Query 018559
Match_columns 354
No_of_seqs 271 out of 1391
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 10:01:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018559.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018559hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03212 Transcription repress 100.0 2.2E-35 4.9E-40 277.5 12.2 122 2-123 13-134 (249)
2 PLN03091 hypothetical protein; 100.0 2.3E-35 5.1E-40 295.0 12.8 120 1-120 1-120 (459)
3 KOG0048 Transcription factor, 100.0 7E-33 1.5E-37 259.5 11.8 110 11-120 6-115 (238)
4 KOG0049 Transcription factor, 99.8 5.4E-19 1.2E-23 183.4 7.7 111 1-112 347-458 (939)
5 KOG0049 Transcription factor, 99.7 7.1E-18 1.5E-22 175.1 7.6 116 12-128 303-422 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.6 6.6E-16 1.4E-20 115.3 4.2 60 17-78 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.5 9.4E-15 2E-19 150.6 5.2 108 9-117 15-122 (512)
8 KOG0050 mRNA splicing protein 99.5 1E-14 2.2E-19 149.0 3.3 109 11-121 4-112 (617)
9 KOG0051 RNA polymerase I termi 99.4 3E-13 6.5E-18 141.1 6.0 106 13-121 383-517 (607)
10 PF13921 Myb_DNA-bind_6: Myb-l 99.4 2.8E-13 6.1E-18 101.1 3.8 57 70-126 1-57 (60)
11 PF00249 Myb_DNA-binding: Myb- 99.4 1.1E-12 2.3E-17 94.6 5.3 46 67-112 1-48 (48)
12 PLN03212 Transcription repress 99.3 6.5E-13 1.4E-17 126.1 4.9 67 63-129 21-89 (249)
13 PF00249 Myb_DNA-binding: Myb- 99.3 4.4E-13 9.4E-18 96.7 1.1 48 14-61 1-48 (48)
14 KOG0048 Transcription factor, 99.3 1.1E-12 2.4E-17 123.3 2.3 68 63-130 5-74 (238)
15 PLN03091 hypothetical protein; 99.2 7.9E-12 1.7E-16 126.5 4.1 66 63-128 10-77 (459)
16 smart00717 SANT SANT SWI3, AD 99.2 5.3E-11 1.1E-15 82.5 6.0 47 67-113 1-48 (49)
17 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 4.5E-10 9.9E-15 76.8 6.0 44 69-112 1-45 (45)
18 smart00717 SANT SANT SWI3, AD 99.0 3.2E-10 6.9E-15 78.6 3.1 48 14-62 1-48 (49)
19 KOG0051 RNA polymerase I termi 98.8 4.2E-09 9.1E-14 110.5 6.6 112 13-128 307-446 (607)
20 cd00167 SANT 'SWI3, ADA2, N-Co 98.8 2E-09 4.4E-14 73.6 2.7 45 16-61 1-45 (45)
21 COG5147 REB1 Myb superfamily p 98.3 1.1E-07 2.3E-12 98.9 -1.3 98 13-113 290-397 (512)
22 KOG0050 mRNA splicing protein 97.8 1E-05 2.2E-10 84.0 3.5 62 65-126 5-67 (617)
23 TIGR01557 myb_SHAQKYF myb-like 97.7 2.7E-05 5.9E-10 59.1 3.3 49 13-61 2-54 (57)
24 KOG0457 Histone acetyltransfer 97.4 7.4E-05 1.6E-09 76.3 2.2 49 12-61 70-118 (438)
25 KOG0457 Histone acetyltransfer 97.3 0.00032 7E-09 71.7 6.0 49 65-113 70-119 (438)
26 TIGR01557 myb_SHAQKYF myb-like 97.3 0.00062 1.3E-08 51.7 5.8 46 67-112 3-54 (57)
27 TIGR02894 DNA_bind_RsfA transc 97.3 0.00037 7.9E-09 63.1 5.1 53 66-119 3-62 (161)
28 PF13325 MCRS_N: N-terminal re 97.2 0.00094 2E-08 62.5 7.2 100 16-117 1-131 (199)
29 PF13837 Myb_DNA-bind_4: Myb/S 96.9 0.00092 2E-08 52.8 3.8 50 67-116 1-68 (90)
30 COG5259 RSC8 RSC chromatin rem 96.8 0.00066 1.4E-08 70.2 2.1 46 13-60 278-323 (531)
31 KOG1279 Chromatin remodeling f 96.8 0.0019 4.1E-08 67.8 5.4 48 66-113 252-299 (506)
32 COG5259 RSC8 RSC chromatin rem 96.7 0.0019 4.1E-08 66.9 4.9 45 67-111 279-323 (531)
33 PF08914 Myb_DNA-bind_2: Rap1 96.7 0.0024 5.1E-08 49.8 4.3 51 67-117 2-62 (65)
34 KOG1279 Chromatin remodeling f 96.6 0.0016 3.5E-08 68.3 3.7 48 11-60 250-297 (506)
35 PRK13923 putative spore coat p 96.2 0.006 1.3E-07 55.9 4.5 51 65-116 3-60 (170)
36 PF13837 Myb_DNA-bind_4: Myb/S 95.8 0.0025 5.4E-08 50.4 0.3 47 15-61 2-64 (90)
37 PF13873 Myb_DNA-bind_5: Myb/S 95.6 0.03 6.5E-07 43.6 5.4 51 67-117 2-74 (78)
38 COG5114 Histone acetyltransfer 95.1 0.024 5.2E-07 56.8 4.4 47 67-113 63-110 (432)
39 PF08914 Myb_DNA-bind_2: Rap1 95.1 0.012 2.5E-07 45.9 1.7 51 14-64 2-60 (65)
40 TIGR02894 DNA_bind_RsfA transc 94.8 0.0059 1.3E-07 55.5 -0.9 50 12-63 2-57 (161)
41 COG5114 Histone acetyltransfer 94.2 0.015 3.3E-07 58.1 0.6 48 14-62 63-110 (432)
42 PLN03142 Probable chromatin-re 94.0 0.15 3.2E-06 58.1 7.7 102 16-118 826-990 (1033)
43 PF13873 Myb_DNA-bind_5: Myb/S 93.5 0.024 5.2E-07 44.1 0.3 49 13-61 1-69 (78)
44 PRK13923 putative spore coat p 92.0 0.044 9.6E-07 50.3 -0.1 49 12-62 3-57 (170)
45 PF12776 Myb_DNA-bind_3: Myb/S 91.0 0.63 1.4E-05 37.1 5.7 46 69-114 1-64 (96)
46 PF09111 SLIDE: SLIDE; InterP 90.8 0.52 1.1E-05 40.8 5.3 54 64-117 46-115 (118)
47 KOG4282 Transcription factor G 90.7 0.46 1E-05 47.0 5.7 50 67-116 54-117 (345)
48 KOG2656 DNA methyltransferase 90.5 0.21 4.5E-06 51.3 2.9 86 36-122 75-191 (445)
49 COG5118 BDP1 Transcription ini 88.8 0.66 1.4E-05 47.7 5.0 48 68-115 366-413 (507)
50 KOG1194 Predicted DNA-binding 84.6 2.1 4.4E-05 45.0 6.0 48 67-114 187-234 (534)
51 PF08281 Sigma70_r4_2: Sigma-7 83.0 3.1 6.6E-05 29.9 4.8 42 72-114 12-53 (54)
52 KOG4282 Transcription factor G 77.5 1.3 2.9E-05 43.8 1.8 48 14-61 54-113 (345)
53 PF09111 SLIDE: SLIDE; InterP 76.5 0.83 1.8E-05 39.6 0.1 48 11-58 46-107 (118)
54 KOG4468 Polycomb-group transcr 72.9 5.7 0.00012 43.2 5.1 52 67-118 88-149 (782)
55 COG5118 BDP1 Transcription ini 68.9 3.2 7E-05 42.8 2.2 103 14-120 365-483 (507)
56 KOG4167 Predicted DNA-binding 67.7 9.4 0.0002 42.5 5.4 45 67-111 619-663 (907)
57 PF13404 HTH_AsnC-type: AsnC-t 66.6 14 0.0003 26.2 4.5 38 73-111 3-41 (42)
58 KOG4167 Predicted DNA-binding 64.5 4.2 9E-05 45.1 2.1 45 13-59 618-662 (907)
59 PF04545 Sigma70_r4: Sigma-70, 62.8 17 0.00038 25.7 4.5 41 73-114 7-47 (50)
60 PF11626 Rap1_C: TRF2-interact 61.2 8.2 0.00018 31.2 2.8 22 12-33 45-74 (87)
61 PRK11179 DNA-binding transcrip 61.0 15 0.00033 32.2 4.7 46 73-119 9-55 (153)
62 PF11035 SnAPC_2_like: Small n 58.8 35 0.00075 34.7 7.2 48 67-114 21-72 (344)
63 PF12776 Myb_DNA-bind_3: Myb/S 57.9 10 0.00022 30.0 2.8 45 16-60 1-61 (96)
64 smart00595 MADF subfamily of S 55.6 14 0.0003 29.0 3.2 26 89-115 30-55 (89)
65 TIGR02985 Sig70_bacteroi1 RNA 54.7 30 0.00064 28.9 5.3 38 76-114 119-156 (161)
66 PF01388 ARID: ARID/BRIGHT DNA 54.6 34 0.00073 27.2 5.3 38 77-114 40-90 (92)
67 PRK11169 leucine-responsive tr 52.1 21 0.00045 31.7 4.1 47 72-119 13-60 (164)
68 PF13404 HTH_AsnC-type: AsnC-t 50.1 7.4 0.00016 27.6 0.7 38 20-59 3-40 (42)
69 smart00501 BRIGHT BRIGHT, ARID 50.1 38 0.00083 27.2 5.0 39 77-115 36-87 (93)
70 KOG4329 DNA-binding protein [G 49.3 1E+02 0.0022 32.1 8.9 46 68-113 278-324 (445)
71 KOG2656 DNA methyltransferase 48.3 16 0.00035 37.9 3.1 49 12-61 128-181 (445)
72 PF11626 Rap1_C: TRF2-interact 47.6 18 0.00039 29.2 2.7 17 63-79 43-59 (87)
73 PRK11179 DNA-binding transcrip 46.8 9.7 0.00021 33.4 1.1 45 20-66 9-53 (153)
74 KOG2009 Transcription initiati 43.0 24 0.00052 38.4 3.5 49 66-114 408-456 (584)
75 PRK11169 leucine-responsive tr 41.6 9.5 0.0002 33.9 0.2 46 19-66 13-58 (164)
76 TIGR02937 sigma70-ECF RNA poly 41.2 67 0.0015 25.9 5.2 34 80-114 120-153 (158)
77 PF02260 FATC: FATC domain; I 40.0 11 0.00023 25.7 0.3 17 177-193 15-31 (33)
78 PF13325 MCRS_N: N-terminal re 39.8 60 0.0013 30.8 5.2 44 69-113 1-47 (199)
79 cd08319 Death_RAIDD Death doma 39.4 47 0.001 27.0 3.9 29 75-104 2-30 (83)
80 PF07750 GcrA: GcrA cell cycle 38.9 38 0.00083 30.7 3.7 41 69-110 2-42 (162)
81 PF10545 MADF_DNA_bdg: Alcohol 38.6 34 0.00073 25.9 2.9 26 89-114 29-55 (85)
82 KOG3841 TEF-1 and related tran 37.7 1.5E+02 0.0033 31.1 8.0 58 65-122 74-152 (455)
83 PF09420 Nop16: Ribosome bioge 37.2 72 0.0016 28.7 5.2 47 66-112 113-163 (164)
84 KOG1194 Predicted DNA-binding 35.9 28 0.0006 37.0 2.6 45 13-59 186-230 (534)
85 smart00344 HTH_ASNC helix_turn 35.1 81 0.0018 25.4 4.8 45 73-118 3-48 (108)
86 PRK09652 RNA polymerase sigma 34.9 95 0.0021 26.5 5.4 32 83-115 141-172 (182)
87 KOG0384 Chromodomain-helicase 34.6 28 0.0006 41.0 2.5 77 13-96 1132-1209(1373)
88 cd06171 Sigma70_r4 Sigma70, re 34.4 1.2E+02 0.0026 20.0 4.9 37 74-111 14-50 (55)
89 PF04504 DUF573: Protein of un 34.0 77 0.0017 26.4 4.5 49 68-116 5-66 (98)
90 KOG4468 Polycomb-group transcr 33.5 31 0.00068 37.8 2.6 47 14-62 88-144 (782)
91 PF07638 Sigma70_ECF: ECF sigm 33.0 1E+02 0.0022 27.7 5.5 38 76-114 141-178 (185)
92 PRK11924 RNA polymerase sigma 32.9 90 0.0019 26.6 4.9 29 85-114 140-168 (179)
93 cd08803 Death_ank3 Death domai 31.4 80 0.0017 25.7 4.1 29 75-104 4-32 (84)
94 cd08317 Death_ank Death domain 30.6 64 0.0014 25.6 3.4 29 75-104 4-32 (84)
95 PRK09643 RNA polymerase sigma 29.6 1.1E+02 0.0024 27.3 5.2 30 84-114 148-177 (192)
96 COG1522 Lrp Transcriptional re 29.1 96 0.0021 26.4 4.5 51 73-124 8-59 (154)
97 PRK09641 RNA polymerase sigma 28.8 1.2E+02 0.0025 26.4 5.0 29 85-114 151-179 (187)
98 PRK04217 hypothetical protein; 28.2 1.3E+02 0.0029 25.7 5.1 45 69-115 42-86 (110)
99 TIGR02954 Sig70_famx3 RNA poly 26.7 1.3E+02 0.0029 25.8 5.0 30 85-115 134-163 (169)
100 PF11035 SnAPC_2_like: Small n 26.7 7.2E+02 0.016 25.6 15.6 87 14-114 21-128 (344)
101 PRK12532 RNA polymerase sigma 26.1 1.9E+02 0.0041 25.7 6.0 34 85-119 151-187 (195)
102 PRK09047 RNA polymerase factor 25.5 1.7E+02 0.0037 24.7 5.4 30 85-115 121-150 (161)
103 KOG3554 Histone deacetylase co 25.3 85 0.0018 33.7 4.0 41 69-109 287-328 (693)
104 cd08318 Death_NMPP84 Death dom 24.8 1.1E+02 0.0024 24.6 3.8 26 78-104 10-35 (86)
105 TIGR02939 RpoE_Sigma70 RNA pol 24.8 1.2E+02 0.0025 26.5 4.3 30 85-115 153-182 (190)
106 PF02954 HTH_8: Bacterial regu 24.4 1.6E+02 0.0036 20.3 4.2 35 73-108 5-39 (42)
107 PRK09637 RNA polymerase sigma 24.2 1.6E+02 0.0034 26.2 5.1 30 84-114 120-149 (181)
108 PRK09648 RNA polymerase sigma 24.1 1.7E+02 0.0037 25.8 5.3 30 85-115 154-183 (189)
109 KOG2009 Transcription initiati 24.1 79 0.0017 34.5 3.6 48 10-59 405-452 (584)
110 PRK12512 RNA polymerase sigma 23.4 2.2E+02 0.0048 24.8 5.8 32 85-117 146-177 (184)
111 PRK12531 RNA polymerase sigma 23.2 1.8E+02 0.0039 25.9 5.3 30 85-115 156-185 (194)
112 PRK12529 RNA polymerase sigma 23.1 2.2E+02 0.0048 25.0 5.8 33 85-118 142-174 (178)
113 PRK09645 RNA polymerase sigma 23.1 1.8E+02 0.004 25.0 5.2 29 85-114 133-161 (173)
