Similarity=0.619 Sum_probs=42.0
Q ss_pred CCccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhc
Q 013300 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWIN 59 (446)
Q Consensus 12 lkKG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n 59 (446)
-.++.||.+|+-+|+++|.+|| .+|.+||.+++ +|+..||..++.+
T Consensus 251 ~~~~~WT~qE~lLLLE~ie~y~-ddW~kVa~hVg-~ks~eqCI~kFL~ 296 (506)
T KOG1279|consen 251 SARPNWTEQETLLLLEAIEMYG-DDWNKVADHVG-TKSQEQCILKFLR 296 (506)
T ss_pred cCCCCccHHHHHHHHHHHHHhc-ccHHHHHhccC-CCCHHHHHHHHHh
Confidence 3467899999999999999999 67999999999 9999999998764
No 36
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=95.60 E-value=0.0039 Score=58.34 Aligned_cols=50 Identities=28% Similarity=0.619 Sum_probs=42.7
Q ss_pred CCccCCCHHHHHHHHHHHHHh---CC---CCccccccccCcccCccccchhhhcccCC
Q 013300 12 LRKGLWSPEEDEKLLRHITKY---GH---GCWSSVPKQAGLQRCGKSCRLRWINYLRP 63 (446)
Q Consensus 12 lkKG~WT~EEDe~LlelV~ky---G~---~nW~kIAk~m~~gRt~kQCR~RW~n~L~P 63 (446)
.|...||.|||.+|.+.|-+| |. ....+|++.++ ||+..|.=||+.++..
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VRk 57 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVRK 57 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHHH
Confidence 467789999999999999998 21 24889999887 9999999999988863
No 37
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.44 E-value=0.0048 Score=50.30 Aligned_cols=47 Identities=23% Similarity=0.603 Sum_probs=32.3
Q ss_pred ccCCCHHHHHHHHHHHHH--h----C--C-----CCcccccccc---CcccCccccchhhhcc
Q 013300 14 KGLWSPEEDEKLLRHITK--Y----G--H-----GCWSSVPKQA---GLQRCGKSCRLRWINY 60 (446)
Q Consensus 14 KG~WT~EEDe~LlelV~k--y----G--~-----~nW~kIAk~m---~~gRt~kQCR~RW~n~ 60 (446)
|..||.+|...|++++.. + + . .-|..||..| |..|++.||+.||.+.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 357999999999999987 2 1 1 1399999976 4579999999999864
No 38
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.34 E-value=0.041 Score=44.27 Aligned_cols=49 Identities=29% Similarity=0.556 Sum_probs=40.3
Q ss_pred cCccCHHHHHHHHHHHHHhC----C-------------ChHHHhhhC-----CCCCHHHHHHHHHHHhHHH
Q 013300 67 RGTFSQQEENLIIELHAVLG----N-------------RWSQIAAQL-----PGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 67 rg~WT~EED~kLlelv~~yG----n-------------kWskIAk~L-----pgRT~~qcKnRW~~iLkkk 115 (446)
...||.+|.+.|++++.+|. + -|..|+..| +.|+..+||.+|.++....
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~ 72 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKA 72 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHH
Confidence 45799999999999998873 1 299999986 2499999999999866544
No 39
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.21 E-value=0.021 Score=58.81 Aligned_cols=46 Identities=30% Similarity=0.490 Sum_probs=42.3
Q ss_pred cCccCHHHHHHHHHHHHHhC-CChHHHhhhCCCCCHHHHHHHHHHHh
Q 013300 67 RGTFSQQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSCL 112 (446)
Q Consensus 67 rg~WT~EED~kLlelv~~yG-nkWskIAk~LpgRT~~qcKnRW~~iL 112 (446)
-..|+.+|+.+|++....+| ++|..||.+++.|+...||.+|..+.
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 99999999999999999999997554
No 40
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=95.18 E-value=0.0071 Score=48.67 Aligned_cols=51 Identities=22% Similarity=0.396 Sum_probs=32.8
Q ss_pred ccCCCHHHHHHHHHHHHHhCC------CC--ccccccccCcccCccccchhhhcccCCC
Q 013300 14 KGLWSPEEDEKLLRHITKYGH------GC--WSSVPKQAGLQRCGKSCRLRWINYLRPD 64 (446)
Q Consensus 14 KG~WT~EEDe~LlelV~kyG~------~n--W~kIAk~m~~gRt~kQCR~RW~n~L~P~ 64 (446)
|.+||.|||+.|++.|..+.. ++ |.+++...+..++-..-|+||.+.|.+.
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 567999999999999976631 22 9999987765788888899999998764
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.03 E-value=0.0077 Score=61.88 Aligned_cols=48 Identities=17% Similarity=0.482 Sum_probs=44.8
Q ss_pred ccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccC
Q 013300 14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLR 62 (446)
Q Consensus 14 KG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~ 62 (446)
---|+.+|+-+|++.....|-+||..||..+| .|+...|+++|.+++.
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 9999999999998775
No 42
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.76 E-value=0.074 Score=62.26 Aligned_cols=101 Identities=16% Similarity=0.342 Sum_probs=78.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccch-------hhhc---------cc------------------
Q 013300 16 LWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRL-------RWIN---------YL------------------ 61 (446)
Q Consensus 16 ~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~-------RW~n---------~L------------------ 61 (446)
-|+.-+=..++.++.+||..+-..||..|. +++...++. ||.. .+
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 388888888899999999999999999998 788877762 2211 00
Q ss_pred ----------------CCCCccCccCHHHHHHHHHHHHHhC-CChHHHhhh------------CCCCCHHHHHHHHHHHh
Q 013300 62 ----------------RPDLKRGTFSQQEENLIIELHAVLG-NRWSQIAAQ------------LPGRTDNEIKNLWNSCL 112 (446)
Q Consensus 62 ----------------~P~lkrg~WT~EED~kLlelv~~yG-nkWskIAk~------------LpgRT~~qcKnRW~~iL 112 (446)
.+..++..+|+|||..|+-++.+|| ++|.+|-.. |..||+..|..|...++
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 0222445699999999999999999 789998443 34799999999999888
Q ss_pred HHHHH
Q 013300 113 KKKLR 117 (446)
Q Consensus 113 kkklr 117 (446)
+-..+
T Consensus 985 ~~~~~ 989 (1033)
T PLN03142 985 RLIEK 989 (1033)
T ss_pred HHHHH
Confidence 76644
No 43
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=93.74 E-value=0.019 Score=46.18 Aligned_cols=49 Identities=27% Similarity=0.408 Sum_probs=39.2
Q ss_pred CccCCCHHHHHHHHHHHHHhCC----------------CCcccccccc----CcccCccccchhhhccc
Q 013300 13 RKGLWSPEEDEKLLRHITKYGH----------------GCWSSVPKQA----GLQRCGKSCRLRWINYL 61 (446)
Q Consensus 13 kKG~WT~EEDe~LlelV~kyG~----------------~nW~kIAk~m----~~gRt~kQCR~RW~n~L 61 (446)
++..||.+|.+.|+++|.+|.. ..|.+|+..+ +..|+..+|+.+|.+..
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 4678999999999999999821 2399999865 22699999999998753
No 44
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=93.49 E-value=0.02 Score=54.09 Aligned_cols=50 Identities=24% Similarity=0.479 Sum_probs=40.3
Q ss_pred CCCccCCCHHHHHHHHHHHHHhCCC------CccccccccCcccCccccchhhhcccC
Q 013300 11 KLRKGLWSPEEDEKLLRHITKYGHG------CWSSVPKQAGLQRCGKSCRLRWINYLR 62 (446)
Q Consensus 11 klkKG~WT~EEDe~LlelV~kyG~~------nW~kIAk~m~~gRt~kQCR~RW~n~L~ 62 (446)
+.++..||.|||.+|-+.|-+|+.. ....++..+. |++..|..||+-++.
T Consensus 2 k~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 2 KTRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred cchhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 3567899999999999999998643 2566666765 999999999976665
No 45
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=93.14 E-value=0.16 Score=51.88 Aligned_cols=52 Identities=21% Similarity=0.388 Sum_probs=41.2
Q ss_pred cCccCHHHHHHHHHHHHHh----------CCChHHHhhhCC----CCCHHHHHHHHHHHhHHHHHh
Q 013300 67 RGTFSQQEENLIIELHAVL----------GNRWSQIAAQLP----GRTDNEIKNLWNSCLKKKLRQ 118 (446)
Q Consensus 67 rg~WT~EED~kLlelv~~y----------GnkWskIAk~Lp----gRT~~qcKnRW~~iLkkklr~ 118 (446)
...|+.+|-..||++..+. +..|..||+.|. -||+.+||+||.++.++..+.