114 cd08804 Death_ank2 Death domai 23.0 1.2E+02 0.0027 24.4 3.8 31 75-106 4-34 (84)
115 PRK12523 RNA polymerase sigma 22.9 1.9E+02 0.0041 25.1 5.3 32 83-115 132-163 (172)
116 TIGR02943 Sig70_famx1 RNA poly 22.7 1.9E+02 0.0041 25.7 5.4 31 83-114 144-174 (188)
117 TIGR02948 SigW_bacill RNA poly 22.5 1.6E+02 0.0035 25.5 4.8 29 86-115 152-180 (187)
118 PRK12515 RNA polymerase sigma 22.4 2.2E+02 0.0048 25.1 5.6 31 85-116 146-176 (189)
119 PRK09413 IS2 repressor TnpA; R 22.2 1.4E+02 0.0031 25.2 4.2 45 13-61 9-53 (121)
120 PRK09642 RNA polymerase sigma 21.8 2.1E+02 0.0047 24.2 5.3 29 85-114 121-149 (160)
121 smart00344 HTH_ASNC helix_turn 21.2 56 0.0012 26.3 1.5 44 20-65 3-46 (108)
122 PRK11923 algU RNA polymerase s 20.9 1.9E+02 0.0041 25.5 4.9 28 86-114 154-181 (193)
123 COG1522 Lrp Transcriptional re 20.8 45 0.00099 28.4 0.9 45 20-66 8-52 (154)
124 PRK12530 RNA polymerase sigma 20.8 2.1E+02 0.0045 25.5 5.2 28 85-113 149-176 (189)
125 PF05186 Dpy-30: Dpy-30 motif; 20.6 39 0.00084 24.2 0.3 14 323-336 28-41 (42)
126 PF10415 FumaraseC_C: Fumarase 20.6 44 0.00095 25.1 0.6 17 246-263 36-52 (55)
127 cd08777 Death_RIP1 Death Domai 20.2 1.4E+02 0.003 24.3 3.5 30 76-106 3-32 (86)
No 1
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=2.2e-35 Score=277.55 Aligned_cols=122 Identities=60% Similarity=1.177 Sum_probs=116.1
Q ss_pred CCCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcccCCCCcCCCCChhhHHHHHHH
Q 018559 2 GRPPCCDKVGIKKGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTPHEEGMIIHL 81 (354)
Q Consensus 2 gR~pcc~Kp~lkKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L~P~ikkg~WTeEEDelLleL 81 (354)
-|+|||+|+++++++||+|||++|+++|++||..+|..||..++.+|+++|||+||.++|+|.+++++||+|||++|+++
T Consensus 13 ~~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel 92 (249)
T PLN03212 13 KTTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRL 92 (249)
T ss_pred CCCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHH
Confidence 37899999999999999999999999999999999999999986689999999999999999999999999999999999
Q ss_pred HHHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhhHhhhccCCc
Q 018559 82 QALLGNKWAAIASYLPQRTDNDIKNYWNTHLKKKLKKFQSAA 123 (354)
Q Consensus 82 Vk~~G~kWskIAk~LpgRT~~QcKnRW~~lLkkklkK~~~s~ 123 (354)
+..||++|..||++|||||+++||+||+.++++++.+....+
T Consensus 93 ~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p 134 (249)
T PLN03212 93 HRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDP 134 (249)
T ss_pred HHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCC
Confidence 999999999999999999999999999999999988765443
No 2
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=2.3e-35 Score=294.96 Aligned_cols=120 Identities=58% Similarity=1.086 Sum_probs=116.3
Q ss_pred CCCCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcccCCCCcCCCCChhhHHHHHH
Q 018559 1 MGRPPCCDKVGIKKGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTPHEEGMIIH 80 (354)
Q Consensus 1 mgR~pcc~Kp~lkKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L~P~ikkg~WTeEEDelLle 80 (354)
|||++||+|..++||+||+|||++|+++|.+||..+|..||..++.+|+++|||+||.++|+|.+++++||+|||++|++
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 99999999999999999999999999999999999999999988778999999999999999999999999999999999
Q ss_pred HHHHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhhHhhhcc
Q 018559 81 LQALLGNKWAAIASYLPQRTDNDIKNYWNTHLKKKLKKFQ 120 (354)
Q Consensus 81 LVk~~G~kWskIAk~LpgRT~~QcKnRW~~lLkkklkK~~ 120 (354)
++++||++|..||++|||||+++||+||+.+++++++...
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~ 120 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRG 120 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcC
Confidence 9999999999999999999999999999999999887543
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=7e-33 Score=259.51 Aligned_cols=110 Identities=59% Similarity=1.042 Sum_probs=106.7
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcccCCCCcCCCCChhhHHHHHHHHHHhCCcHH
Q 018559 11 GIKKGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTPHEEGMIIHLQALLGNKWA 90 (354)
Q Consensus 11 ~lkKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L~P~ikkg~WTeEEDelLleLVk~~G~kWs 90 (354)
.+.||+||+|||++|+++|++||+++|..||+.+|++|++++||+||.|||+|.+++|.||+|||.+|++|+.+||++|+
T Consensus 6 ~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrWs 85 (238)
T KOG0048|consen 6 ELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRWS 85 (238)
T ss_pred cccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHHH
Confidence 34589999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhCCCCCHHHHHHHHHHhhhhHhhhcc
Q 018559 91 AIASYLPQRTDNDIKNYWNTHLKKKLKKFQ 120 (354)
Q Consensus 91 kIAk~LpgRT~~QcKnRW~~lLkkklkK~~ 120 (354)
.||++|||||++.|||+|+.++++++.+..
T Consensus 86 ~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 86 LIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 999999999999999999999999998876
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.76 E-value=5.4e-19 Score=183.37 Aligned_cols=111 Identities=26% Similarity=0.469 Sum_probs=101.8
Q ss_pred CCCCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcccCCCCcCCCCChhhHHHHHH
Q 018559 1 MGRPPCCDKVGIKKGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTPHEEGMIIH 80 (354)
Q Consensus 1 mgR~pcc~Kp~lkKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L~P~ikkg~WTeEEDelLle 80 (354)
+||.-....|++++|+||.+||.+|+.+|.+||.++|.+|.+.++ +|+..|||+||.|.|+...+++.||-.||++|+.
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 478888899999999999999999999999999999999999999 9999999999999999999999999999999999
Q ss_pred HHHHhC-CcHHHHHhhCCCCCHHHHHHHHHHhh
Q 018559 81 LQALLG-NKWAAIASYLPQRTDNDIKNYWNTHL 112 (354)
Q Consensus 81 LVk~~G-~kWskIAk~LpgRT~~QcKnRW~~lL 112 (354)
+|.+|| ++|.+||.+||+||..|...|=...+
T Consensus 426 ~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~ 458 (939)
T KOG0049|consen 426 AVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLI 458 (939)
T ss_pred HHHHHccchHHHHHHHccccchhHHHHHHHHHH
Confidence 999999 67999999999999966544433333
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.72 E-value=7.1e-18 Score=175.14 Aligned_cols=116 Identities=22% Similarity=0.432 Sum_probs=108.9
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCC---CCceecccCCCccChhhhhhhhhcccCCCCcCCCCChhhHHHHHHHHHHhCCc
Q 018559 12 IKKGPWTPEEDIILVSYIQEHGPG---NWRSVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTPHEEGMIIHLQALLGNK 88 (354)
Q Consensus 12 lkKG~WT~EEDe~L~~lV~kyG~~---nW~~IA~~lg~~Rs~kQCR~RW~n~L~P~ikkg~WTeEEDelLleLVk~~G~k 88 (354)
++...||.|||.+|+.+|+....+ +|++|-..|+ +|+..|...||...|+|++++|+||.+||.+|+.+|.+||.+
T Consensus 303 L~ekeWsEEed~kL~alV~~~~~nShI~w~kVV~Ymp-gr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~k 381 (939)
T KOG0049|consen 303 LSEKEWSEEEDTKLIALVKITSINSHIQWDKVVQYMP-GRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAK 381 (939)
T ss_pred HHhhhcchhhhHHHHHHHHHhhccCccchHHHHHhcC-CcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCcc
Confidence 467899999999999999988554 7999999998 999999999999999999999999999999999999999965
Q ss_pred -HHHHHhhCCCCCHHHHHHHHHHhhhhHhhhccCCcCCCCC
Q 018559 89 -WAAIASYLPQRTDNDIKNYWNTHLKKKLKKFQSAALEPHM 128 (354)
Q Consensus 89 -WskIAk~LpgRT~~QcKnRW~~lLkkklkK~~~s~~Ed~~ 128 (354)
|.+|...+|||++.|||.||.+.|....|++.|+-.++..
T Consensus 382 dw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~l~edeq 422 (939)
T KOG0049|consen 382 DWAKVRQAVPNRSDSQCRERYTNVLNRSAKVERWTLVEDEQ 422 (939)
T ss_pred chhhHHHhcCCccHHHHHHHHHHHHHHhhccCceeecchHH
Confidence 9999999999999999999999999999999999877643
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=99.60 E-value=6.6e-16 Score=115.25 Aligned_cols=60 Identities=40% Similarity=0.856 Sum_probs=55.1
Q ss_pred CCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcccCCCCcCCCCChhhHHHH
Q 018559 17 WTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTPHEEGMI 78 (354)
Q Consensus 17 WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L~P~ikkg~WTeEEDelL 78 (354)
||+|||++|+.+|..|| .+|..||..|| .|++.+|+.||.++|.|.+++++||.+||.+|
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 99999999999999999 59999999997 89999999999999999999999999999987
No 7
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.51 E-value=9.4e-15 Score=150.58 Aligned_cols=108 Identities=29% Similarity=0.521 Sum_probs=103.2
Q ss_pred CCCCccCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcccCCCCcCCCCChhhHHHHHHHHHHhCCc
Q 018559 9 KVGIKKGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTPHEEGMIIHLQALLGNK 88 (354)
Q Consensus 9 Kp~lkKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L~P~ikkg~WTeEEDelLleLVk~~G~k 88 (354)
...++.|.|+..||+.|..+|+.+|+.+|.+||..+. .|+++||+.||.++++|.+++..|+.+||..|+.+..++|.+
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ 93 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch
Confidence 3456889999999999999999999999999999998 699999999999999999999999999999999999999999
Q ss_pred HHHHHhhCCCCCHHHHHHHHHHhhhhHhh
Q 018559 89 WAAIASYLPQRTDNDIKNYWNTHLKKKLK 117 (354)
Q Consensus 89 WskIAk~LpgRT~~QcKnRW~~lLkkklk 117 (354)
|..||.++++||..+|.+||...+....+
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 99999999999999999999999988776
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.49 E-value=1e-14 Score=148.96 Aligned_cols=109 Identities=25% Similarity=0.538 Sum_probs=103.5
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcccCCCCcCCCCChhhHHHHHHHHHHhCCcHH
Q 018559 11 GIKKGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTPHEEGMIIHLQALLGNKWA 90 (354)
Q Consensus 11 ~lkKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L~P~ikkg~WTeEEDelLleLVk~~G~kWs 90 (354)
-++.|.|+.-||+.|..+|.+||.+.|.+|++.+. ..+++||+.||..+|+|.|++..|+.+||.+|+++.+.+...|.