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~ 119 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKE 119 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Confidence 3789999999999998654 234999999652 399999999999977665443
No 46
>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=91.09 E-value=0.43 Score=39.32 Aligned_cols=46 Identities=24% Similarity=0.551 Sum_probs=35.6
Q ss_pred ccCHHHHHHHHHHHHHh---CC----------ChHHHhhhCCC-----CCHHHHHHHHHHHhHH
Q 013300 69 TFSQQEENLIIELHAVL---GN----------RWSQIAAQLPG-----RTDNEIKNLWNSCLKK 114 (446)
Q Consensus 69 ~WT~EED~kLlelv~~y---Gn----------kWskIAk~Lpg-----RT~~qcKnRW~~iLkk 114 (446)
.||+++++.|++++.+. |+ .|..|+..|.. .+..||++||..+.+.
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 49999999999998654 22 29999998732 5789999999865543
No 47
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=90.22 E-value=0.25 Score=52.15 Aligned_cols=56 Identities=23% Similarity=0.367 Sum_probs=49.1
Q ss_pred cCccCHHHHHHHHHHHHHhCCChHHHhhh-----CCC-CCHHHHHHHHHHHhHHHHHhcCCC
Q 013300 67 RGTFSQQEENLIIELHAVLGNRWSQIAAQ-----LPG-RTDNEIKNLWNSCLKKKLRQRGID 122 (446)
Q Consensus 67 rg~WT~EED~kLlelv~~yGnkWskIAk~-----Lpg-RT~~qcKnRW~~iLkkklr~~g~~ 122 (446)
...||.||-+-|.++++.|.-+|..||.. ++. ||-..+|+||+.+-++.++.+.-.
T Consensus 130 dn~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~s 191 (445)
T KOG2656|consen 130 DNSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARAPS 191 (445)
T ss_pred cccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHccCCC
Confidence 35799999999999999999999999887 655 999999999999888887776544
No 48
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=89.22 E-value=0.39 Score=50.76 Aligned_cols=47 Identities=21% Similarity=0.282 Sum_probs=43.0
Q ss_pred CccCHHHHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHH
Q 013300 68 GTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (446)
Q Consensus 68 g~WT~EED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkk 114 (446)
.+|+.+|-+++..+....|..+..|+..||.|.+.|||.+|.+--|+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~ 412 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKV 412 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhh
Confidence 38999999999999999999999999999999999999999754443
No 49
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=88.98 E-value=0.8 Score=40.96 Aligned_cols=53 Identities=21% Similarity=0.417 Sum_probs=41.5
Q ss_pred CCccCccCHHHHHHHHHHHHHhCC----ChHHHhhh------------CCCCCHHHHHHHHHHHhHHHH
Q 013300 64 DLKRGTFSQQEENLIIELHAVLGN----RWSQIAAQ------------LPGRTDNEIKNLWNSCLKKKL 116 (446)
Q Consensus 64 ~lkrg~WT~EED~kLlelv~~yGn----kWskIAk~------------LpgRT~~qcKnRW~~iLkkkl 116 (446)
..++..||+|||.-|+-++.+||- .|.+|-.. |..||+..|..|-..+++-..
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~ 114 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIE 114 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHH
Confidence 456789999999999999999995 69888665 246999999999998886543
No 50
>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=85.26 E-value=2.1 Score=31.81 Aligned_cols=42 Identities=24% Similarity=0.331 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHH
Q 013300 72 QQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (446)
Q Consensus 72 ~EED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkk 114 (446)
++++..++.++...|-.|.+||+.+ |.+...|+.+....+++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~~ 53 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARKK 53 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHhh
Confidence 4678888999999999999999999 89999999998876654
No 51
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=85.18 E-value=1.4 Score=49.92 Aligned_cols=44 Identities=16% Similarity=0.289 Sum_probs=37.8
Q ss_pred ccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhc
Q 013300 14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWIN 59 (446)
Q Consensus 14 KG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n 59 (446)
..+||+.|-.++.+++..|. +++..|+++++ +++..||.+-|..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~-KDF~~v~km~~-~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYS-KDFIFVQKMVK-SKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhc-ccHHHHHHHhc-cccHHHHHHHHHH
Confidence 45799999999999999998 67999999998 8999999887754
No 52
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=82.75 E-value=4.4 Score=46.22 Aligned_cols=55 Identities=7% Similarity=0.064 Sum_probs=45.2
Q ss_pred hhhcccCCCC---ccCccCHHHHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHH
Q 013300 56 RWINYLRPDL---KRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNS 110 (446)
Q Consensus 56 RW~n~L~P~l---krg~WT~EED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~ 110 (446)
||..|+.-+. ....||+.|-.++-+++..|...+-.|++.++++|-.+|-..|+.
T Consensus 605 ~~~~h~la~Y~Y~gSd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 605 RLKCHPLANYHYAGSDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYT 662 (907)
T ss_pred CccccccceeeecCcccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHH
Confidence 4555544332 235899999999999999999999999999999999999887653
No 53
>smart00595 MADF subfamily of SANT domain.
Probab=80.74 E-value=3 Score=33.93 Aligned_cols=26 Identities=27% Similarity=0.505 Sum_probs=22.1
Q ss_pred hHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 89 WSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 89 WskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
|.+||..|+. +..+|+.+|+.+....
T Consensus 30 W~~Ia~~l~~-~~~~~~~kw~~LR~~y 55 (89)
T smart00595 30 WEEIAEELGL-SVEECKKRWKNLRDRY 55 (89)
T ss_pred HHHHHHHHCc-CHHHHHHHHHHHHHHH
Confidence 9999999955 9999999999865543
No 54
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=78.41 E-value=1.2 Score=37.25 Aligned_cols=29 Identities=38% Similarity=0.665 Sum_probs=18.0
Q ss_pred CCCccCCCHHHHHHH--------HHHHHHhCCCCcccccc
Q 013300 11 KLRKGLWSPEEDEKL--------LRHITKYGHGCWSSVPK 42 (446)
Q Consensus 11 klkKG~WT~EEDe~L--------lelV~kyG~~nW~kIAk 42 (446)
.-..|-||+|+|+.| .+++++|| +..|+.
T Consensus 44 ~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG---~~~i~~ 80 (87)
T PF11626_consen 44 DNMPGIWTPEDDEMLRSGDKDDIERLIKKHG---EERIER 80 (87)
T ss_dssp TT-TT---HHHHHHHTS--HHHHHHHHHHH----HHHHHH
T ss_pred CCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC---HHHHHH
Confidence 345889999999999 45677888 666654
No 55
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=77.38 E-value=1.3 Score=45.22 Aligned_cols=47 Identities=26% Similarity=0.455 Sum_probs=37.4
Q ss_pred ccCCCHHHHHHHHHHHHHh---------CCCCccccccc---cCcccCccccchhhhcc
Q 013300 14 KGLWSPEEDEKLLRHITKY---------GHGCWSSVPKQ---AGLQRCGKSCRLRWINY 60 (446)
Q Consensus 14 KG~WT~EEDe~LlelV~ky---------G~~nW~kIAk~---m~~gRt~kQCR~RW~n~ 60 (446)
...|+.+|-..|+++..+. ....|.+||+. .+..|++.||+.+|.+.
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 3789999999999998754 11349999993 34569999999999764
No 56
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=75.04 E-value=6.6 Score=42.69 Aligned_cols=49 Identities=16% Similarity=0.267 Sum_probs=43.4
Q ss_pred ccCccCHHHHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHH
Q 013300 66 KRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (446)
Q Consensus 66 krg~WT~EED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkk 114 (446)
-...||.||--++-.++..||.+..+|-+.||.|+-..+...|+..-|.
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~ 234 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKT 234 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHH
Confidence 3458999999999999999999999999999999999999888765443
No 57
>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=73.89 E-value=2.6 Score=37.71 Aligned_cols=34 Identities=35% Similarity=0.630 Sum_probs=28.1
Q ss_pred CCCccCCCHHHHHHHHHHHHHhCC---CCcccccccc
Q 013300 11 KLRKGLWSPEEDEKLLRHITKYGH---GCWSSVPKQA 44 (446)
Q Consensus 11 klkKG~WT~EEDe~LlelV~kyG~---~nW~kIAk~m 44 (446)
..++..||.+||.-|+-++.+||- +.|..|-..+
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 566888999999999999999998 8899987743
No 58
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=72.60 E-value=6.5 Score=44.01 Aligned_cols=54 Identities=9% Similarity=0.308 Sum_probs=43.5
Q ss_pred ccCccCHHHHHHHHHHHHHhCCChHHHhhhC----------CCCCHHHHHHHHHHHhHHHHHhc
Q 013300 66 KRGTFSQQEENLIIELHAVLGNRWSQIAAQL----------PGRTDNEIKNLWNSCLKKKLRQR 119 (446)
Q Consensus 66 krg~WT~EED~kLlelv~~yGnkWskIAk~L----------pgRT~~qcKnRW~~iLkkklr~~ 119 (446)
.+..||.+|++-+..+++++|.++.+|-+.+ .-+|-.|+|.+|++.++++-+-.