T Consensus 4 ~~kggvwrntEdeilkaav~kyg~nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwr 82 (617)
T KOG0050|consen 4 EIKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWR 82 (617)
T ss_pred EEecceecccHHHHHHHHHHHcchHHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccc
Confidence 46789999999999999999999999999999997 89999999999999999999999999999999999999999999
Q ss_pred HHHhhCCCCCHHHHHHHHHHhhhhHhhhccC
Q 018559 91 AIASYLPQRTDNDIKNYWNTHLKKKLKKFQS 121 (354)
Q Consensus 91 kIAk~LpgRT~~QcKnRW~~lLkkklkK~~~ 121 (354)
.|+..| ||+.+||-.||..++........-
T Consensus 83 tIa~i~-gr~~~qc~eRy~~ll~~~~s~~~~ 112 (617)
T KOG0050|consen 83 TIADIM-GRTSQQCLERYNNLLDVYVSYHYH 112 (617)
T ss_pred hHHHHh-hhhHHHHHHHHHHHHHHHHhhhcc
Confidence 999999 999999999999999888766554
No 9
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.39 E-value=3e-13 Score=141.14 Aligned_cols=106 Identities=28% Similarity=0.597 Sum_probs=93.8
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcccCCC--CcCCCCChhhHHHHHHHHH-------
Q 018559 13 KKGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYLRPG--IKRGNFTPHEEGMIIHLQA------- 83 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L~P~--ikkg~WTeEEDelLleLVk------- 83 (354)
.+|.||+||++.|..+|.++| +.|..|+..|+ |.+..|++||++|..++ .+++.||.+|+++|+++|.
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 69999999987 99999999999999988 4899999999999999995
Q ss_pred Hh-------------------CCcHHHHHhhCCCCCHHHHHHHHHHhhhhH-hhhccC
Q 018559 84 LL-------------------GNKWAAIASYLPQRTDNDIKNYWNTHLKKK-LKKFQS 121 (354)
Q Consensus 84 ~~-------------------G~kWskIAk~LpgRT~~QcKnRW~~lLkkk-lkK~~~ 121 (354)
.+ +..|..|++.+..|+..|||.+|+.++... ..++++
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~~~ 517 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKRQE 517 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhcccc
Confidence 23 235999999999999999999999888654 334443
No 10
>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=99.38 E-value=2.8e-13 Score=101.06 Aligned_cols=57 Identities=30% Similarity=0.535 Sum_probs=50.4
Q ss_pred CChhhHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhhHhhhccCCcCCC
Q 018559 70 FTPHEEGMIIHLQALLGNKWAAIASYLPQRTDNDIKNYWNTHLKKKLKKFQSAALEP 126 (354)
Q Consensus 70 WTeEEDelLleLVk~~G~kWskIAk~LpgRT~~QcKnRW~~lLkkklkK~~~s~~Ed 126 (354)
||.+||.+|+.+|..||.+|..||.+|+.||+.+|++||+.+|++.+++.+|+..|+
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd 57 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEED 57 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHH
Confidence 999999999999999999999999999779999999999999999999999887654
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=99.35 E-value=1.1e-12 Score=94.64 Aligned_cols=46 Identities=26% Similarity=0.533 Sum_probs=42.1
Q ss_pred CCCCChhhHHHHHHHHHHhCCc-HHHHHhhCC-CCCHHHHHHHHHHhh
Q 018559 67 RGNFTPHEEGMIIHLQALLGNK-WAAIASYLP-QRTDNDIKNYWNTHL 112 (354)
Q Consensus 67 kg~WTeEEDelLleLVk~~G~k-WskIAk~Lp-gRT~~QcKnRW~~lL 112 (354)
+++||++||.+|+++|.+||.. |..||..|| +||..||++||+.++
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 5799999999999999999988 999999999 999999999999875
No 12
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.35 E-value=6.5e-13 Score=126.05 Aligned_cols=67 Identities=19% Similarity=0.370 Sum_probs=62.5
Q ss_pred CCCcCCCCChhhHHHHHHHHHHhC-CcHHHHHhhC-CCCCHHHHHHHHHHhhhhHhhhccCCcCCCCCC
Q 018559 63 PGIKRGNFTPHEEGMIIHLQALLG-NKWAAIASYL-PQRTDNDIKNYWNTHLKKKLKKFQSAALEPHMP 129 (354)
Q Consensus 63 P~ikkg~WTeEEDelLleLVk~~G-~kWskIAk~L-pgRT~~QcKnRW~~lLkkklkK~~~s~~Ed~~~ 129 (354)
+++++++||+|||++|+++|++|| .+|..||+.+ ++||+.|||.||.++|++.++++.|+.+|+..+
T Consensus 21 ~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lL 89 (249)
T PLN03212 21 MGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLI 89 (249)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHH
Confidence 478899999999999999999999 5799999998 699999999999999999999999999988653
No 13
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.31 E-value=4.4e-13 Score=96.65 Aligned_cols=48 Identities=38% Similarity=0.741 Sum_probs=43.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhccc
Q 018559 14 KGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYL 61 (354)
Q Consensus 14 KG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L 61 (354)
|++||+|||++|+++|.+||.++|..||..|+.+|++.||+.||+++|
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 689999999999999999998679999999988999999999999875
No 14
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.28 E-value=1.1e-12 Score=123.34 Aligned_cols=68 Identities=19% Similarity=0.273 Sum_probs=62.3
Q ss_pred CCCcCCCCChhhHHHHHHHHHHhCCc-HHHHHhhCC-CCCHHHHHHHHHHhhhhHhhhccCCcCCCCCCC
Q 018559 63 PGIKRGNFTPHEEGMIIHLQALLGNK-WAAIASYLP-QRTDNDIKNYWNTHLKKKLKKFQSAALEPHMPQ 130 (354)
Q Consensus 63 P~ikkg~WTeEEDelLleLVk~~G~k-WskIAk~Lp-gRT~~QcKnRW~~lLkkklkK~~~s~~Ed~~~~ 130 (354)
+.+.+|+||+|||.+|+.+|++||.. |..|++.++ +|++++||-||.++|++.++++.|+.+|+.++.
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii 74 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLII 74 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHH
Confidence 34557999999999999999999954 999999999 999999999999999999999999998886654
No 15
>PLN03091 hypothetical protein; Provisional
Probab=99.21 E-value=7.9e-12 Score=126.55 Aligned_cols=66 Identities=18% Similarity=0.395 Sum_probs=61.5
Q ss_pred CCCcCCCCChhhHHHHHHHHHHhCC-cHHHHHhhC-CCCCHHHHHHHHHHhhhhHhhhccCCcCCCCC
Q 018559 63 PGIKRGNFTPHEEGMIIHLQALLGN-KWAAIASYL-PQRTDNDIKNYWNTHLKKKLKKFQSAALEPHM 128 (354)
Q Consensus 63 P~ikkg~WTeEEDelLleLVk~~G~-kWskIAk~L-pgRT~~QcKnRW~~lLkkklkK~~~s~~Ed~~ 128 (354)
+.+++++||+|||++|+++|.+||. +|..||+.+ ++|+++|||.||.++|++.++++.|+.+|+..
T Consensus 10 qklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~l 77 (459)
T PLN03091 10 QKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENL 77 (459)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHH
Confidence 4788999999999999999999995 699999988 59999999999999999999999999998853
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.18 E-value=5.3e-11 Score=82.53 Aligned_cols=47 Identities=38% Similarity=0.740 Sum_probs=44.5
Q ss_pred CCCCChhhHHHHHHHHHHhC-CcHHHHHhhCCCCCHHHHHHHHHHhhh
Q 018559 67 RGNFTPHEEGMIIHLQALLG-NKWAAIASYLPQRTDNDIKNYWNTHLK 113 (354)
Q Consensus 67 kg~WTeEEDelLleLVk~~G-~kWskIAk~LpgRT~~QcKnRW~~lLk 113 (354)
+++||++||.+|+.++..|| .+|..||..|++||+.+|+.||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998765
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=99.05 E-value=4.5e-10 Score=76.85 Aligned_cols=44 Identities=30% Similarity=0.604 Sum_probs=41.8
Q ss_pred CCChhhHHHHHHHHHHhC-CcHHHHHhhCCCCCHHHHHHHHHHhh
Q 018559 69 NFTPHEEGMIIHLQALLG-NKWAAIASYLPQRTDNDIKNYWNTHL 112 (354)
Q Consensus 69 ~WTeEEDelLleLVk~~G-~kWskIAk~LpgRT~~QcKnRW~~lL 112 (354)
+||.+||.+|+.++..|| .+|..||..|++||..+|++||..++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999998763
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.98 E-value=3.2e-10 Score=78.60 Aligned_cols=48 Identities=38% Similarity=0.836 Sum_probs=44.8
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcccC
Q 018559 14 KGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYLR 62 (354)
Q Consensus 14 KG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L~ 62 (354)
+++||++||.+|+.++..||..+|..||..++ +|++.+|+.||.+++.
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 47899999999999999999779999999998 9999999999998764
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.83 E-value=4.2e-09 Score=110.52 Aligned_cols=112 Identities=24% Similarity=0.274 Sum_probs=92.3
Q ss_pred ccCCCCHHHHHHHHHHHHHhC----C-----------CC--------CceecccCCCccChhhhhh---hhhcccCCCCc
Q 018559 13 KKGPWTPEEDIILVSYIQEHG----P-----------GN--------WRSVPTNTGLLRCSKSCRL---RWTNYLRPGIK 66 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~kyG----~-----------~n--------W~~IA~~lg~~Rs~kQCR~---RW~n~L~P~ik 66 (354)
+-+.|+++||.+|...|..|- - .. |..|...|+ .|+....+. |-++.+.+ .
T Consensus 307 ~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~--~ 383 (607)
T KOG0051|consen 307 NLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFEN--K 383 (607)
T ss_pred hhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCcccc--c
Confidence 348999999999999998871 1 12 566777788 499888877 43344443 8
Q ss_pred CCCCChhhHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhhHh--hhccCCcCCCCC
Q 018559 67 RGNFTPHEEGMIIHLQALLGNKWAAIASYLPQRTDNDIKNYWNTHLKKKL--KKFQSAALEPHM 128 (354)
Q Consensus 67 kg~WTeEEDelLleLVk~~G~kWskIAk~LpgRT~~QcKnRW~~lLkkkl--kK~~~s~~Ed~~ 128 (354)
+|.||++|++.|..+|.++|+.|..|+..| ||.+.+|++||+++++..- +++.|+..|...
T Consensus 384 rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~ 446 (607)
T KOG0051|consen 384 RGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEK 446 (607)
T ss_pred cCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHH
Confidence 999999999999999999999999999999 9999999999999998874 788888766533
No 20
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.83 E-value=2e-09 Score=73.61 Aligned_cols=45 Identities=40% Similarity=0.838 Sum_probs=42.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhccc
Q 018559 16 PWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYL 61 (354)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L 61 (354)
+||++||..|+.++..||..+|..||..++ +|++.+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~-~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcC-CCCHHHHHHHHHHhC
Confidence 599999999999999999779999999998 899999999998753
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=98.27 E-value=1.1e-07 Score=98.88 Aligned_cols=98 Identities=27% Similarity=0.599 Sum_probs=86.2
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcccCC--CCcCCCCChhhHHHHHHHHHHhC----
Q 018559 13 KKGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYLRP--GIKRGNFTPHEEGMIIHLQALLG---- 86 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L~P--~ikkg~WTeEEDelLleLVk~~G---- 86 (354)
.+|.||++|++.|..++..+| +.|..|...++ |-+..||+||++|..+ .+++++|+.||+.+|...|...-
T Consensus 290 ~~~~wt~e~~~eL~~~~~~~~-~~w~~ig~~~~--rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e~~~~~~ 366 (512)
T COG5147 290 QRGKWTKEEEQELAKLVVEHG-GSWTEIGKLLG--RMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNEMRLEAQ 366 (512)
T ss_pred hhccCcccccccccccccccc-chhhHhhhhhc--cCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHHHHHHHh
Confidence 479999999999999999999 59999998765 9999999999999988 57888999999999999887432
Q ss_pred ----CcHHHHHhhCCCCCHHHHHHHHHHhhh
Q 018559 87 ----NKWAAIASYLPQRTDNDIKNYWNTHLK 113 (354)
Q Consensus 87 ----~kWskIAk~LpgRT~~QcKnRW~~lLk 113 (354)
..|..|+..+++|...+|+..+..+..
T Consensus 367 ~~~~~~~~li~~~~~~~~~~~~~~~~~~~~~ 397 (512)
T COG5147 367 QSSRILWLLIAQNIRNRLQHHCRDKYGVLIS 397 (512)
T ss_pred hhhhhhHHHHHHhhhccccCCCCCccccccc
Confidence 349999999999999999887766554
No 22
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.85 E-value=1e-05 Score=83.95 Aligned_cols=62 Identities=27% Similarity=0.436 Sum_probs=58.4
Q ss_pred CcCCCCChhhHHHHHHHHHHhCC-cHHHHHhhCCCCCHHHHHHHHHHhhhhHhhhccCCcCCC
Q 018559 65 IKRGNFTPHEEGMIIHLQALLGN-KWAAIASYLPQRTDNDIKNYWNTHLKKKLKKFQSAALEP 126 (354)
Q Consensus 65 ikkg~WTeEEDelLleLVk~~G~-kWskIAk~LpgRT~~QcKnRW~~lLkkklkK~~~s~~Ed 126 (354)
++.|-|+.-||+.|..+|.+||. .|++|++.++-.|+.||++||..++.+.+++..|+..++
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eed 67 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREED 67 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHH
Confidence 56789999999999999999994 599999999999999999999999999999999998876
No 23
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.73 E-value=2.7e-05 Score=59.09 Aligned_cols=49 Identities=12% Similarity=0.211 Sum_probs=43.7
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCC---ceecccCCCcc-Chhhhhhhhhccc
Q 018559 13 KKGPWTPEEDIILVSYIQEHGPGNW---RSVPTNTGLLR-CSKSCRLRWTNYL 61 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~kyG~~nW---~~IA~~lg~~R-s~kQCR~RW~n~L 61 (354)
++-.||+||..+++++|+.+|.++| +.|++.|+..| +..||+.+++.|.
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 3568999999999999999998899 99999887567 9999999998764
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.39 E-value=7.4e-05 Score=76.29 Aligned_cols=49 Identities=24% Similarity=0.641 Sum_probs=46.0
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhccc
Q 018559 12 IKKGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYL 61 (354)
Q Consensus 12 lkKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L 61 (354)
+-...||.+|+-+|++++..||.|||..||.++| .|+..+|+++|.+++
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHH
Confidence 4567899999999999999999999999999999 999999999999865
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.34 E-value=0.00032 Score=71.74 Aligned_cols=49 Identities=22% Similarity=0.419 Sum_probs=44.4
Q ss_pred CcCCCCChhhHHHHHHHHHHhC-CcHHHHHhhCCCCCHHHHHHHHHHhhh
Q 018559 65 IKRGNFTPHEEGMIIHLQALLG-NKWAAIASYLPQRTDNDIKNYWNTHLK 113 (354)
Q Consensus 65 ikkg~WTeEEDelLleLVk~~G-~kWskIAk~LpgRT~~QcKnRW~~lLk 113 (354)
+-...||.+|+.+|++++..|| ++|..||.++..||..+|+.+|.++.-
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHh
Confidence 4456899999999999999999 889999999999999999999986653
No 26
>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=97.31 E-value=0.00062 Score=51.73 Aligned_cols=46 Identities=15% Similarity=0.235 Sum_probs=40.6
Q ss_pred CCCCChhhHHHHHHHHHHhCC-cH---HHHHhhCC-CC-CHHHHHHHHHHhh
Q 018559 67 RGNFTPHEEGMIIHLQALLGN-KW---AAIASYLP-QR-TDNDIKNYWNTHL 112 (354)
Q Consensus 67 kg~WTeEEDelLleLVk~~G~-kW---skIAk~Lp-gR-T~~QcKnRW~~lL 112 (354)
+-.||+||..++++++..||. .| ..|+..|. .| |..||+.+.+.+.
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 457999999999999999996 89 99999884 45 9999999988764
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=97.28 E-value=0.00037 Score=63.15 Aligned_cols=53 Identities=17% Similarity=0.318 Sum_probs=46.2
Q ss_pred cCCCCChhhHHHHHHHHHHh---CCc----HHHHHhhCCCCCHHHHHHHHHHhhhhHhhhc
Q 018559 66 KRGNFTPHEEGMIIHLQALL---GNK----WAAIASYLPQRTDNDIKNYWNTHLKKKLKKF 119 (354)
Q Consensus 66 kkg~WTeEEDelLleLVk~~---G~k----WskIAk~LpgRT~~QcKnRW~~lLkkklkK~ 119 (354)
+...||.|||.+|.+.|-.| |.. +..++..| +||+.+|.-||+.++|+.+...
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 46789999999999999888 432 88999999 9999999999999999886544
No 28
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.22 E-value=0.00094 Score=62.47 Aligned_cols=100 Identities=21% Similarity=0.423 Sum_probs=73.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCceecccCC--CccChhhhhhhhhccc-CCCC--------------------cCCCCCh
Q 018559 16 PWTPEEDIILVSYIQEHGPGNWRSVPTNTG--LLRCSKSCRLRWTNYL-RPGI--------------------KRGNFTP 72 (354)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg--~~Rs~kQCR~RW~n~L-~P~i--------------------kkg~WTe 72 (354)
+|++++|-.|+.+|..-. +-..|+..+. ..-|-..+.+||+..| +|.+ .+-+||.
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 699999999999998765 5555554433 2346778888999876 3333 3568999
Q ss_pred hhHHHHHHHHHHhCC---cHHHHH----h-hCCCCCHHHHHHHHHHhhhhHhh
Q 018559 73 HEEGMIIHLQALLGN---KWAAIA----S-YLPQRTDNDIKNYWNTHLKKKLK 117 (354)
Q Consensus 73 EEDelLleLVk~~G~---kWskIA----k-~LpgRT~~QcKnRW~~lLkkklk 117 (354)
+|+++|......... .+.+|= . +-++||+.++.++|..+.+..+-
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 999999997766543 377772 2 33889999999999977776654
No 29
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.94 E-value=0.00092 Score=52.83 Aligned_cols=50 Identities=32% Similarity=0.462 Sum_probs=35.2
Q ss_pred CCCCChhhHHHHHHHHHH------hC--C------cHHHHHhhC----CCCCHHHHHHHHHHhhhhHh
Q 018559 67 RGNFTPHEEGMIIHLQAL------LG--N------KWAAIASYL----PQRTDNDIKNYWNTHLKKKL 116 (354)
Q Consensus 67 kg~WTeEEDelLleLVk~------~G--~------kWskIAk~L----pgRT~~QcKnRW~~lLkkkl 116 (354)
+..||.+|...||+++.. ++ . -|..||..| ..||+.||++||.++.+.-.
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 357999999999999877 22 1 399999987 36999999999999666543
No 30
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.77 E-value=0.00066 Score=70.17 Aligned_cols=46 Identities=22% Similarity=0.578 Sum_probs=43.1
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcc
Q 018559 13 KKGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNY 60 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~ 60 (354)
....||.+|..+|++.|+.|| .+|.+||.++| +|+..||..||.++
T Consensus 278 ~dk~WS~qE~~LLLEGIe~yg-DdW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYG-DDWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhh-hhHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 567999999999999999999 59999999999 99999999999874
No 31
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.76 E-value=0.0019 Score=67.77 Aligned_cols=48 Identities=15% Similarity=0.282 Sum_probs=43.9
Q ss_pred cCCCCChhhHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHhhh
Q 018559 66 KRGNFTPHEEGMIIHLQALLGNKWAAIASYLPQRTDNDIKNYWNTHLK 113 (354)
Q Consensus 66 kkg~WTeEEDelLleLVk~~G~kWskIAk~LpgRT~~QcKnRW~~lLk 113 (354)
-+..||.+|..+|++++..||..|.+||.++.+||..||-.+|.++--
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~LPi 299 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRLPI 299 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhcCc
Confidence 356899999999999999999999999999999999999999976543
No 32
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.71 E-value=0.0019 Score=66.86 Aligned_cols=45 Identities=13% Similarity=0.249 Sum_probs=42.4
Q ss_pred CCCCChhhHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHh
Q 018559 67 RGNFTPHEEGMIIHLQALLGNKWAAIASYLPQRTDNDIKNYWNTH 111 (354)
Q Consensus 67 kg~WTeEEDelLleLVk~~G~kWskIAk~LpgRT~~QcKnRW~~l 111 (354)
..+||.+|..+|++.+..||..|.+||+++..||..||--||.++
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 348999999999999999999999999999999999999999765
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=96.71 E-value=0.0024 Score=49.80 Aligned_cols=51 Identities=20% Similarity=0.393 Sum_probs=32.9
Q ss_pred CCCCChhhHHHHHHHHHHhC--------Cc-HHHHHhhCC-CCCHHHHHHHHHHhhhhHhh
Q 018559 67 RGNFTPHEEGMIIHLQALLG--------NK-WAAIASYLP-QRTDNDIKNYWNTHLKKKLK 117 (354)
Q Consensus 67 kg~WTeEEDelLleLVk~~G--------~k-WskIAk~Lp-gRT~~QcKnRW~~lLkkklk 117 (354)
+.+||.+||..|++.|+.+. +. |.++++.-+ .+|-...|+||...|+.+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~ 62 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR 62 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence 45899999999999997652 22 999999877 89999999999999887654
No 34
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.62 E-value=0.0016 Score=68.34 Aligned_cols=48 Identities=23% Similarity=0.598 Sum_probs=43.9
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcc
Q 018559 11 GIKKGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNY 60 (354)
Q Consensus 11 ~lkKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~ 60 (354)
.--++.||.+|+.+|+++|+.|| .+|.+||.+++ .|+..||..++.+.
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~-ddW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYG-DDWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhc-ccHHHHHhccC-CCCHHHHHHHHHhc
Confidence 34578999999999999999999 59999999999 99999999998874
No 35
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.22 E-value=0.006 Score=55.91 Aligned_cols=51 Identities=16% Similarity=0.351 Sum_probs=43.3
Q ss_pred CcCCCCChhhHHHHHHHHHHhCCc-------HHHHHhhCCCCCHHHHHHHHHHhhhhHh
Q 018559 65 IKRGNFTPHEEGMIIHLQALLGNK-------WAAIASYLPQRTDNDIKNYWNTHLKKKL 116 (354)
Q Consensus 65 ikkg~WTeEEDelLleLVk~~G~k-------WskIAk~LpgRT~~QcKnRW~~lLkkkl 116 (354)
.+...||.|+|.+|-+.|-.|+.. ...++..| +||..+|..||+.++++.+
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Y 60 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQY 60 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHH
Confidence 356789999999999999888732 67778888 9999999999999999753
No 36
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.85 E-value=0.0025 Score=50.35 Aligned_cols=47 Identities=28% Similarity=0.625 Sum_probs=32.7
Q ss_pred CCCCHHHHHHHHHHHHH--h----C--CC-----CCceecccC---CCccChhhhhhhhhccc
Q 018559 15 GPWTPEEDIILVSYIQE--H----G--PG-----NWRSVPTNT---GLLRCSKSCRLRWTNYL 61 (354)
Q Consensus 15 G~WT~EEDe~L~~lV~k--y----G--~~-----nW~~IA~~l---g~~Rs~kQCR~RW~n~L 61 (354)
-.||.+|...|+.++.. + + .. -|..||..| |..|++.||+.||.+..
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 47999999999999877 2 1 11 399999876 56799999999998753
No 37
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.56 E-value=0.03 Score=43.59 Aligned_cols=51 Identities=25% Similarity=0.461 Sum_probs=41.6
Q ss_pred CCCCChhhHHHHHHHHHHh-----C------------CcHHHHHhhC-----CCCCHHHHHHHHHHhhhhHhh
Q 018559 67 RGNFTPHEEGMIIHLQALL-----G------------NKWAAIASYL-----PQRTDNDIKNYWNTHLKKKLK 117 (354)
Q Consensus 67 kg~WTeEEDelLleLVk~~-----G------------~kWskIAk~L-----pgRT~~QcKnRW~~lLkkklk 117 (354)
...||.+|...|++++.+| | .-|..|+..| +.||..+|+.+|.++....-+
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk 74 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKK 74 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHH
Confidence 4689999999999999886 2 1299998876 369999999999988765433
No 38
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.14 E-value=0.024 Score=56.77 Aligned_cols=47 Identities=26% Similarity=0.489 Sum_probs=42.8
Q ss_pred CCCCChhhHHHHHHHHHHhC-CcHHHHHhhCCCCCHHHHHHHHHHhhh
Q 018559 67 RGNFTPHEEGMIIHLQALLG-NKWAAIASYLPQRTDNDIKNYWNTHLK 113 (354)
Q Consensus 67 kg~WTeEEDelLleLVk~~G-~kWskIAk~LpgRT~~QcKnRW~~lLk 113 (354)
-..|+.+|+.+|++...-+| ++|..||.+++.|+...||.+|..+..
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 34799999999999999999 789999999999999999999986654
No 39
>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=95.11 E-value=0.012 Score=45.94 Aligned_cols=51 Identities=29% Similarity=0.540 Sum_probs=32.7
Q ss_pred cCCCCHHHHHHHHHHHHHhCC------CC--CceecccCCCccChhhhhhhhhcccCCC
Q 018559 14 KGPWTPEEDIILVSYIQEHGP------GN--WRSVPTNTGLLRCSKSCRLRWTNYLRPG 64 (354)
Q Consensus 14 KG~WT~EEDe~L~~lV~kyG~------~n--W~~IA~~lg~~Rs~kQCR~RW~n~L~P~ 64 (354)
+-+||.|||+.|+..|..+.. +| |..++..-++.++-.+-|+||.+.|.+.
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 457999999999999976632 12 8888887666788899999999988754
No 40
>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=94.77 E-value=0.0059 Score=55.47 Aligned_cols=50 Identities=28% Similarity=0.654 Sum_probs=41.8
Q ss_pred CccCCCCHHHHHHHHHHHHHhCC------CCCceecccCCCccChhhhhhhhhcccCC
Q 018559 12 IKKGPWTPEEDIILVSYIQEHGP------GNWRSVPTNTGLLRCSKSCRLRWTNYLRP 63 (354)
Q Consensus 12 lkKG~WT~EEDe~L~~lV~kyG~------~nW~~IA~~lg~~Rs~kQCR~RW~n~L~P 63 (354)
.+.-.||.|||.+|.+.|-+|-. ..+..|+..++ ||+..|.-||..++..
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 46779999999999999999831 13788888876 9999999999988763
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=94.24 E-value=0.015 Score=58.08 Aligned_cols=48 Identities=19% Similarity=0.563 Sum_probs=44.7
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcccC
Q 018559 14 KGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYLR 62 (354)
Q Consensus 14 KG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L~ 62 (354)
---|+..|+.+|+++.+-.|-+||..||..+| .|+...|+.+|..++.