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~ 150 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLL 150 (782)
T ss_pred cccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhh
Confidence 3678999999999999999999998883332 23678899999999888765544
No 59
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=69.28 E-value=9.6 Score=34.58 Aligned_cols=44 Identities=14% Similarity=0.151 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHhC-CChHHHhhhCCCCCHHHHHHHHHHHhHHHH
Q 013300 72 QQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSCLKKKL 116 (446)
Q Consensus 72 ~EED~kLlelv~~yG-nkWskIAk~LpgRT~~qcKnRW~~iLkkkl 116 (446)
++-|.+|+++.++-| ..|++||+.+ |-+...|+.|++.+....+
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 467999999999988 5799999999 9999999999987665543
No 60
>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=67.17 E-value=17 Score=26.76 Aligned_cols=42 Identities=26% Similarity=0.389 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 73 QEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 73 EED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
+++..++.++-..|-.+.+||+.| |-+...|+.+.+..+++-
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~kL 48 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKKL 48 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHHh
Confidence 456666666666667899999999 889999999888877653
No 61
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=64.85 E-value=17 Score=26.62 Aligned_cols=38 Identities=16% Similarity=0.331 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHhC-CChHHHhhhCCCCCHHHHHHHHHHH
Q 013300 73 QEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSC 111 (446)
Q Consensus 73 EED~kLlelv~~yG-nkWskIAk~LpgRT~~qcKnRW~~i 111 (446)
+=|.+|+.+..+-| ..|.+||+.+ |=+...|..|++.+
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 56889999999988 5699999999 88999999998754
No 62
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=63.97 E-value=5 Score=42.74 Aligned_cols=67 Identities=25% Similarity=0.355 Sum_probs=51.3
Q ss_pred CCCccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhccc--CCC-----C-ccCccCHHHHHHHH
Q 013300 11 KLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYL--RPD-----L-KRGTFSQQEENLII 79 (446)
Q Consensus 11 klkKG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L--~P~-----l-krg~WT~EED~kLl 79 (446)
+-..-+|+.+|-+++.+++...| .++.-|+.++| .|..+|++.+|.+-- +|. + .+.|+..+|-.+|.
T Consensus 362 ~~~~~~Ws~~e~ekFYKALs~wG-tdF~LIs~lfP-~R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k~~ 436 (507)
T COG5118 362 KKGALRWSKKEIEKFYKALSIWG-TDFSLISSLFP-NRERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNKLR 436 (507)
T ss_pred CCCCCcccHHHHHHHHHHHHHhc-chHHHHHHhcC-chhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhhHH
Confidence 34456899999999999999999 56999999999 999999999887532 221 1 24567777765543
No 63
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=61.94 E-value=14 Score=34.06 Aligned_cols=44 Identities=7% Similarity=0.028 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHhC-CChHHHhhhCCCCCHHHHHHHHHHHhHHHH
Q 013300 72 QQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSCLKKKL 116 (446)
Q Consensus 72 ~EED~kLlelv~~yG-nkWskIAk~LpgRT~~qcKnRW~~iLkkkl 116 (446)
++-|.+|+.+.++-| -.|++||+.+ |-+...|+.|++.+.+..+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 567999999999988 5799999999 9999999999987766544
No 64
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=59.52 E-value=26 Score=30.33 Aligned_cols=39 Identities=23% Similarity=0.315 Sum_probs=29.0
Q ss_pred HHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 76 NLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 76 ~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
..++.+.-..|-.+.+||+.+ |.+...|+.+...++++.
T Consensus 119 r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~L 157 (161)
T TIGR02985 119 RKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKEL 157 (161)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 334444344567899999999 889999999998865543
No 65
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=56.04 E-value=13 Score=34.80 Aligned_cols=41 Identities=27% Similarity=0.275 Sum_probs=34.8
Q ss_pred ccCHHHHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHH
Q 013300 69 TFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNS 110 (446)
Q Consensus 69 ~WT~EED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~ 110 (446)
.||+|+.++|.+|..+ |-.=++||+.|++.|.++|--+-+.
T Consensus 2 ~Wtde~~~~L~~lw~~-G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHHHc-CCCHHHHHHHhCCcchhhhhhhhhc
Confidence 4999999999998855 7778999999988999998776653
No 66
>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=55.94 E-value=8.2 Score=31.66 Aligned_cols=43 Identities=23% Similarity=0.546 Sum_probs=28.7
Q ss_pred CCCHHHHHHHHHHHHHh---CCC---------CccccccccC----cccCccccchhhh
Q 013300 16 LWSPEEDEKLLRHITKY---GHG---------CWSSVPKQAG----LQRCGKSCRLRWI 58 (446)
Q Consensus 16 ~WT~EEDe~LlelV~ky---G~~---------nW~kIAk~m~----~gRt~kQCR~RW~ 58 (446)
+||+++++.|++++... |.. .|..|+..|. ...+..||+.||.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~ 59 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWK 59 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHH
Confidence 59999999999998654 211 2777777553 2345566666654
No 67
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=54.17 E-value=48 Score=34.82 Aligned_cols=50 Identities=22% Similarity=0.436 Sum_probs=38.7
Q ss_pred cCccCHHHHHHHHHHHHHh-CCC---hHHHhhhCCCCCHHHHHHHHHHHhHHHH
Q 013300 67 RGTFSQQEENLIIELHAVL-GNR---WSQIAAQLPGRTDNEIKNLWNSCLKKKL 116 (446)
Q Consensus 67 rg~WT~EED~kLlelv~~y-Gnk---WskIAk~LpgRT~~qcKnRW~~iLkkkl 116 (446)
-..|+.-|...|+.+.+.. |.. =.+|++.++||+..+|++--..+..+.+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rva 74 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRVA 74 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHHH
Confidence 4589999999999998765 433 5789999999999999996655444433
No 68
>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=51.16 E-value=40 Score=27.74 Aligned_cols=38 Identities=13% Similarity=0.299 Sum_probs=27.2
Q ss_pred HHHHHHHHhCC--------ChHHHhhhCCCCC-----HHHHHHHHHHHhHH
Q 013300 77 LIIELHAVLGN--------RWSQIAAQLPGRT-----DNEIKNLWNSCLKK 114 (446)
Q Consensus 77 kLlelv~~yGn--------kWskIAk~LpgRT-----~~qcKnRW~~iLkk 114 (446)
+|-.+|.+.|+ +|..||+.|+--. ..++|..|..+|-.
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 46677777774 6999999984322 36789999877643
No 69
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=50.34 E-value=58 Score=34.20 Aligned_cols=87 Identities=18% Similarity=0.311 Sum_probs=64.3
Q ss_pred CccCCCHHHHHHHHHHHHHhCCC---CccccccccCcccCccccchhhhcccCCCCccCccCHHHHHHHHHHHHH-h---
Q 013300 13 RKGLWSPEEDEKLLRHITKYGHG---CWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAV-L--- 85 (446)
Q Consensus 13 kKG~WT~EEDe~LlelV~kyG~~---nW~kIAk~m~~gRt~kQCR~RW~n~L~P~lkrg~WT~EED~kLlelv~~-y--- 85 (446)
....||.-|...|+++....... +-.+|++.++ +|...++++ |.+.|+ ++.+.+++++ |
T Consensus 20 gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g 85 (344)
T PF11035_consen 20 GPAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRD-FLQQLK------------GRVAREAIQKVHPGG 85 (344)
T ss_pred CcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHH-HHHHHH------------HHHHHHHHHHhcccc
Confidence 35679999999999998876323 3467888888 899888876 334443 4456666655 2
Q ss_pred --CC------------ChHHHhhhCCCCCHHHHHHHHHHHhH
Q 013300 86 --GN------------RWSQIAAQLPGRTDNEIKNLWNSCLK 113 (446)
Q Consensus 86 --Gn------------kWskIAk~LpgRT~~qcKnRW~~iLk 113 (446)
|. -|..+|+.+.|.-...+---|-++|.
T Consensus 86 ~~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 86 LKGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred cccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 11 19999999999999999998887764
No 70
>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=48.80 E-value=45 Score=27.88 Aligned_cols=36 Identities=25% Similarity=0.328 Sum_probs=27.1
Q ss_pred HHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHH
Q 013300 78 IIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (446)
Q Consensus 78 Llelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkk 114 (446)
++.++-..|..+.+||+.+ |=+...|+.+.+.++++
T Consensus 118 ii~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 118 VLVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred HHhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3344444577899999999 56999999998886654
No 71
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=48.45 E-value=39 Score=29.13 Aligned_cols=48 Identities=17% Similarity=0.188 Sum_probs=34.3
Q ss_pred CccCHHHHHHHHHHHHHh----C----CChHHHhhhCCC-----CCHHHHHHHHHHHhHHH
Q 013300 68 GTFSQQEENLIIELHAVL----G----NRWSQIAAQLPG-----RTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 68 g~WT~EED~kLlelv~~y----G----nkWskIAk~Lpg-----RT~~qcKnRW~~iLkkk 115 (446)
.-||+|+|..||+.+..| | ..|..+...+.+ =+..|+.++-+.+.++.