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 45699999999999999999999999999999 9999999999988664
No 42
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=93.99 E-value=0.15 Score=58.11 Aligned_cols=102 Identities=12% Similarity=0.267 Sum_probs=77.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhh-------hhhcc----------------------------
Q 018559 16 PWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRL-------RWTNY---------------------------- 60 (354)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~-------RW~n~---------------------------- 60 (354)
.|+.-+=..++.+..+||..+-..||..|. +++...++. ||..+
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 588888888888999999888899999986 777766653 21110
Q ss_pred --------------c-CCCCcCCCCChhhHHHHHHHHHHhC-CcHHHHHhh------------CCCCCHHHHHHHHHHhh
Q 018559 61 --------------L-RPGIKRGNFTPHEEGMIIHLQALLG-NKWAAIASY------------LPQRTDNDIKNYWNTHL 112 (354)
Q Consensus 61 --------------L-~P~ikkg~WTeEEDelLleLVk~~G-~kWskIAk~------------LpgRT~~QcKnRW~~lL 112 (354)
+ .+..++..+|++||..|+-++.+|| .+|..|-.. |..||+..+..|...++
T Consensus 905 ~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~ 984 (1033)
T PLN03142 905 KKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI 984 (1033)
T ss_pred HHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence 0 0122344699999999999999999 679998432 34799999999999999
Q ss_pred hhHhhh
Q 018559 113 KKKLKK 118 (354)
Q Consensus 113 kkklkK 118 (354)
+-..+.
T Consensus 985 ~~~~~e 990 (1033)
T PLN03142 985 RLIEKE 990 (1033)
T ss_pred HHHHHH
Confidence 876443
No 43
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=93.46 E-value=0.024 Score=44.14 Aligned_cols=49 Identities=24% Similarity=0.448 Sum_probs=39.2
Q ss_pred ccCCCCHHHHHHHHHHHHHhCC----------------CCCceecccC----CCccChhhhhhhhhccc
Q 018559 13 KKGPWTPEEDIILVSYIQEHGP----------------GNWRSVPTNT----GLLRCSKSCRLRWTNYL 61 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~kyG~----------------~nW~~IA~~l----g~~Rs~kQCR~RW~n~L 61 (354)
++..||++|...|+++|.+|.. .-|..|+..+ +..|+..||+.+|.++.
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 4678999999999999998821 1399998665 22699999999998864
No 44
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=91.97 E-value=0.044 Score=50.28 Aligned_cols=49 Identities=24% Similarity=0.547 Sum_probs=38.0
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCC------CceecccCCCccChhhhhhhhhcccC
Q 018559 12 IKKGPWTPEEDIILVSYIQEHGPGN------WRSVPTNTGLLRCSKSCRLRWTNYLR 62 (354)
Q Consensus 12 lkKG~WT~EEDe~L~~lV~kyG~~n------W~~IA~~lg~~Rs~kQCR~RW~n~L~ 62 (354)
.+...||.|||.+|.+.|-.|+... ...++..+. |++.+|..||..+++
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 4678999999999999999986432 445556554 999999999965553
No 45
>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=91.03 E-value=0.63 Score=37.07 Aligned_cols=46 Identities=30% Similarity=0.538 Sum_probs=35.6
Q ss_pred CCChhhHHHHHHHHHHh---CC----------cHHHHHhhC---C--CCCHHHHHHHHHHhhhh
Q 018559 69 NFTPHEEGMIIHLQALL---GN----------KWAAIASYL---P--QRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 69 ~WTeEEDelLleLVk~~---G~----------kWskIAk~L---p--gRT~~QcKnRW~~lLkk 114 (354)
.||++++..|++++.+. |+ .|..|+..| + ..|..||++||..+.+.
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 49999999999997553 21 299998877 2 35789999999877664
No 46
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=90.78 E-value=0.52 Score=40.82 Aligned_cols=54 Identities=20% Similarity=0.349 Sum_probs=42.2
Q ss_pred CCcCCCCChhhHHHHHHHHHHhCC----cHHHHHhhC------------CCCCHHHHHHHHHHhhhhHhh
Q 018559 64 GIKRGNFTPHEEGMIIHLQALLGN----KWAAIASYL------------PQRTDNDIKNYWNTHLKKKLK 117 (354)
Q Consensus 64 ~ikkg~WTeEEDelLleLVk~~G~----kWskIAk~L------------pgRT~~QcKnRW~~lLkkklk 117 (354)
..++..||++||.-|+-++.+||- .|..|-..+ ..||+..+..|-..+++-..+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~K 115 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIEK 115 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHHC
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHHH
Confidence 456779999999999999999996 698885532 469999999999999876543
No 47
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=90.75 E-value=0.46 Score=46.99 Aligned_cols=50 Identities=18% Similarity=0.267 Sum_probs=40.4
Q ss_pred CCCCChhhHHHHHHHHHHh----------CCcHHHHHhhC----CCCCHHHHHHHHHHhhhhHh
Q 018559 67 RGNFTPHEEGMIIHLQALL----------GNKWAAIASYL----PQRTDNDIKNYWNTHLKKKL 116 (354)
Q Consensus 67 kg~WTeEEDelLleLVk~~----------G~kWskIAk~L----pgRT~~QcKnRW~~lLkkkl 116 (354)
...|+.+|-..||++.... +.-|..||+.+ --||+.|||.+|.++.++.-
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk 117 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYK 117 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 4689999999999987653 23499999855 35999999999998887643
No 48
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=90.48 E-value=0.21 Score=51.29 Aligned_cols=86 Identities=19% Similarity=0.306 Sum_probs=63.4
Q ss_pred CCceecccCCCccChhhhhhhhhcccCCC-------------------------CcCCCCChhhHHHHHHHHHHhCCcHH
Q 018559 36 NWRSVPTNTGLLRCSKSCRLRWTNYLRPG-------------------------IKRGNFTPHEEGMIIHLQALLGNKWA 90 (354)
Q Consensus 36 nW~~IA~~lg~~Rs~kQCR~RW~n~L~P~-------------------------ikkg~WTeEEDelLleLVk~~G~kWs 90 (354)
.|.-++-..+ -|...--..+|....++. ++...||.+|-+.|.+|.+.|.-+|-
T Consensus 75 ~W~w~pFtn~-aRkD~~~l~HWvr~~d~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf~ 153 (445)
T KOG2656|consen 75 PWKWVPFTNS-ARKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRFF 153 (445)
T ss_pred CceeeccCCc-cccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeEE
Confidence 5666654333 465555566666653321 12346999999999999999999999
Q ss_pred HHHhh-----CCC-CCHHHHHHHHHHhhhhHhhhccCC
Q 018559 91 AIASY-----LPQ-RTDNDIKNYWNTHLKKKLKKFQSA 122 (354)
Q Consensus 91 kIAk~-----Lpg-RT~~QcKnRW~~lLkkklkK~~~s 122 (354)
-||.. ++. ||-.++|.||+...+..++-...+
T Consensus 154 VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~s 191 (445)
T KOG2656|consen 154 VIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARAPS 191 (445)
T ss_pred EEeeccchhhccccccHHHHHHHHHHHHHHHHHccCCC
Confidence 99865 555 999999999999999887665543
No 49
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=88.78 E-value=0.66 Score=47.67 Aligned_cols=48 Identities=19% Similarity=0.288 Sum_probs=43.8
Q ss_pred CCCChhhHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhhH
Q 018559 68 GNFTPHEEGMIIHLQALLGNKWAAIASYLPQRTDNDIKNYWNTHLKKK 115 (354)
Q Consensus 68 g~WTeEEDelLleLVk~~G~kWskIAk~LpgRT~~QcKnRW~~lLkkk 115 (354)
.+|+.+|-++...+...+|..+..|+..+|.|...|||.+|.+--+..
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~n 413 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKVN 413 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhhC
Confidence 379999999999999999999999999999999999999998665543
No 50
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=84.57 E-value=2.1 Score=45.04 Aligned_cols=48 Identities=17% Similarity=0.328 Sum_probs=43.2
Q ss_pred CCCCChhhHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 67 RGNFTPHEEGMIIHLQALLGNKWAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 67 kg~WTeEEDelLleLVk~~G~kWskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
...||.||-.++-+++..||.++.+|-+.||.|+-..+..+|+..-+.
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~ 234 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKT 234 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHH
Confidence 457999999999999999999999999999999999999988765543
No 51
>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=82.96 E-value=3.1 Score=29.87 Aligned_cols=42 Identities=26% Similarity=0.351 Sum_probs=31.7
Q ss_pred hhhHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 72 PHEEGMIIHLQALLGNKWAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 72 eEEDelLleLVk~~G~kWskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
++++..++.++...|-.|.+||..+ |.+...|+.+....+++
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 4677788888888999999999999 99999999988776553
No 52
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=77.53 E-value=1.3 Score=43.76 Aligned_cols=48 Identities=25% Similarity=0.472 Sum_probs=37.5
Q ss_pred cCCCCHHHHHHHHHHHHHh----C-----CCCCceeccc---CCCccChhhhhhhhhccc
Q 018559 14 KGPWTPEEDIILVSYIQEH----G-----PGNWRSVPTN---TGLLRCSKSCRLRWTNYL 61 (354)
Q Consensus 14 KG~WT~EEDe~L~~lV~ky----G-----~~nW~~IA~~---lg~~Rs~kQCR~RW~n~L 61 (354)
...|+.+|...|+.+.... . ..-|..||.. .|..|++.||+.+|.+..
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 3789999999999987543 1 1259999974 356799999999998754
No 53
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=76.53 E-value=0.83 Score=39.56 Aligned_cols=48 Identities=25% Similarity=0.397 Sum_probs=34.4
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCC---CCCceecccCC-----------CccChhhhhhhhh
Q 018559 11 GIKKGPWTPEEDIILVSYIQEHGP---GNWRSVPTNTG-----------LLRCSKSCRLRWT 58 (354)
Q Consensus 11 ~lkKG~WT~EEDe~L~~lV~kyG~---~nW~~IA~~lg-----------~~Rs~kQCR~RW~ 58 (354)
.-++..||.+||.-|+-.+.+||. +.|..|...+. ..||+..+..|-.
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~ 107 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCN 107 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHH
Confidence 556889999999999999999998 88988875542 1366666666543
No 54
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=72.90 E-value=5.7 Score=43.17 Aligned_cols=52 Identities=13% Similarity=0.348 Sum_probs=42.4
Q ss_pred CCCCChhhHHHHHHHHHHhCCcHHHHHh----------hCCCCCHHHHHHHHHHhhhhHhhh
Q 018559 67 RGNFTPHEEGMIIHLQALLGNKWAAIAS----------YLPQRTDNDIKNYWNTHLKKKLKK 118 (354)
Q Consensus 67 kg~WTeEEDelLleLVk~~G~kWskIAk----------~LpgRT~~QcKnRW~~lLkkklkK 118 (354)
+..||.+|..-...+++++|+.+.+|-. ...-+|..|++.+|++.+++.-+-
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~ 149 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKL 149 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhh
Confidence 6689999999999999999999998822 233478889999999888775443
No 55
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=68.91 E-value=3.2 Score=42.83 Aligned_cols=103 Identities=15% Similarity=0.138 Sum_probs=67.0
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcc--cCCC------CcCCCCChhhHHHH-------
Q 018559 14 KGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNY--LRPG------IKRGNFTPHEEGMI------- 78 (354)
Q Consensus 14 KG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~--L~P~------ikkg~WTeEEDelL------- 78 (354)
.-+||.+|-+++..++...|. ++.-|+..+| +|..+|+..+|.+- .+|. ..+.++..+|-..|
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP-~R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k~~~~~~e~ 442 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGT-DFSLISSLFP-NRERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNKLRSYLLEK 442 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcc-hHHHHHHhcC-chhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhhHHHHHHHH
Confidence 457999999999999999995 9999999998 99999999999863 2331 12457777776443
Q ss_pred -HHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhhHhhhcc
Q 018559 79 -IHLQALLGNKWAAIASYLPQRTDNDIKNYWNTHLKKKLKKFQ 120 (354)
Q Consensus 79 -leLVk~~G~kWskIAk~LpgRT~~QcKnRW~~lLkkklkK~~ 120 (354)
+++.++|...-..|-.. .|++..+-..-+.+....+.+..
T Consensus 443 l~Elq~E~k~~~~~~EE~--k~~A~E~~q~~Q~l~~~~L~k~~ 483 (507)
T COG5118 443 LIELQNEHKHHMKEIEEA--KNTAKEEDQTAQRLNDANLNKKG 483 (507)
T ss_pred HHHHHHHHHHHHHHHHHH--HhhHHHHHHHHHHHhhhhhhccC
Confidence 33444443323333222 35555544444444455554443
No 56
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=67.72 E-value=9.4 Score=42.46 Aligned_cols=45 Identities=13% Similarity=0.226 Sum_probs=40.9
Q ss_pred CCCCChhhHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHh
Q 018559 67 RGNFTPHEEGMIIHLQALLGNKWAAIASYLPQRTDNDIKNYWNTH 111 (354)
Q Consensus 67 kg~WTeEEDelLleLVk~~G~kWskIAk~LpgRT~~QcKnRW~~l 111 (354)
...||+.|-.+.-+++..|-+.+..|++.++++|-.||-.+|+..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHH
Confidence 347999999999999999999999999999999999998877644
No 57
>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=66.65 E-value=14 Score=26.19 Aligned_cols=38 Identities=16% Similarity=0.208 Sum_probs=30.0
Q ss_pred hhHHHHHHHHHHhCC-cHHHHHhhCCCCCHHHHHHHHHHh
Q 018559 73 HEEGMIIHLQALLGN-KWAAIASYLPQRTDNDIKNYWNTH 111 (354)
Q Consensus 73 EEDelLleLVk~~G~-kWskIAk~LpgRT~~QcKnRW~~l 111 (354)
+=|..|+.+...-|. .|.+||+.+ |=|...|..|++.+
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 447888888888885 499999999 99999999998764
No 58
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=64.45 E-value=4.2 Score=45.08 Aligned_cols=45 Identities=13% Similarity=0.201 Sum_probs=40.6
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhc
Q 018559 13 KKGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTN 59 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n 59 (354)
....||+.|-.++..++..|. +++..|+..+. +++.+||-+.|+.
T Consensus 618 gSd~WTp~E~~lF~kA~y~~~-KDF~~v~km~~-~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 618 GSDKWTPLERKLFNKALYTYS-KDFIFVQKMVK-SKTVAQCVEYYYT 662 (907)
T ss_pred CcccccHHHHHHHHHHHHHhc-ccHHHHHHHhc-cccHHHHHHHHHH
Confidence 356899999999999999999 69999999998 9999999997764
No 59
>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=62.81 E-value=17 Score=25.73 Aligned_cols=41 Identities=24% Similarity=0.290 Sum_probs=31.8
Q ss_pred hhHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 73 HEEGMIIHLQALLGNKWAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 73 EEDelLleLVk~~G~kWskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
+++..++.++-..|..+.+||..| |-|...|+.+....+++
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~k 47 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKK 47 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHH
Confidence 455666666666667899999999 88999999988877765
No 60
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=61.15 E-value=8.2 Score=31.21 Aligned_cols=22 Identities=45% Similarity=0.841 Sum_probs=12.9
Q ss_pred CccCCCCHHHHHHH--------HHHHHHhC
Q 018559 12 IKKGPWTPEEDIIL--------VSYIQEHG 33 (354)
Q Consensus 12 lkKG~WT~EEDe~L--------~~lV~kyG 33 (354)
-..|-||+|+|+.| ..++++||
T Consensus 45 n~~GiWT~eDD~~L~~~~~~~~~~L~~khG 74 (87)
T PF11626_consen 45 NMPGIWTPEDDEMLRSGDKDDIERLIKKHG 74 (87)
T ss_dssp T-TT---HHHHHHHTS--HHHHHHHHHHH-
T ss_pred CCCCCcCHHHHHHHHcCCHHHHHHHHHHhC
Confidence 45789999999999 33566676
No 61
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=61.03 E-value=15 Score=32.17 Aligned_cols=46 Identities=9% Similarity=-0.025 Sum_probs=39.9
Q ss_pred hhHHHHHHHHHHhCC-cHHHHHhhCCCCCHHHHHHHHHHhhhhHhhhc
Q 018559 73 HEEGMIIHLQALLGN-KWAAIASYLPQRTDNDIKNYWNTHLKKKLKKF 119 (354)
Q Consensus 73 EEDelLleLVk~~G~-kWskIAk~LpgRT~~QcKnRW~~lLkkklkK~ 119 (354)
+-|.+|+.+.++-|. .|++||+.+ |-+...|+.|++.+....+-++
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~~ 55 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIITG 55 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCeee
Confidence 568888888888874 599999999 9999999999999998886554
No 62
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=58.76 E-value=35 Score=34.68 Aligned_cols=48 Identities=19% Similarity=0.381 Sum_probs=37.2
Q ss_pred CCCCChhhHHHHHHHHHHh-CCc---HHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 67 RGNFTPHEEGMIIHLQALL-GNK---WAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 67 kg~WTeEEDelLleLVk~~-G~k---WskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
-..||.-|...|+.+.+.. |.. -.+|++.++||+..+|++.-..+..+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~r 72 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGR 72 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHH
Confidence 4479999999999887655 544 57889999999999999866544433
No 63
>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=57.92 E-value=10 Score=30.02 Aligned_cols=45 Identities=29% Similarity=0.678 Sum_probs=30.5
Q ss_pred CCCHHHHHHHHHHHHHh---CC----C-----CCceecccC----CCccChhhhhhhhhcc
Q 018559 16 PWTPEEDIILVSYIQEH---GP----G-----NWRSVPTNT----GLLRCSKSCRLRWTNY 60 (354)
Q Consensus 16 ~WT~EEDe~L~~lV~ky---G~----~-----nW~~IA~~l----g~~Rs~kQCR~RW~n~ 60 (354)
.||+++++.|++++... |. + .|..|+..| +...+..||..||...
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~l 61 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTL 61 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHH
Confidence 59999999999987554 11 1 266666554 3345677888887643
No 64
>smart00595 MADF subfamily of SANT domain.
Probab=55.55 E-value=14 Score=29.02 Aligned_cols=26 Identities=23% Similarity=0.446 Sum_probs=22.1
Q ss_pred HHHHHhhCCCCCHHHHHHHHHHhhhhH
Q 018559 89 WAAIASYLPQRTDNDIKNYWNTHLKKK 115 (354)
Q Consensus 89 WskIAk~LpgRT~~QcKnRW~~lLkkk 115 (354)
|..||..| |-|..+|+.+|+++...-
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~~y 55 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRDRY 55 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 99999999 449999999999876543
No 65
>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=54.70 E-value=30 Score=28.93 Aligned_cols=38 Identities=21% Similarity=0.228 Sum_probs=28.7
Q ss_pred HHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 76 GMIIHLQALLGNKWAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 76 elLleLVk~~G~kWskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
..++.+.-..|-.+.+||..+ |.+...|+.+....+++
T Consensus 119 r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 119 RKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334444344577899999999 89999999999886554
No 66
>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=54.59 E-value=34 Score=27.20 Aligned_cols=38 Identities=18% Similarity=0.288 Sum_probs=27.7
Q ss_pred HHHHHHHHhC--------CcHHHHHhhCCC---CC--HHHHHHHHHHhhhh
Q 018559 77 MIIHLQALLG--------NKWAAIASYLPQ---RT--DNDIKNYWNTHLKK 114 (354)
Q Consensus 77 lLleLVk~~G--------~kWskIAk~Lpg---RT--~~QcKnRW~~lLkk 114 (354)
.|..+|..+| ..|..||+.|.- -+ ..+++..|..+|.+
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 4667777777 359999999832 22 36899999988764
No 67
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=52.07 E-value=21 Score=31.73 Aligned_cols=47 Identities=4% Similarity=-0.090 Sum_probs=40.0
Q ss_pred hhhHHHHHHHHHHhCC-cHHHHHhhCCCCCHHHHHHHHHHhhhhHhhhc
Q 018559 72 PHEEGMIIHLQALLGN-KWAAIASYLPQRTDNDIKNYWNTHLKKKLKKF 119 (354)
Q Consensus 72 eEEDelLleLVk~~G~-kWskIAk~LpgRT~~QcKnRW~~lLkkklkK~ 119 (354)
.+-|.+|+.+.++-|. .|.+||+.+ |=+...|+.|++.+.+..+-++
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI~~ 60 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFIQG 60 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCeEE
Confidence 4568888888877774 599999999 9999999999999999887554
No 68
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=50.13 E-value=7.4 Score=27.62 Aligned_cols=38 Identities=21% Similarity=0.331 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhc
Q 018559 20 EEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTN 59 (354)
Q Consensus 20 EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n 59 (354)
+=|.+|+.+++..+...|..||..+| =+...|+.|+.+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg--lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG--LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT--S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC--cCHHHHHHHHHH
Confidence 34889999999999889999999987 788899988764
No 69
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=50.05 E-value=38 Score=27.25 Aligned_cols=39 Identities=21% Similarity=0.273 Sum_probs=28.7
Q ss_pred HHHHHHHHhCC--------cHHHHHhhCCCC-----CHHHHHHHHHHhhhhH
Q 018559 77 MIIHLQALLGN--------KWAAIASYLPQR-----TDNDIKNYWNTHLKKK 115 (354)
Q Consensus 77 lLleLVk~~G~--------kWskIAk~LpgR-----T~~QcKnRW~~lLkkk 115 (354)
.|..+|.++|+ .|..||..|.-. ...+++..|..+|.+-
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 46667777773 599999998332 3568899999888763
No 70
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=49.27 E-value=1e+02 Score=32.11 Aligned_cols=46 Identities=17% Similarity=0.244 Sum_probs=39.9
Q ss_pred CCCChhhHHHHHHHHHHhCCcHHHH-HhhCCCCCHHHHHHHHHHhhh
Q 018559 68 GNFTPHEEGMIIHLQALLGNKWAAI-ASYLPQRTDNDIKNYWNTHLK 113 (354)
Q Consensus 68 g~WTeEEDelLleLVk~~G~kWskI-Ak~LpgRT~~QcKnRW~~lLk 113 (354)
..|+++|-...-+.++.||+.+..| +-.++.|+--.|-.+|+...+
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWKk 324 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWKK 324 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhhc
Confidence 3799999999999999999999999 557899999999887765443
No 71
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=48.26 E-value=16 Score=37.91 Aligned_cols=49 Identities=12% Similarity=0.195 Sum_probs=42.1
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCCceeccc-----CCCccChhhhhhhhhccc
Q 018559 12 IKKGPWTPEEDIILVSYIQEHGPGNWRSVPTN-----TGLLRCSKSCRLRWTNYL 61 (354)
Q Consensus 12 lkKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~-----lg~~Rs~kQCR~RW~n~L 61 (354)
+.-..||++|.+.|..+.++|. -.|-.||.. .+..||.....+||+.+.
T Consensus 128 l~dn~WskeETD~LF~lck~fD-LRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 128 LNDNSWSKEETDYLFDLCKRFD-LRFFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred hccccccHHHHHHHHHHHHhcC-eeEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 4456799999999999999999 599999987 665699999999998654
No 72
>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=47.62 E-value=18 Score=29.25 Aligned_cols=17 Identities=29% Similarity=0.585 Sum_probs=10.0
Q ss_pred CCCcCCCCChhhHHHHH
Q 018559 63 PGIKRGNFTPHEEGMII 79 (354)
Q Consensus 63 P~ikkg~WTeEEDelLl 79 (354)
|.-..|-||+++|..|.
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 45668899999999993
No 73
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=46.82 E-value=9.7 Score=33.42 Aligned_cols=45 Identities=13% Similarity=0.185 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcccCCCCc
Q 018559 20 EEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYLRPGIK 66 (354)
Q Consensus 20 EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L~P~ik 66 (354)
+-|.+|+.++++.|.-.|.+||+.+| -+...|+.|+.+....++-
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 57999999999999889999999987 8999999999988766643
No 74
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=42.99 E-value=24 Score=38.35 Aligned_cols=49 Identities=16% Similarity=0.340 Sum_probs=43.4
Q ss_pred cCCCCChhhHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 66 KRGNFTPHEEGMIIHLQALLGNKWAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 66 kkg~WTeEEDelLleLVk~~G~kWskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
..++|+..|-.+.......+|...+.|+..+|+|...|||.+|..--++
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE~r 456 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEEKR 456 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhhhc
Confidence 4568999999999999999999999999999999999999988654333
No 75
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=41.62 E-value=9.5 Score=33.93 Aligned_cols=46 Identities=17% Similarity=0.198 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcccCCCCc
Q 018559 19 PEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYLRPGIK 66 (354)
Q Consensus 19 ~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L~P~ik 66 (354)
.+-|.+|+.+.++.|.-.|.+||+.+| -+...|+.|+.+....++-
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~GvI 58 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGFI 58 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 456999999999999889999999987 8889999999988776653
No 76
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=41.21 E-value=67 Score=25.86 Aligned_cols=34 Identities=26% Similarity=0.232 Sum_probs=26.3
Q ss_pred HHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 80 HLQALLGNKWAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 80 eLVk~~G~kWskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
.+.-..|..+.+||+.+ |=+...|+.+....+++
T Consensus 120 ~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 120 VLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred hhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33334578899999999 67999999988876654
No 77
>PF02260 FATC: FATC domain; InterPro: IPR003152 The FATC domain is found at the C-terminal end of the PIK-related kinases. Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding; PDB: 2KIT_A 1W1N_A 2KIO_A.
Probab=39.97 E-value=11 Score=25.70 Aligned_cols=17 Identities=41% Similarity=0.825 Sum_probs=14.1
Q ss_pred ccccHHHHHHHHhhhhc
Q 018559 177 YASSTENISRLLEGWMR 193 (354)
Q Consensus 177 yAss~~ni~r~le~w~~ 193 (354)
-|.|.+|++++-.|||.
T Consensus 15 ~At~~~nLa~my~GW~p 31 (33)
T PF02260_consen 15 EATDPENLARMYIGWMP 31 (33)
T ss_dssp HHHHHHHHHHHCTSS-T
T ss_pred HHcCHHHHHHHhcchhc
Confidence 47899999999999983
No 78
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=39.80 E-value=60 Score=30.78 Aligned_cols=44 Identities=16% Similarity=0.274 Sum_probs=33.8
Q ss_pred CCChhhHHHHHHHHHHhCCcHHHHHhhC---CCCCHHHHHHHHHHhhh
Q 018559 69 NFTPHEEGMIIHLQALLGNKWAAIASYL---PQRTDNDIKNYWNTHLK 113 (354)
Q Consensus 69 ~WTeEEDelLleLVk~~G~kWskIAk~L---pgRT~~QcKnRW~~lLk 113 (354)
.|++.+|-+|+.+|.. |+.-..|+.-+ -.-|-..|..||+.+|-
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 5999999999998754 55566665543 34588999999998874
No 79
>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=39.45 E-value=47 Score=27.04 Aligned_cols=29 Identities=24% Similarity=0.422 Sum_probs=23.5
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCHHHH
Q 018559 75 EGMIIHLQALLGNKWAAIASYLPQRTDNDI 104 (354)
Q Consensus 75 DelLleLVk~~G~kWskIAk~LpgRT~~Qc 104 (354)
|+.|..+....|..|..+|.+| |=|..+|
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I 30 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDI 30 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 5678899999999999999999 5555443
No 80
>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=38.89 E-value=38 Score=30.72 Aligned_cols=41 Identities=17% Similarity=0.062 Sum_probs=34.5
Q ss_pred CCChhhHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHH
Q 018559 69 NFTPHEEGMIIHLQALLGNKWAAIASYLPQRTDNDIKNYWNT 110 (354)
Q Consensus 69 ~WTeEEDelLleLVk~~G~kWskIAk~LpgRT~~QcKnRW~~ 110 (354)
.||+|+.++|.+|. .-|..=.+||..|.+.|.+.|.-+-+.