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 469999999999998777 5 246555444322 37789988888755554
No 72
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=47.90 E-value=35 Score=33.37 Aligned_cols=44 Identities=18% Similarity=0.265 Sum_probs=34.7
Q ss_pred ccCHHHHHHHHHHHHHhCCChHHHhhh--CCC-CCHHHHHHHHHHHhH
Q 013300 69 TFSQQEENLIIELHAVLGNRWSQIAAQ--LPG-RTDNEIKNLWNSCLK 113 (446)
Q Consensus 69 ~WT~EED~kLlelv~~yGnkWskIAk~--Lpg-RT~~qcKnRW~~iLk 113 (446)
.|++++|.+|+.+|.. |+.-..|+.. |.. -|-..|..||+.+|-
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~lly 47 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLY 47 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHc
Confidence 5999999999999876 5556667655 333 578999999998884
No 73
>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=47.40 E-value=26 Score=27.50 Aligned_cols=28 Identities=21% Similarity=0.442 Sum_probs=22.4
Q ss_pred hHHHhhhCCC-CCHHHHHHHHHHHhHHHH
Q 013300 89 WSQIAAQLPG-RTDNEIKNLWNSCLKKKL 116 (446)
Q Consensus 89 WskIAk~Lpg-RT~~qcKnRW~~iLkkkl 116 (446)
|..||..|+. -+...|+.||+.+.....
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~~y~ 57 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRDRYR 57 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHHHHH
Confidence 9999999964 578899999998665443
No 74
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=47.17 E-value=7.8 Score=41.39 Aligned_cols=49 Identities=16% Similarity=0.287 Sum_probs=41.3
Q ss_pred CCccCCCHHHHHHHHHHHHHhCCCCccccccc-----cCcccCccccchhhhccc
Q 013300 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQ-----AGLQRCGKSCRLRWINYL 61 (446)
Q Consensus 12 lkKG~WT~EEDe~LlelV~kyG~~nW~kIAk~-----m~~gRt~kQCR~RW~n~L 61 (446)
++-..||+||.+-|.+++++|.-+ |--||.. .+..||...+++||....
T Consensus 128 l~dn~WskeETD~LF~lck~fDLR-f~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 128 LNDNSWSKEETDYLFDLCKRFDLR-FFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred hccccccHHHHHHHHHHHHhcCee-EEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 445779999999999999999954 9999987 665699999999997543
No 75
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=46.56 E-value=46 Score=27.74 Aligned_cols=39 Identities=18% Similarity=0.312 Sum_probs=28.7
Q ss_pred HHHHHHHHhCC--------ChHHHhhhCCCC-----CHHHHHHHHHHHhHHH
Q 013300 77 LIIELHAVLGN--------RWSQIAAQLPGR-----TDNEIKNLWNSCLKKK 115 (446)
Q Consensus 77 kLlelv~~yGn--------kWskIAk~LpgR-----T~~qcKnRW~~iLkkk 115 (446)
+|..+|.+.|+ .|.+||+.|+-. ...++|..|.+.|.+.
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 46667777774 699999998443 3578899998877653
No 76
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=46.01 E-value=56 Score=35.02 Aligned_cols=43 Identities=19% Similarity=0.234 Sum_probs=38.3
Q ss_pred CccCHHHHHHHHHHHHHhCCChHHH-hhhCCCCCHHHHHHHHHH
Q 013300 68 GTFSQQEENLIIELHAVLGNRWSQI-AAQLPGRTDNEIKNLWNS 110 (446)
Q Consensus 68 g~WT~EED~kLlelv~~yGnkWskI-Ak~LpgRT~~qcKnRW~~ 110 (446)
..|+++|-+.+.+.++.||+.+..| +..++.|+--.|-..|+.
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYl 321 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYL 321 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHH
Confidence 4799999999999999999999999 555899999999887763
No 77
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=45.94 E-value=8.9 Score=28.17 Aligned_cols=37 Identities=24% Similarity=0.395 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHhCCCCccccccccCcccCccccchhhh
Q 013300 20 EEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWI 58 (446)
Q Consensus 20 EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~ 58 (446)
+=|.+|+.++.+.|...|.+||+.++ =+...|+.|+.
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg--lS~~~v~~Ri~ 39 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG--LSESTVRRRIR 39 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT--S-HHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC--cCHHHHHHHHH
Confidence 45889999999999889999999998 77788888875
No 78
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=44.81 E-value=56 Score=28.90 Aligned_cols=37 Identities=16% Similarity=0.201 Sum_probs=27.2
Q ss_pred HHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 78 IIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 78 Llelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
++.+....|-.+.+||+.| |.+...|+.+....+++.
T Consensus 136 vl~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~L 172 (182)
T PRK09652 136 AITLREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREAL 172 (182)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3333344567899999999 889999998887655543
No 79
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=44.74 E-value=21 Score=39.91 Aligned_cols=45 Identities=20% Similarity=0.336 Sum_probs=42.2
Q ss_pred ccCccCHHHHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHH
Q 013300 66 KRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNS 110 (446)
Q Consensus 66 krg~WT~EED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~ 110 (446)
..++|+.+|-++...+..+.|.+.+.|+..+++|.+.|||.+|..
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhh
Confidence 456999999999999999999999999999999999999999964
No 80
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=44.72 E-value=25 Score=42.58 Aligned_cols=75 Identities=17% Similarity=0.242 Sum_probs=45.3
Q ss_pred ccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccCCCCccCccCHHHHHHHHHHHHHh-CCChHHH
Q 013300 14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVL-GNRWSQI 92 (446)
Q Consensus 14 KG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~P~lkrg~WT~EED~kLlelv~~y-GnkWskI 92 (446)
-.-|..+||..|+-.|-+||-++|..|-.- +.-|... ...+...+-.+.|=..+-..|+.++..+ +.+|.+.
T Consensus 1133 ~~~W~~e~Ds~LLiGI~khGygswe~Ir~D------p~L~l~d-Ki~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~~ 1205 (1373)
T KOG0384|consen 1133 DCDWGSEDDSMLLIGIFKHGYGSWEAIRLD------PDLGLTD-KIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPKK 1205 (1373)
T ss_pred ccCCCchhhhhHhhhhhhcccccHHHhccC------ccccchh-hhcccccCCchHHHHHHHHHHHHHHhhcccCCCchh
Confidence 355999999999999999999999998431 1111100 0111111344555556666666666666 4555554
Q ss_pred hhh
Q 013300 93 AAQ 95 (446)
Q Consensus 93 Ak~ 95 (446)
.+.
T Consensus 1206 ~~~ 1208 (1373)
T KOG0384|consen 1206 LKR 1208 (1373)
T ss_pred hhc
Confidence 433
No 81
>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=43.69 E-value=13 Score=31.18 Aligned_cols=17 Identities=18% Similarity=0.571 Sum_probs=10.2
Q ss_pred CCCccCccCHHHHHHHH
Q 013300 63 PDLKRGTFSQQEENLII 79 (446)
Q Consensus 63 P~lkrg~WT~EED~kLl 79 (446)
|....|-||+|+|+.|.
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 82
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=43.50 E-value=43 Score=28.01 Aligned_cols=44 Identities=11% Similarity=0.126 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHhC-CChHHHhhhCCCCCHHHHHHHHHHHhHHHH
Q 013300 72 QQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSCLKKKL 116 (446)
Q Consensus 72 ~EED~kLlelv~~yG-nkWskIAk~LpgRT~~qcKnRW~~iLkkkl 116 (446)
++.|.+|+.++.+.| -.+.+||+.+ |-+...|+.|.+.+.+..+
T Consensus 2 d~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~ 46 (108)
T smart00344 2 DEIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGV 46 (108)
T ss_pred CHHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 357889999999888 5799999999 9999999999987766543
No 83
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=43.03 E-value=11 Score=30.78 Aligned_cols=44 Identities=16% Similarity=0.483 Sum_probs=29.4
Q ss_pred HHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccCCC-------CccCccCHHHHHHH
Q 013300 22 DEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPD-------LKRGTFSQQEENLI 78 (446)
Q Consensus 22 De~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~P~-------lkrg~WT~EED~kL 78 (446)
+.+|.++|..|| |+..+..+. - .|.. -+|. +++.+|..+.-+.|
T Consensus 12 e~il~~Lv~~yG---W~~L~~~i~-i----~CF~-----~~PsikSSLkFLRkTpWAR~KVE~l 62 (64)
T PF09905_consen 12 ETILTELVEHYG---WEELGERIN-I----NCFK-----NNPSIKSSLKFLRKTPWAREKVENL 62 (64)
T ss_dssp HHHHHHHHHHT----HHHHHHHTT-S----SSTT-----SS--HHHHHHHHHHSHHHHHHHHHH
T ss_pred HHHHHHHHHHhC---HHHHHhhcc-c----ccCC-----CCCchHHHHHHHhcCHhHHHHHHHh
Confidence 568899999999 999998776 2 2432 2444 35778888766554
No 84
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=41.09 E-value=65 Score=28.43 Aligned_cols=30 Identities=23% Similarity=0.249 Sum_probs=24.2
Q ss_pred HhCCChHHHhhhCCCCCHHHHHHHHHHHhHH
Q 013300 84 VLGNRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (446)
Q Consensus 84 ~yGnkWskIAk~LpgRT~~qcKnRW~~iLkk 114 (446)
..|-.+.+||+.| |-+...|+.+....+++
T Consensus 139 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 139 VEGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 4466799999999 88899999988775544
No 85
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=40.82 E-value=13 Score=33.64 Aligned_cols=45 Identities=13% Similarity=0.189 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccCCCC
Q 013300 19 PEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDL 65 (446)
Q Consensus 19 ~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~P~l 65 (446)
.+-|.+|+++..+.|...|.+||+.++ -+...|+.|+.+..+.++
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 357999999999999999999999997 888899999887655443
No 86
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=40.48 E-value=68 Score=29.81 Aligned_cols=39 Identities=18% Similarity=0.292 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhH
Q 013300 74 EENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLK 113 (446)
Q Consensus 74 ED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLk 113 (446)
+..+++++..-.|-.+.+||+.| |-+...|+.+|..+..