T Consensus 2 ~Wtde~~~~L~~lw-~~G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHhCCcchhhhhhhhhc
Confidence 59999999999886 447778999999987999999776654
No 81
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=38.58 E-value=34 Score=25.89 Aligned_cols=26 Identities=27% Similarity=0.506 Sum_probs=21.5
Q ss_pred HHHHHhhCCC-CCHHHHHHHHHHhhhh
Q 018559 89 WAAIASYLPQ-RTDNDIKNYWNTHLKK 114 (354)
Q Consensus 89 WskIAk~Lpg-RT~~QcKnRW~~lLkk 114 (354)
|..||..|.. -+..+|+.||..+...
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~~ 55 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRDR 55 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHHH
Confidence 9999999953 5788999999987654
No 82
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=37.75 E-value=1.5e+02 Score=31.05 Aligned_cols=58 Identities=21% Similarity=0.313 Sum_probs=46.2
Q ss_pred CcCCCCChhhHHHHHHHHHHhC----------------CcHHHHHhhC-----CCCCHHHHHHHHHHhhhhHhhhccCC
Q 018559 65 IKRGNFTPHEEGMIIHLQALLG----------------NKWAAIASYL-----PQRTDNDIKNYWNTHLKKKLKKFQSA 122 (354)
Q Consensus 65 ikkg~WTeEEDelLleLVk~~G----------------~kWskIAk~L-----pgRT~~QcKnRW~~lLkkklkK~~~s 122 (354)
.-.|.|+++=|+-..++.++|. ++=..||+++ ..||.+||-.+-+.+.|+++++.+..
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~reiq~k 152 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLREIQAK 152 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHhh
Confidence 3467899999999999999873 2357899987 35899999999988888887666543
No 83
>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=37.16 E-value=72 Score=28.66 Aligned_cols=47 Identities=19% Similarity=0.152 Sum_probs=39.0
Q ss_pred cCCCCChhhHHHHHHHHHHhCCcHHHHHhhCC----CCCHHHHHHHHHHhh
Q 018559 66 KRGNFTPHEEGMIIHLQALLGNKWAAIASYLP----QRTDNDIKNYWNTHL 112 (354)
Q Consensus 66 kkg~WTeEEDelLleLVk~~G~kWskIAk~Lp----gRT~~QcKnRW~~lL 112 (354)
....-|..|...|..|+.+||..+...+.-.. ..|..||+.+...+.
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~k 163 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKYK 163 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHhc
Confidence 34578999999999999999999999987543 589999999887653
No 84
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=35.94 E-value=28 Score=36.99 Aligned_cols=45 Identities=16% Similarity=0.214 Sum_probs=40.0
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhc
Q 018559 13 KKGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTN 59 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n 59 (354)
.+..||.||--++-.+...|| .++.+|.+.|+ .|+-.+++.-|+.
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~G-K~F~kIrq~LP-~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFG-KDFHKIRQALP-HRSLASLVQYYYS 230 (534)
T ss_pred CcccchHHHHHHHHHHHHHhc-ccHHHHHHHcc-CccHHHHHHHHHH
Confidence 567899999999999999999 59999999998 9999888876654
No 85
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=35.09 E-value=81 Score=25.38 Aligned_cols=45 Identities=11% Similarity=0.008 Sum_probs=38.1
Q ss_pred hhHHHHHHHHHHhC-CcHHHHHhhCCCCCHHHHHHHHHHhhhhHhhh
Q 018559 73 HEEGMIIHLQALLG-NKWAAIASYLPQRTDNDIKNYWNTHLKKKLKK 118 (354)
Q Consensus 73 EEDelLleLVk~~G-~kWskIAk~LpgRT~~QcKnRW~~lLkkklkK 118 (354)
+.|..|+.+....| -.+.+||+.+ |-+...|+.+.+.+.+..+-+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 56788888888877 4699999999 999999999999998876544
No 86
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=34.87 E-value=95 Score=26.49 Aligned_cols=32 Identities=9% Similarity=0.060 Sum_probs=24.9
Q ss_pred HHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhhH
Q 018559 83 ALLGNKWAAIASYLPQRTDNDIKNYWNTHLKKK 115 (354)
Q Consensus 83 k~~G~kWskIAk~LpgRT~~QcKnRW~~lLkkk 115 (354)
...|-.+.+||..| |.+...|+.+....+++-
T Consensus 141 ~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~L 172 (182)
T PRK09652 141 EIEGLSYEEIAEIM-GCPIGTVRSRIFRAREAL 172 (182)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 34577899999999 889999988877655443
No 87
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=34.65 E-value=28 Score=41.00 Aligned_cols=77 Identities=14% Similarity=0.219 Sum_probs=48.7
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcccCCCCcCCCCChhhHHHHHHHHHHh-CCcHHH
Q 018559 13 KKGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTPHEEGMIIHLQALL-GNKWAA 91 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L~P~ikkg~WTeEEDelLleLVk~~-G~kWsk 91 (354)
.-.-|..++|..|+-.|-+||.++|..|-.- +.-|... ...+...+-.+.|=..+-..|+.+...+ +.+|..
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~D------p~L~l~d-Ki~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~ 1204 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLD------PDLGLTD-KIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPK 1204 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccC------ccccchh-hhcccccCCchHHHHHHHHHHHHHHhhcccCCCch
Confidence 4567999999999999999999999988421 1122111 1112222445566667777777777666 455655
Q ss_pred HHhhC
Q 018559 92 IASYL 96 (354)
Q Consensus 92 IAk~L 96 (354)
.....
T Consensus 1205 ~~~~~ 1209 (1373)
T KOG0384|consen 1205 KLKRE 1209 (1373)
T ss_pred hhhcc
Confidence 44433
No 88
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=34.39 E-value=1.2e+02 Score=20.05 Aligned_cols=37 Identities=19% Similarity=0.207 Sum_probs=26.3
Q ss_pred hHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHh
Q 018559 74 EEGMIIHLQALLGNKWAAIASYLPQRTDNDIKNYWNTH 111 (354)
Q Consensus 74 EDelLleLVk~~G~kWskIAk~LpgRT~~QcKnRW~~l 111 (354)
++..++.++...|..+..||..+ |-+...|+.+....
T Consensus 14 ~~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 14 REREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 34555555556778899999998 77888887665544
No 89
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=34.01 E-value=77 Score=26.39 Aligned_cols=49 Identities=16% Similarity=0.108 Sum_probs=33.5
Q ss_pred CCCChhhHHHHHHHHHHh----C----CcHHHHHh----hCC-CCCHHHHHHHHHHhhhhHh
Q 018559 68 GNFTPHEEGMIIHLQALL----G----NKWAAIAS----YLP-QRTDNDIKNYWNTHLKKKL 116 (354)
Q Consensus 68 g~WTeEEDelLleLVk~~----G----~kWskIAk----~Lp-gRT~~QcKnRW~~lLkkkl 116 (354)
.-||++++..|++.+..| | ..|...-. .|. .=+..|+.++-+.+-++-.
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~ 66 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYR 66 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHH
Confidence 469999999999998776 6 23544433 332 2377888888777666543
No 90
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=33.51 E-value=31 Score=37.78 Aligned_cols=47 Identities=17% Similarity=0.357 Sum_probs=36.9
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCceec----------ccCCCccChhhhhhhhhcccC
Q 018559 14 KGPWTPEEDIILVSYIQEHGPGNWRSVP----------TNTGLLRCSKSCRLRWTNYLR 62 (354)
Q Consensus 14 KG~WT~EEDe~L~~lV~kyG~~nW~~IA----------~~lg~~Rs~kQCR~RW~n~L~ 62 (354)
|..||..|...+..++.++| .++.+|- .... -++-.|.|.+|++.+.
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 66899999999999999999 5888872 2222 3667899998887654
No 91
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=33.01 E-value=1e+02 Score=27.67 Aligned_cols=38 Identities=13% Similarity=0.126 Sum_probs=29.1
Q ss_pred HHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 76 GMIIHLQALLGNKWAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 76 elLleLVk~~G~kWskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
..++.+....|-.+.+||..| |-+...|+.+|.....+
T Consensus 141 ~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR~~ 178 (185)
T PF07638_consen 141 RRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRARAW 178 (185)
T ss_pred HHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 333444444577899999999 99999999999877644
No 92
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=32.89 E-value=90 Score=26.56 Aligned_cols=29 Identities=17% Similarity=0.118 Sum_probs=23.6
Q ss_pred hCCcHHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 85 LGNKWAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 85 ~G~kWskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
.|..+.+||..| |-+...|+.+.....++
T Consensus 140 ~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 140 EGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 467799999999 88999999888765544
No 93
>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=31.42 E-value=80 Score=25.66 Aligned_cols=29 Identities=21% Similarity=0.337 Sum_probs=23.8
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCHHHH
Q 018559 75 EGMIIHLQALLGNKWAAIASYLPQRTDNDI 104 (354)
Q Consensus 75 DelLleLVk~~G~kWskIAk~LpgRT~~Qc 104 (354)
|..|..+....|..|..+|..| |=+..+|
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI 32 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEI 32 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHH
Confidence 6678888899999999999999 6555544
No 94
>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=30.56 E-value=64 Score=25.64 Aligned_cols=29 Identities=28% Similarity=0.559 Sum_probs=23.0
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCHHHH
Q 018559 75 EGMIIHLQALLGNKWAAIASYLPQRTDNDI 104 (354)
Q Consensus 75 DelLleLVk~~G~kWskIAk~LpgRT~~Qc 104 (354)
|..|..+....|..|.++|+.| |=+..+|
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI 32 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDI 32 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHH
Confidence 5567888899999999999999 5555444
No 95
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=29.62 E-value=1.1e+02 Score=27.30 Aligned_cols=30 Identities=17% Similarity=0.163 Sum_probs=24.1
Q ss_pred HhCCcHHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 84 LLGNKWAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 84 ~~G~kWskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
..|....+||..| |-+...|+.|+...+++
T Consensus 148 ~~g~s~~EIA~~l-g~s~~tV~~rl~rar~~ 177 (192)
T PRK09643 148 MQGYSVADAARML-GVAEGTVKSRCARGRAR 177 (192)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3467799999999 99999999999654443
No 96
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=29.11 E-value=96 Score=26.37 Aligned_cols=51 Identities=14% Similarity=0.022 Sum_probs=41.2
Q ss_pred hhHHHHHHHHHHhCC-cHHHHHhhCCCCCHHHHHHHHHHhhhhHhhhccCCcC
Q 018559 73 HEEGMIIHLQALLGN-KWAAIASYLPQRTDNDIKNYWNTHLKKKLKKFQSAAL 124 (354)
Q Consensus 73 EEDelLleLVk~~G~-kWskIAk~LpgRT~~QcKnRW~~lLkkklkK~~~s~~ 124 (354)
+-|.+|+++.+.-|. .+..||+.+ |-+...|+.|-+.+.+..+-++-....
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI~~~~~~v 59 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVIKGYTAVL 59 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCceeeEEEEE
Confidence 457778888777774 599999999 899999999999999988766554433
No 97
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=28.75 E-value=1.2e+02 Score=26.41 Aligned_cols=29 Identities=10% Similarity=-0.002 Sum_probs=23.6
Q ss_pred hCCcHHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 85 LGNKWAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 85 ~G~kWskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
.|..+.+||..| |-+...|+++.....++
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 467799999999 89999999888766554
No 98
>PRK04217 hypothetical protein; Provisional
Probab=28.24 E-value=1.3e+02 Score=25.73 Aligned_cols=45 Identities=13% Similarity=-0.014 Sum_probs=36.0
Q ss_pred CCChhhHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhhH
Q 018559 69 NFTPHEEGMIIHLQALLGNKWAAIASYLPQRTDNDIKNYWNTHLKKK 115 (354)
Q Consensus 69 ~WTeEEDelLleLVk~~G~kWskIAk~LpgRT~~QcKnRW~~lLkkk 115 (354)
.-|.+| ..++.+....|-...+||+.+ |-+...|+.++....+..