T Consensus 139 ~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR~ 177 (185)
T PF07638_consen 139 RQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRARA 177 (185)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 34445555555677899999999 9999999999987553
No 87
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=40.05 E-value=82 Score=28.20 Aligned_cols=30 Identities=30% Similarity=0.348 Sum_probs=23.8
Q ss_pred HhCCChHHHhhhCCCCCHHHHHHHHHHHhHH
Q 013300 84 VLGNRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (446)
Q Consensus 84 ~yGnkWskIAk~LpgRT~~qcKnRW~~iLkk 114 (446)
..|-.-.+||+.| |.+...|+.|....+++
T Consensus 132 ~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 161 (173)
T PRK09645 132 YRGWSTAQIAADL-GIPEGTVKSRLHYALRA 161 (173)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3466689999999 88899999998766544
No 88
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=39.34 E-value=90 Score=28.11 Aligned_cols=41 Identities=15% Similarity=0.180 Sum_probs=30.8
Q ss_pred HHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHHHHhc
Q 013300 78 IIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQR 119 (446)
Q Consensus 78 Llelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkklr~~ 119 (446)
++.+....|-...+||+.| |.+...|+.+-...+++-...-
T Consensus 127 v~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~~~~l 167 (172)
T PRK12523 127 AFLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQCYIAL 167 (172)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHh
Confidence 3344444567899999999 9999999999988777655443
No 89
>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=38.06 E-value=8.6 Score=31.72 Aligned_cols=39 Identities=26% Similarity=0.505 Sum_probs=26.8
Q ss_pred HHHHHHHHhCC-------CCccccccccCcccC----ccccchhhhcccC
Q 013300 24 KLLRHITKYGH-------GCWSSVPKQAGLQRC----GKSCRLRWINYLR 62 (446)
Q Consensus 24 ~LlelV~kyG~-------~nW~kIAk~m~~gRt----~kQCR~RW~n~L~ 62 (446)
+|..+|.+.|. +.|..||..++.... +.+++..|.++|.
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 57777887764 459999999874332 3556777777764
No 90
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=37.58 E-value=80 Score=29.24 Aligned_cols=36 Identities=14% Similarity=0.127 Sum_probs=26.9
Q ss_pred HHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 79 IELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 79 lelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
+.+....|-...+||..| |-+...|+.|+...+++.
T Consensus 143 ~~l~~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~~L 178 (192)
T PRK09643 143 LVAVDMQGYSVADAARML-GVAEGTVKSRCARGRARL 178 (192)
T ss_pred HHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 333344567799999999 899999999997655443
No 91
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=36.45 E-value=1e+02 Score=27.86 Aligned_cols=33 Identities=18% Similarity=0.201 Sum_probs=26.0
Q ss_pred HhCCChHHHhhhCCCCCHHHHHHHHHHHhHHHHH
Q 013300 84 VLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLR 117 (446)
Q Consensus 84 ~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkklr 117 (446)
..|-...+||..| |-+...|+.+....+++-..
T Consensus 145 ~~g~s~~eIA~~l-~is~~tV~~~l~ra~~~Lr~ 177 (184)
T PRK12512 145 VEGASIKETAAKL-SMSEGAVRVALHRGLAALAA 177 (184)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHH
Confidence 3466789999999 88999999998876665443
No 92
>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=36.21 E-value=1e+02 Score=21.10 Aligned_cols=37 Identities=22% Similarity=0.283 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHH
Q 013300 74 EENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSC 111 (446)
Q Consensus 74 ED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~i 111 (446)
++..++.++...|-.+..||+.+ |-+...|+.+....
T Consensus 14 ~~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 14 REREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 34556666656678899999998 67777777666543
No 93
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=35.86 E-value=14 Score=33.88 Aligned_cols=45 Identities=20% Similarity=0.244 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccCCCC
Q 013300 19 PEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDL 65 (446)
Q Consensus 19 ~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~P~l 65 (446)
.+-|.+|+.+..+.|.-.|.+||+.++ -+...|+.|+.+..+..+
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 567999999999999999999999997 778889999887655543
No 94
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=33.99 E-value=1.2e+02 Score=27.93 Aligned_cols=30 Identities=13% Similarity=0.231 Sum_probs=23.1
Q ss_pred HHhCCChHHHhhhCCCCCHHHHHHHHHHHhH
Q 013300 83 AVLGNRWSQIAAQLPGRTDNEIKNLWNSCLK 113 (446)
Q Consensus 83 ~~yGnkWskIAk~LpgRT~~qcKnRW~~iLk 113 (446)
...|-.-.+||..| |-+...|+.|....++
T Consensus 149 ~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 178 (195)
T PRK12532 149 EILGFSSDEIQQMC-GISTSNYHTIMHRARE 178 (195)
T ss_pred HHhCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 34466789999999 8888999988876443
No 95
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=32.57 E-value=1.1e+02 Score=27.58 Aligned_cols=30 Identities=10% Similarity=-0.041 Sum_probs=24.3
Q ss_pred hCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 85 LGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 85 yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
.|..+.+||..| |-+...|+++....+++-
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar~~L 180 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREAL 180 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 456799999999 888999999988765543
No 96
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=32.50 E-value=1.2e+02 Score=27.74 Aligned_cols=33 Identities=18% Similarity=0.226 Sum_probs=25.7
Q ss_pred HHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHHH
Q 013300 83 AVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKL 116 (446)
Q Consensus 83 ~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkkl 116 (446)
...|-...+||..| |-+...|+.+....+++-.
T Consensus 152 ~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~Lr 184 (189)
T PRK09648 152 VVVGLSAEETAEAV-GSTPGAVRVAQHRALARLR 184 (189)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 34467799999999 8888999999887665543
No 97
>PRK04217 hypothetical protein; Provisional
Probab=31.81 E-value=1.3e+02 Score=26.73 Aligned_cols=46 Identities=15% Similarity=0.077 Sum_probs=36.4
Q ss_pred CccCHHHHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 68 GTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 68 g~WT~EED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
..-+++| ..++.++...|-...+||+.+ |-+...|+.+++...++.
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkkL 86 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKKV 86 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 3456666 677777777788899999999 999999999998755544
No 98
>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=31.63 E-value=1.1e+02 Score=27.21 Aligned_cols=31 Identities=19% Similarity=0.246 Sum_probs=24.4
Q ss_pred hCCChHHHhhhCCCCCHHHHHHHHHHHhHHHH
Q 013300 85 LGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKL 116 (446)
Q Consensus 85 yGnkWskIAk~LpgRT~~qcKnRW~~iLkkkl 116 (446)
.|-...+||..| |-+...|+.+....+++-.
T Consensus 134 ~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~Lr 164 (169)
T TIGR02954 134 HDLTIKEIAEVM-NKPEGTVKTYLHRALKKLK 164 (169)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 456789999999 7799999999987665543
No 99
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=31.47 E-value=1.5e+02 Score=27.07 Aligned_cols=36 Identities=17% Similarity=0.107 Sum_probs=29.1
Q ss_pred HHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHHHHh
Q 013300 82 HAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQ 118 (446)
Q Consensus 82 v~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkklr~ 118 (446)
....|-...+||..| |-+...||.|....+..-+..
T Consensus 139 ~~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~~ 174 (178)
T PRK12529 139 ATLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLSL 174 (178)
T ss_pred HHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHh
Confidence 334466799999999 999999999999888776654
No 100
>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=31.18 E-value=73 Score=26.85 Aligned_cols=22 Identities=27% Similarity=0.542 Sum_probs=20.0
Q ss_pred HHHHHHHHHHhCCChHHHhhhC
Q 013300 75 ENLIIELHAVLGNRWSQIAAQL 96 (446)
Q Consensus 75 D~kLlelv~~yGnkWskIAk~L 96 (446)
|+.|..+....|..|..+|.+|
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L 23 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL 23 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc
Confidence 5678899999999999999998
No 101
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=30.33 E-value=18 Score=30.18 Aligned_cols=41 Identities=24% Similarity=0.525 Sum_probs=27.6
Q ss_pred HHHHHHHHHhCC-------CCccccccccCccc----CccccchhhhcccCC
Q 013300 23 EKLLRHITKYGH-------GCWSSVPKQAGLQR----CGKSCRLRWINYLRP 63 (446)
Q Consensus 23 e~LlelV~kyG~-------~nW~kIAk~m~~gR----t~kQCR~RW~n~L~P 63 (446)
-+|..+|.+.|. ..|.+||..++..- ...+.+..|.++|.|
T Consensus 35 ~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 35 YRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 357778888764 45999999987432 245556677776653
No 102
>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=30.25 E-value=83 Score=26.50 Aligned_cols=26 Identities=19% Similarity=0.339 Sum_probs=21.7
Q ss_pred HHHHHHHHHHhCCChHHHhhhCCCCCH
Q 013300 75 ENLIIELHAVLGNRWSQIAAQLPGRTD 101 (446)
Q Consensus 75 D~kLlelv~~yGnkWskIAk~LpgRT~ 101 (446)
|.+|..+....|..|.++|+.| |=+.
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~ 29 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSV 29 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCH
Confidence 6778888999999999999998 4333
No 103
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=30.17 E-value=51 Score=37.35 Aligned_cols=47 Identities=17% Similarity=0.389 Sum_probs=36.5
Q ss_pred ccCCCHHHHHHHHHHHHHhCCCCcccccc----------ccCcccCccccchhhhcccC
Q 013300 14 KGLWSPEEDEKLLRHITKYGHGCWSSVPK----------QAGLQRCGKSCRLRWINYLR 62 (446)
Q Consensus 14 KG~WT~EEDe~LlelV~kyG~~nW~kIAk----------~m~~gRt~kQCR~RW~n~L~ 62 (446)
|.-||-.|.+-+.++++.+| .++++|-+ .+. -++..|+|.+|.+.+.
T Consensus 88 ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~-~Ktkdqvr~~yY~~~~ 144 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQ-SKTKDQVRHYYYRLVR 144 (782)
T ss_pred ccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchh-hhhhHHHHHHHHHHHH
Confidence 66799999999999999999 67988822 223 4567788888876553
No 104
>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=30.10 E-value=1e+02 Score=27.88 Aligned_cols=30 Identities=10% Similarity=0.050 Sum_probs=23.9
Q ss_pred hCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 85 LGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 85 yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
.|-...+||..| |=+...||.+...++++-
T Consensus 153 ~~~s~~EIA~~l-gis~~tv~~~l~rar~~L 182 (190)
T TIGR02939 153 EGLSYEDIARIM-DCPVGTVRSRIFRAREAI 182 (190)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 355789999999 778999999988766543
No 105
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=29.92 E-value=1.3e+02 Score=27.77 Aligned_cols=31 Identities=23% Similarity=0.128 Sum_probs=24.9
Q ss_pred HHhCCChHHHhhhCCCCCHHHHHHHHHHHhHH
Q 013300 83 AVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (446)
Q Consensus 83 ~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkk 114 (446)
...|-...+||..| |-+...|+.|....+++
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 34567899999999 88899999998766554
No 106
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=29.85 E-value=1.6e+02 Score=25.83 Aligned_cols=31 Identities=13% Similarity=0.113 Sum_probs=24.5
Q ss_pred HhCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 84 VLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 84 ~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
..|-.-.+||..| |-+...|+.|....+++.
T Consensus 120 ~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~L 150 (161)
T PRK09047 120 WEDMDVAETAAAM-GCSEGSVKTHCSRATHAL 150 (161)
T ss_pred HhcCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3466789999999 889999999987665543
No 107
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=29.69 E-value=1.4e+02 Score=27.30 Aligned_cols=30 Identities=13% Similarity=0.121 Sum_probs=24.1
Q ss_pred HhCCChHHHhhhCCCCCHHHHHHHHHHHhHH
Q 013300 84 VLGNRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (446)
Q Consensus 84 ~yGnkWskIAk~LpgRT~~qcKnRW~~iLkk 114 (446)
..|-...+||..| |-+...|+.+....+++
T Consensus 145 ~~~~s~~eIA~~l-gis~~tV~~~l~Rar~~ 174 (189)
T PRK12515 145 YHEKSVEEVGEIV-GIPESTVKTRMFYARKK 174 (189)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3466799999999 77999999998775544
No 108
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=28.95 E-value=1.3e+02 Score=27.49 Aligned_cols=29 Identities=10% Similarity=0.095 Sum_probs=23.1
Q ss_pred CCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 86 GNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 86 GnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
|-...+||..| |-+...|+.|...++++-
T Consensus 154 g~s~~eIA~~l-gis~~tv~~~l~Rar~~L 182 (193)
T PRK11923 154 GLSYEDIASVM-QCPVGTVRSRIFRAREAI 182 (193)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 55689999999 778999999988765543
No 109
>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=28.27 E-value=1.5e+02 Score=27.33 Aligned_cols=36 Identities=17% Similarity=0.149 Sum_probs=27.0
Q ss_pred HHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 79 IELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 79 lelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
+.+....|-.-.+||..| |-+...||.|....+++.
T Consensus 140 ~~l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~L 175 (188)
T TIGR02943 140 FMMREVLGFESDEICQEL-EISTSNCHVLLYRARLSL 175 (188)
T ss_pred HHHHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 333344567799999999 899999999987765543
No 110
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=28.26 E-value=1.3e+02 Score=27.09 Aligned_cols=29 Identities=10% Similarity=-0.010 Sum_probs=23.5
Q ss_pred CCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 86 GNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 86 GnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
|-.-.+||+.| |.+...|+.+....+++-
T Consensus 152 g~s~~eIA~~l-gis~~~v~~~l~Rar~~L 180 (187)
T TIGR02948 152 DLSLKEISEIL-DLPVGTVKTRIHRGREAL 180 (187)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 56789999999 788999999988766544
No 111
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=27.44 E-value=94 Score=27.39 Aligned_cols=43 Identities=9% Similarity=0.074 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHhC-CChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 72 QQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 72 ~EED~kLlelv~~yG-nkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
++-|.+|+++.++-| ..+.+||+.+ |-+...|++|-+.+.+..
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~G 50 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEG 50 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCC
Confidence 467889999998888 5699999999 899999999987766654
No 112
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=27.40 E-value=1.8e+02 Score=25.69 Aligned_cols=30 Identities=13% Similarity=0.000 Sum_probs=23.8
Q ss_pred HhCCChHHHhhhCCCCCHHHHHHHHHHHhHH
Q 013300 84 VLGNRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (446)
Q Consensus 84 ~yGnkWskIAk~LpgRT~~qcKnRW~~iLkk 114 (446)
..|-.-.+||+.| |-+...|+.|....+++
T Consensus 120 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (160)
T PRK09642 120 LEEKSYQEIALQE-KIEVKTVEMKLYRARKW 149 (160)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 4466789999999 89999999988765544
No 113
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=27.13 E-value=87 Score=29.97 Aligned_cols=44 Identities=20% Similarity=0.270 Sum_probs=35.2
Q ss_pred ccCHHHHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 69 TFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 69 ~WT~EED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
..|+.|-+.|.-+.+ |-.=++||..| +.+...||.+..++++|-
T Consensus 148 ~LT~RE~eVL~lla~--G~snkeIA~~L-~iS~~TVk~h~~~i~~KL 191 (211)
T COG2197 148 LLTPRELEVLRLLAE--GLSNKEIAEEL-NLSEKTVKTHVSNILRKL 191 (211)
T ss_pred CCCHHHHHHHHHHHC--CCCHHHHHHHH-CCCHhHHHHHHHHHHHHc
Confidence 688888777665554 44459999999 999999999999988763
No 114
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=26.96 E-value=1.6e+02 Score=27.07 Aligned_cols=30 Identities=13% Similarity=0.028 Sum_probs=24.2
Q ss_pred hCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 85 LGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 85 yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
.|-...+||..| |-+...||.|....+++-
T Consensus 156 eg~s~~EIA~~l-gis~~tVk~rl~ra~~~L 185 (194)
T PRK12531 156 EELPHQQVAEMF-DIPLGTVKSRLRLAVEKL 185 (194)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHHH
Confidence 356789999999 889999999988766544
No 115
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=26.92 E-value=75 Score=27.39 Aligned_cols=19 Identities=26% Similarity=0.697 Sum_probs=16.6
Q ss_pred ccCCCHHHHHHHHHHHHHh
Q 013300 14 KGLWSPEEDEKLLRHITKY 32 (446)
Q Consensus 14 KG~WT~EEDe~LlelV~ky 32 (446)
...||+|++-.|++++..|
T Consensus 4 qR~WS~eDEi~iL~gl~~~ 22 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDF 22 (98)
T ss_pred cCCCCchHHHHHHHHHHHH
Confidence 4569999999999999877
No 116
>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=26.74 E-value=77 Score=26.08 Aligned_cols=22 Identities=27% Similarity=0.687 Sum_probs=19.5
Q ss_pred HHHHHHHHHHhCCChHHHhhhC
Q 013300 75 ENLIIELHAVLGNRWSQIAAQL 96 (446)
Q Consensus 75 D~kLlelv~~yGnkWskIAk~L 96 (446)
|..|..+....|..|.++|+.|
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L 25 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL 25 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc
Confidence 5667888899999999999998
No 117
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=26.46 E-value=1.6e+02 Score=27.10 Aligned_cols=30 Identities=13% Similarity=0.053 Sum_probs=24.1
Q ss_pred HhCCChHHHhhhCCCCCHHHHHHHHHHHhHH
Q 013300 84 VLGNRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (446)
Q Consensus 84 ~yGnkWskIAk~LpgRT~~qcKnRW~~iLkk 114 (446)
..|-...+||..| |-+...||.|....+++
T Consensus 148 ~~g~s~~EIA~~l-gis~~tVk~~l~RAr~~ 177 (189)
T PRK12530 148 YLELSSEQICQEC-DISTSNLHVLLYRARLQ 177 (189)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466799999999 99999999998765543
No 118
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=26.30 E-value=1.7e+02 Score=31.66 Aligned_cols=74 Identities=20% Similarity=0.302 Sum_probs=47.6
Q ss_pred ccCCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccCCCCccCccCHHHHHHHHHHHHHhCC
Q 013300 8 YKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGN 87 (446)
Q Consensus 8 ~k~klkKG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~P~lkrg~WT~EED~kLlelv~~yGn 87 (446)
.+++...|.|+++=|+.+.++..-|... ||+..-+++. + +.||.
T Consensus 70 D~~~daegvWSpdIEqsFqEALaiyppc-----------GrrKIilsde-------g------------------kmyGR 113 (455)
T KOG3841|consen 70 DNQRDAEGVWSPDIEQSFQEALAIYPPC-----------GRRKIILSDE-------G------------------KMYGR 113 (455)
T ss_pred ccccccccccChhHHHHHHHHHhhcCCC-----------CceeEEEccC-------c------------------cccch
Confidence 3445667899999999999998888743 4544433331 0 11221
Q ss_pred ChHHHhhhC-----CCCCHHHHHHHHHHHhHHHHHh
Q 013300 88 RWSQIAAQL-----PGRTDNEIKNLWNSCLKKKLRQ 118 (446)
Q Consensus 88 kWskIAk~L-----pgRT~~qcKnRW~~iLkkklr~ 118 (446)
=..||+++ ..||++||-.|-..+.|+++++
T Consensus 114 -NELIarYIKlrtgktRTrKQVSSHIQVlarrk~re 148 (455)
T KOG3841|consen 114 -NELIARYIKLRTGKTRTRKQVSSHIQVLARRKLRE 148 (455)
T ss_pred -HHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHH
Confidence 23444443 3599999999988877777664
No 119
>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=26.06 E-value=1.3e+02 Score=27.87 Aligned_cols=46 Identities=17% Similarity=0.200 Sum_probs=38.2
Q ss_pred ccCccCHHHHHHHHHHHHHhCCChHHHhhhCC----CCCHHHHHHHHHHH
Q 013300 66 KRGTFSQQEENLIIELHAVLGNRWSQIAAQLP----GRTDNEIKNLWNSC 111 (446)
Q Consensus 66 krg~WT~EED~kLlelv~~yGnkWskIAk~Lp----gRT~~qcKnRW~~i 111 (446)
....-+..|..-|..|+.+||.++...+.-.. -.|..||+.+....
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 34578999999999999999999999988754 37999998887653
No 120
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=25.73 E-value=52 Score=37.02 Aligned_cols=50 Identities=20% Similarity=0.381 Sum_probs=43.8
Q ss_pred ccCCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCcccCccccchhhhc
Q 013300 8 YKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWIN 59 (446)
Q Consensus 8 ~k~klkKG~WT~EEDe~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n 59 (446)
+.++...++|+.+|-++...+....| .+..-|+..++ .|..+|++..+..
T Consensus 403 ~sk~~~~~~w~~se~e~fyka~~~~g-s~~slis~l~p-~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 403 YSKKLETDKWDASETELFYKALSERG-SDFSLISNLFP-LRDRKQIKAKFKK 452 (584)
T ss_pred ccCccccCcccchhhHHhhhHHhhhc-ccccccccccc-cccHHHHHHHHhh
Confidence 44667789999999999999999999 56999999999 9999999887653
No 121
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=24.51 E-value=1.8e+02 Score=26.81 Aligned_cols=32 Identities=13% Similarity=0.045 Sum_probs=24.4
Q ss_pred HHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 83 AVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 83 ~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
...|-.+.+||+.| |-+...|+.+....+++-
T Consensus 149 ~~~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~L 180 (196)
T PRK12524 149 HIEGLSNPEIAEVM-EIGVEAVESLTARGKRAL 180 (196)
T ss_pred HHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 34466799999999 888888888887655543
No 122
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=23.90 E-value=2e+02 Score=25.00 Aligned_cols=29 Identities=21% Similarity=0.366 Sum_probs=22.8
Q ss_pred hCCChHHHhhhCCCCCHHHHHHHHHHHhHH
Q 013300 85 LGNRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (446)
Q Consensus 85 yGnkWskIAk~LpgRT~~qcKnRW~~iLkk 114 (446)
.|-...+||+.| |.+...|+.+-...+++
T Consensus 121 ~~~s~~EIA~~l-~is~~tV~~~~~ra~~~ 149 (154)
T PRK06759 121 VGKTMGEIALET-EMTYYQVRWIYRQALEK 149 (154)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 355689999999 88999999988775544
No 123
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=23.56 E-value=2.2e+02 Score=25.41 Aligned_cols=32 Identities=19% Similarity=0.123 Sum_probs=25.1
Q ss_pred HhCCChHHHhhhCCCCCHHHHHHHHHHHhHHHH
Q 013300 84 VLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKL 116 (446)
Q Consensus 84 ~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkkl 116 (446)
..|-.-.+||..| |-+...|+.|-...+++-.
T Consensus 126 ~~g~s~~eIA~~l-gis~~tV~~~l~Rar~~Lr 157 (164)
T PRK12547 126 ASGFSYEDAAAIC-GCAVGTIKSRVSRARNRLQ 157 (164)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHH
Confidence 3456789999999 8889999999887665543
No 124
>TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 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 a limited number of Gram-positive bacterial lineages.
Probab=23.42 E-value=2.1e+02 Score=25.19 Aligned_cols=29 Identities=28% Similarity=0.335 Sum_probs=22.9
Q ss_pred hCCChHHHhhhCCCCCHHHHHHHHHHHhHH
Q 013300 85 LGNRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (446)
Q Consensus 85 yGnkWskIAk~LpgRT~~qcKnRW~~iLkk 114 (446)
.|-.-.+||+.| |-+...|+.+-...+++
T Consensus 137 ~g~s~~eIA~~l-~is~~tv~~~l~ra~~~ 165 (170)
T TIGR02952 137 QNLPIAEVARIL-GKTEGAVKILQFRAIKK 165 (170)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 356789999999 88889999988765544
No 125
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=22.64 E-value=2e+02 Score=25.32 Aligned_cols=31 Identities=23% Similarity=0.260 Sum_probs=24.1
Q ss_pred HhCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 84 VLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 84 ~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
..|-.=.+||..| |-+...|+.|....++.-
T Consensus 119 ~~~~s~~eIA~~l-gis~~tv~~~l~ra~~~L 149 (159)
T PRK12527 119 LEGLSHQQIAEHL-GISRSLVEKHIVNAMKHC 149 (159)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 3455679999999 899999999987666543
No 126
>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=22.43 E-value=1.2e+02 Score=25.21 Aligned_cols=26 Identities=35% Similarity=0.611 Sum_probs=18.4
Q ss_pred HHHHHHHhCCChHHHhhhCCCCCHHHH
Q 013300 78 IIELHAVLGNRWSQIAAQLPGRTDNEI 104 (446)
Q Consensus 78 Llelv~~yGnkWskIAk~LpgRT~~qc 104 (446)
|..+....|..|.++|+.| |-++.+|
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 3346678899999999998 4444443
No 127
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=22.41 E-value=2.3e+02 Score=26.02 Aligned_cols=32 Identities=22% Similarity=0.194 Sum_probs=25.5
Q ss_pred hCCChHHHhhhCCCCCHHHHHHHHHHHhHHHHH
Q 013300 85 LGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLR 117 (446)
Q Consensus 85 yGnkWskIAk~LpgRT~~qcKnRW~~iLkkklr 117 (446)
.|-.-.+||..| |-+...|+.|....+++-.+
T Consensus 145 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~ 176 (185)
T PRK09649 145 LGLSYADAAAVC-GCPVGTIRSRVARARDALLA 176 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHh
Confidence 455689999999 89999999999876655443
No 128
>TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in a variety of species including Rhodopirellula baltica which encodes a paralogous group of five.
Probab=22.38 E-value=2.3e+02 Score=25.43 Aligned_cols=30 Identities=20% Similarity=0.205 Sum_probs=24.1
Q ss_pred hCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 85 LGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 85 yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
.|-...+||..| |-+...|+.|....+++-
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~L 178 (183)
T TIGR02999 149 AGLTVEEIAELL-GVSVRTVERDWRFARAWL 178 (183)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 356789999999 899999999998765543
No 129
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=22.36 E-value=2.3e+02 Score=25.76 Aligned_cols=33 Identities=18% Similarity=0.111 Sum_probs=26.2
Q ss_pred HHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHHH
Q 013300 83 AVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKL 116 (446)
Q Consensus 83 ~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkkl 116 (446)
...|-...+||+.| |.+...|+++-...+++..
T Consensus 142 ~~~g~s~~EIA~~l-~is~~tV~~~l~rar~~Lr 174 (181)
T PRK12536 142 KLEGLSVAETAQLT-GLSESAVKVGIHRGLKALA 174 (181)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 34466799999999 9999999999887665543
No 130
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=22.29 E-value=1.9e+02 Score=20.81 Aligned_cols=34 Identities=24% Similarity=0.197 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHH
Q 013300 73 QEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNL 107 (446)
Q Consensus 73 EED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnR 107 (446)
=|...|.+++..++++..+.|+.| |=+...+..|
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~k 38 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRK 38 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHH
Confidence 377888999999999999999998 5455444443
No 131
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=22.06 E-value=2.1e+02 Score=25.97 Aligned_cols=30 Identities=13% Similarity=0.076 Sum_probs=22.7
Q ss_pred HhCCChHHHhhhCCCCCHHHHHHHHHHHhHH
Q 013300 84 VLGNRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (446)
Q Consensus 84 ~yGnkWskIAk~LpgRT~~qcKnRW~~iLkk 114 (446)
..|-.-.+||+.| |-+...|+.+....+++
T Consensus 142 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 171 (186)
T PRK05602 142 YQGLSNIEAAAVM-DISVDALESLLARGRRA 171 (186)
T ss_pred hcCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 3456789999998 88888888887765544
No 132
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=21.97 E-value=1e+02 Score=23.27 Aligned_cols=43 Identities=23% Similarity=0.344 Sum_probs=29.6
Q ss_pred cCHHHHHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 70 FSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 70 WT~EED~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
.|+.|-+.|..+.. |..=.+||..+ +.+...|+.+...++++-
T Consensus 4 LT~~E~~vl~~l~~--G~~~~eIA~~l-~is~~tV~~~~~~i~~Kl 46 (58)
T PF00196_consen 4 LTERELEVLRLLAQ--GMSNKEIAEEL-GISEKTVKSHRRRIMKKL 46 (58)
T ss_dssp S-HHHHHHHHHHHT--TS-HHHHHHHH-TSHHHHHHHHHHHHHHHH
T ss_pred cCHHHHHHHHHHHh--cCCcchhHHhc-CcchhhHHHHHHHHHHHh
Confidence 45556555444433 45568999999 889999999988877653
No 133
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=21.64 E-value=2.3e+02 Score=26.21 Aligned_cols=37 Identities=22% Similarity=0.162 Sum_probs=27.0
Q ss_pred HHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 78 IIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 78 Llelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
++.+....|-...+||+.| |-+...||.|-...+++.
T Consensus 124 i~~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~~L 160 (187)
T PRK12516 124 AIILVGASGFAYEEAAEIC-GCAVGTIKSRVNRARQRL 160 (187)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3333444567799999999 888999999887665543
No 134
>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=21.31 E-value=1.3e+02 Score=25.08 Aligned_cols=29 Identities=28% Similarity=0.527 Sum_probs=22.3
Q ss_pred HHHHHHHHHHhCCChHHHhhhCCCCCHHHH
Q 013300 75 ENLIIELHAVLGNRWSQIAAQLPGRTDNEI 104 (446)
Q Consensus 75 D~kLlelv~~yGnkWskIAk~LpgRT~~qc 104 (446)
|..|..+....|.+|.++|+.| |=+...|
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI 32 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQI 32 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 5667778889999999999998 4444444
No 135
>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=21.13 E-value=1.1e+02 Score=24.46 Aligned_cols=25 Identities=24% Similarity=0.391 Sum_probs=18.9
Q ss_pred HHHHHHHHHHH-hCCChHHHhhhCCC
Q 013300 74 EENLIIELHAV-LGNRWSQIAAQLPG 98 (446)
Q Consensus 74 ED~kLlelv~~-yGnkWskIAk~Lpg 98 (446)
-++.|..++.. .|..|..+|+.|+-
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~Lg~ 29 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKLGL 29 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHcCC
Confidence 34556666666 89999999999953
No 136
>COG4628 Uncharacterized conserved protein [Function unknown]
Probab=21.03 E-value=73 Score=29.05 Aligned_cols=43 Identities=16% Similarity=0.452 Sum_probs=28.7
Q ss_pred HHHHHHHHHHhCCCCccccccccCcccCccccchhhhcccCCC-------CccCccCHHHHHH
Q 013300 22 DEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPD-------LKRGTFSQQEENL 77 (446)
Q Consensus 22 De~LlelV~kyG~~nW~kIAk~m~~gRt~kQCR~RW~n~L~P~-------lkrg~WT~EED~k 77 (446)
+.+|.++|..|| |+.++..++ ..|.. -+|. +++.+|..|.-+.
T Consensus 21 E~llt~Lvd~YG---Wd~L~~ri~-----inCF~-----ndPSi~SSlKfLrkT~WARekvEa 70 (136)
T COG4628 21 ETLLTELVDFYG---WDGLATRIR-----INCFH-----NDPSIKSSLKFLRKTPWAREKVEA 70 (136)
T ss_pred HHHHHHHHHHhC---hHHHHhhce-----ecccc-----CCccHHHHHHHHhcCHhHHHHHHH
Confidence 568889999999 999987655 44542 1332 3567777665443
No 137
>TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are apparently found only in the Planctomycetaceae family including the genuses Gemmata and Pirellula (in which seven sequences are found).
Probab=20.95 E-value=2.4e+02 Score=25.27 Aligned_cols=31 Identities=19% Similarity=0.506 Sum_probs=24.3
Q ss_pred HhCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 84 VLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 84 ~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
-.|-.-.+||..| |-+...|+.+....+++-
T Consensus 154 ~~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~L 184 (189)
T TIGR02984 154 LEGLSFAEVAERM-DRSEGAVSMLWVRGLARL 184 (189)
T ss_pred hcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 3456789999998 889999999888766543
No 138
>TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot: SIGM_BACSU) and is activated by various stressors.
Probab=20.89 E-value=90 Score=27.15 Aligned_cols=29 Identities=17% Similarity=0.094 Sum_probs=23.5
Q ss_pred CCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 86 GNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 86 GnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
|-.+.+||..| |-+...|+.+....+++.
T Consensus 121 g~s~~eIA~~l-gis~~tv~~~l~Ra~~~L 149 (154)
T TIGR02950 121 EFSYKEIAELL-NLSLAKVKSNLFRARKEL 149 (154)
T ss_pred cCcHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 44699999999 888999999998765543
No 139
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=20.79 E-value=2.3e+02 Score=25.08 Aligned_cols=31 Identities=26% Similarity=0.350 Sum_probs=24.2
Q ss_pred HHhCCChHHHhhhCCCCCHHHHHHHHHHHhHH
Q 013300 83 AVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (446)
Q Consensus 83 ~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkk 114 (446)
.-.|-.-.+||+.| |-+...|+.|....++.
T Consensus 126 ~~~g~s~~EIA~~l-~is~~tV~~~l~ra~~~ 156 (161)
T PRK12528 126 QVDGLGYGEIATEL-GISLATVKRYLNKAAMR 156 (161)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34466789999999 88889999988776543
No 140
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=20.73 E-value=2.5e+02 Score=25.57 Aligned_cols=31 Identities=13% Similarity=0.352 Sum_probs=24.8
Q ss_pred HhCCChHHHhhhCCCCCHHHHHHHHHHHhHHH
Q 013300 84 VLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (446)
Q Consensus 84 ~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkk 115 (446)
..|-.-.+||..| |-+...|+.|....+++-
T Consensus 136 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~L 166 (185)
T PRK12542 136 FYNLTYQEISSVM-GITEANVRKQFERARKRV 166 (185)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3456789999999 899999999988766544
No 141
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=20.43 E-value=2.6e+02 Score=24.57 Aligned_cols=41 Identities=17% Similarity=0.164 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhCCChHHHhhhCCCCCHHHHHHHHHHHhHHHH
Q 013300 75 ENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKL 116 (446)
Q Consensus 75 D~kLlelv~~yGnkWskIAk~LpgRT~~qcKnRW~~iLkkkl 116 (446)
+..++.+.-..|-.=.+||..| |-+...|+.+....+++..
T Consensus 115 ~r~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~Lr 155 (162)
T TIGR02983 115 QRAVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALARLR 155 (162)
T ss_pred HHHHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHHHH
Confidence 3334444444566779999999 8889999999987665543
Done!