T Consensus 42 ~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkkL 86 (110)
T PRK04217 42 FMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKKV 86 (110)
T ss_pred cCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 455555 577777777888999999999 999999999998655544
No 99
>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=26.75 E-value=1.3e+02 Score=25.83 Aligned_cols=30 Identities=23% Similarity=0.339 Sum_probs=24.2
Q ss_pred hCCcHHHHHhhCCCCCHHHHHHHHHHhhhhH
Q 018559 85 LGNKWAAIASYLPQRTDNDIKNYWNTHLKKK 115 (354)
Q Consensus 85 ~G~kWskIAk~LpgRT~~QcKnRW~~lLkkk 115 (354)
.|....+||..| |-|...|+.+....+++-
T Consensus 134 ~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~L 163 (169)
T TIGR02954 134 HDLTIKEIAEVM-NKPEGTVKTYLHRALKKL 163 (169)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 466789999999 789999999888776654
No 100
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=26.69 E-value=7.2e+02 Score=25.59 Aligned_cols=87 Identities=13% Similarity=0.145 Sum_probs=63.1
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCC---ceecccCCCccChhhhhhhhhcccCCCCcCCCCChhhHHHHHHHHHH-h----
Q 018559 14 KGPWTPEEDIILVSYIQEHGPGNW---RSVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTPHEEGMIIHLQAL-L---- 85 (354)
Q Consensus 14 KG~WT~EEDe~L~~lV~kyG~~nW---~~IA~~lg~~Rs~kQCR~RW~n~L~P~ikkg~WTeEEDelLleLVk~-~---- 85 (354)
...||.-|...|+.+.+......+ .+|++.++ +|+..++++- .+.|+ +..+.+++++ |
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~f-l~~LK------------~rvareaiqkv~~~g~ 86 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRDF-LQQLK------------GRVAREAIQKVHPGGL 86 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHHH-HHHHH------------HHHHHHHHHHhccccc
Confidence 457999999999999987743444 46777887 8999988873 33332 3345555544 2
Q ss_pred -CC------------cHHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 86 -GN------------KWAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 86 -G~------------kWskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
|. -|..+|+.+.|.-...+-.-|-++|--
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~i 128 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLTI 128 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHHH
Confidence 21 199999999999999998888877753
No 101
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=26.14 E-value=1.9e+02 Score=25.66 Aligned_cols=34 Identities=15% Similarity=0.125 Sum_probs=25.2
Q ss_pred hCCcHHHHHhhCCCCCHHHHHHHHHH---hhhhHhhhc
Q 018559 85 LGNKWAAIASYLPQRTDNDIKNYWNT---HLKKKLKKF 119 (354)
Q Consensus 85 ~G~kWskIAk~LpgRT~~QcKnRW~~---lLkkklkK~ 119 (354)
.|-.-.+||..| |-+...|+.|... .|+..+.+.
T Consensus 151 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~~l~~~ 187 (195)
T PRK12532 151 LGFSSDEIQQMC-GISTSNYHTIMHRARESLRQCLQIK 187 (195)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 466789999999 8999999988875 444445433
No 102
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=25.48 E-value=1.7e+02 Score=24.68 Aligned_cols=30 Identities=10% Similarity=0.015 Sum_probs=24.4
Q ss_pred hCCcHHHHHhhCCCCCHHHHHHHHHHhhhhH
Q 018559 85 LGNKWAAIASYLPQRTDNDIKNYWNTHLKKK 115 (354)
Q Consensus 85 ~G~kWskIAk~LpgRT~~QcKnRW~~lLkkk 115 (354)
.|-.-.+||..| |-+...|+.|....++.-
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~L 150 (161)
T PRK09047 121 EDMDVAETAAAM-GCSEGSVKTHCSRATHAL 150 (161)
T ss_pred hcCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 466789999999 889999999887665543
No 103
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=25.26 E-value=85 Score=33.73 Aligned_cols=41 Identities=17% Similarity=0.414 Sum_probs=37.0
Q ss_pred CCChhhHHHHHHHHHHhCCcHHHH-HhhCCCCCHHHHHHHHH
Q 018559 69 NFTPHEEGMIIHLQALLGNKWAAI-ASYLPQRTDNDIKNYWN 109 (354)
Q Consensus 69 ~WTeEEDelLleLVk~~G~kWskI-Ak~LpgRT~~QcKnRW~ 109 (354)
.|+.-|-.+.-++..+||+.+..| +.+||.++-..|-.+|+
T Consensus 287 EWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 287 EWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred hccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 699999999999999999999999 55779999999887775
No 104
>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=24.83 E-value=1.1e+02 Score=24.60 Aligned_cols=26 Identities=31% Similarity=0.602 Sum_probs=20.2
Q ss_pred HHHHHHHhCCcHHHHHhhCCCCCHHHH
Q 018559 78 IIHLQALLGNKWAAIASYLPQRTDNDI 104 (354)
Q Consensus 78 LleLVk~~G~kWskIAk~LpgRT~~Qc 104 (354)
|..+....|..|..+|+.| |=+..+|
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 4446688899999999999 6666655
No 105
>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=24.78 E-value=1.2e+02 Score=26.47 Aligned_cols=30 Identities=10% Similarity=0.056 Sum_probs=24.0
Q ss_pred hCCcHHHHHhhCCCCCHHHHHHHHHHhhhhH
Q 018559 85 LGNKWAAIASYLPQRTDNDIKNYWNTHLKKK 115 (354)
Q Consensus 85 ~G~kWskIAk~LpgRT~~QcKnRW~~lLkkk 115 (354)
.|....+||..| |=|...|+.+....+++-
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 356789999999 888999999887666554
No 106
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=24.36 E-value=1.6e+02 Score=20.33 Aligned_cols=35 Identities=14% Similarity=0.101 Sum_probs=26.5
Q ss_pred hhHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHH
Q 018559 73 HEEGMIIHLQALLGNKWAAIASYLPQRTDNDIKNYW 108 (354)
Q Consensus 73 EEDelLleLVk~~G~kWskIAk~LpgRT~~QcKnRW 108 (354)
-|...|.++...+|++..+.|+.| |=+...+..|-
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~kl 39 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRKL 39 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHH
Confidence 377888999999999999999999 66666665544
No 107
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=24.24 E-value=1.6e+02 Score=26.19 Aligned_cols=30 Identities=23% Similarity=0.035 Sum_probs=24.6
Q ss_pred HhCCcHHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 84 LLGNKWAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 84 ~~G~kWskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
..|-...+||..| |-+...|+.+....+++
T Consensus 120 ~~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 120 LEGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred hcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3477799999999 89999999998766554
No 108
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=24.10 E-value=1.7e+02 Score=25.75 Aligned_cols=30 Identities=13% Similarity=0.083 Sum_probs=24.3
Q ss_pred hCCcHHHHHhhCCCCCHHHHHHHHHHhhhhH
Q 018559 85 LGNKWAAIASYLPQRTDNDIKNYWNTHLKKK 115 (354)
Q Consensus 85 ~G~kWskIAk~LpgRT~~QcKnRW~~lLkkk 115 (354)
.|....+||..| |-+...|+.+....+++-
T Consensus 154 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~L 183 (189)
T PRK09648 154 VGLSAEETAEAV-GSTPGAVRVAQHRALARL 183 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 467799999999 888999999887666543
No 109
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=24.08 E-value=79 Score=34.53 Aligned_cols=48 Identities=15% Similarity=0.343 Sum_probs=42.9
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhc
Q 018559 10 VGIKKGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTN 59 (354)
Q Consensus 10 p~lkKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n 59 (354)
+....++|+.+|-++...+....|. +...|+..++ +|..+|++.+|..
T Consensus 405 k~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p-~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 405 KKLETDKWDASETELFYKALSERGS-DFSLISNLFP-LRDRKQIKAKFKK 452 (584)
T ss_pred CccccCcccchhhHHhhhHHhhhcc-cccccccccc-cccHHHHHHHHhh
Confidence 3456789999999999999999995 9999999998 9999999998765
No 110
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=23.38 E-value=2.2e+02 Score=24.82 Aligned_cols=32 Identities=13% Similarity=0.094 Sum_probs=25.3
Q ss_pred hCCcHHHHHhhCCCCCHHHHHHHHHHhhhhHhh
Q 018559 85 LGNKWAAIASYLPQRTDNDIKNYWNTHLKKKLK 117 (354)
Q Consensus 85 ~G~kWskIAk~LpgRT~~QcKnRW~~lLkkklk 117 (354)
.|....+||..| |-+...|+.+....+++--.
T Consensus 146 ~g~s~~eIA~~l-~is~~tV~~~l~ra~~~Lr~ 177 (184)
T PRK12512 146 EGASIKETAAKL-SMSEGAVRVALHRGLAALAA 177 (184)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHH
Confidence 466789999999 99999999988776665433
No 111
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=23.17 E-value=1.8e+02 Score=25.89 Aligned_cols=30 Identities=10% Similarity=0.015 Sum_probs=24.0
Q ss_pred hCCcHHHHHhhCCCCCHHHHHHHHHHhhhhH
Q 018559 85 LGNKWAAIASYLPQRTDNDIKNYWNTHLKKK 115 (354)
Q Consensus 85 ~G~kWskIAk~LpgRT~~QcKnRW~~lLkkk 115 (354)
.|-...+||..| |-+...|+.|....++.-
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 466789999999 999999999887666543
No 112
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=23.09 E-value=2.2e+02 Score=24.97 Aligned_cols=33 Identities=24% Similarity=0.142 Sum_probs=27.9
Q ss_pred hCCcHHHHHhhCCCCCHHHHHHHHHHhhhhHhhh
Q 018559 85 LGNKWAAIASYLPQRTDNDIKNYWNTHLKKKLKK 118 (354)
Q Consensus 85 ~G~kWskIAk~LpgRT~~QcKnRW~~lLkkklkK 118 (354)
.|-...+||..| |-+...|+.|....+..-+..
T Consensus 142 ~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~~ 174 (178)
T PRK12529 142 DGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLSL 174 (178)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHh
Confidence 467799999999 999999999998887776554
No 113
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=23.06 E-value=1.8e+02 Score=25.02 Aligned_cols=29 Identities=24% Similarity=0.204 Sum_probs=23.5
Q ss_pred hCCcHHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 85 LGNKWAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 85 ~G~kWskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
.|-.-.+||..| |.+...|+.|....++.
T Consensus 133 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 161 (173)
T PRK09645 133 RGWSTAQIAADL-GIPEGTVKSRLHYALRA 161 (173)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 466789999999 89999999998766544
No 114
>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=23.01 E-value=1.2e+02 Score=24.38 Aligned_cols=31 Identities=26% Similarity=0.433 Sum_probs=24.3
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHH
Q 018559 75 EGMIIHLQALLGNKWAAIASYLPQRTDNDIKN 106 (354)
Q Consensus 75 DelLleLVk~~G~kWskIAk~LpgRT~~QcKn 106 (354)
|..|..+....|..|..+|+.| |=+...|..
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI~~ 34 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQIHQ 34 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 4567778889999999999999 666665543
No 115
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=22.92 E-value=1.9e+02 Score=25.08 Aligned_cols=32 Identities=25% Similarity=0.279 Sum_probs=25.9
Q ss_pred HHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhhH
Q 018559 83 ALLGNKWAAIASYLPQRTDNDIKNYWNTHLKKK 115 (354)
Q Consensus 83 k~~G~kWskIAk~LpgRT~~QcKnRW~~lLkkk 115 (354)
...|-...+||..| |-+...|+.+...-+++-
T Consensus 132 ~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~ 163 (172)
T PRK12523 132 RLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQC 163 (172)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 33577899999999 999999999887766654
No 116
>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=22.73 E-value=1.9e+02 Score=25.75 Aligned_cols=31 Identities=13% Similarity=0.075 Sum_probs=24.6
Q ss_pred HHhCCcHHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 83 ALLGNKWAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 83 k~~G~kWskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
...|....+||..| |-+...|+.|....+++
T Consensus 144 ~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~ 174 (188)
T TIGR02943 144 EVLGFESDEICQEL-EISTSNCHVLLYRARLS 174 (188)
T ss_pred HHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 34467799999999 99999999988766544
No 117
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=22.51 E-value=1.6e+02 Score=25.49 Aligned_cols=29 Identities=10% Similarity=0.006 Sum_probs=23.2
Q ss_pred CCcHHHHHhhCCCCCHHHHHHHHHHhhhhH
Q 018559 86 GNKWAAIASYLPQRTDNDIKNYWNTHLKKK 115 (354)
Q Consensus 86 G~kWskIAk~LpgRT~~QcKnRW~~lLkkk 115 (354)
|....+||..| |-+...|+.+....+++-
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 56689999999 889999999887665543
No 118
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=22.43 E-value=2.2e+02 Score=25.09 Aligned_cols=31 Identities=10% Similarity=0.002 Sum_probs=25.0
Q ss_pred hCCcHHHHHhhCCCCCHHHHHHHHHHhhhhHh
Q 018559 85 LGNKWAAIASYLPQRTDNDIKNYWNTHLKKKL 116 (354)
Q Consensus 85 ~G~kWskIAk~LpgRT~~QcKnRW~~lLkkkl 116 (354)
.|-...+||..| |-+...|+.+....+++-.
T Consensus 146 ~~~s~~eIA~~l-gis~~tV~~~l~Rar~~Lr 176 (189)
T PRK12515 146 HEKSVEEVGEIV-GIPESTVKTRMFYARKKLA 176 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHH
Confidence 466789999999 8899999999887665543
No 119
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=22.20 E-value=1.4e+02 Score=25.18 Aligned_cols=45 Identities=24% Similarity=0.297 Sum_probs=31.6
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhccc
Q 018559 13 KKGPWTPEEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYL 61 (354)
Q Consensus 13 kKG~WT~EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L 61 (354)
++..||.|+-..++..+...| ..=..||..++. +. +-..+|.+.+
T Consensus 9 ~rr~ys~EfK~~aV~~~~~~g-~sv~evA~e~gI--s~-~tl~~W~r~y 53 (121)
T PRK09413 9 KRRRRTTQEKIAIVQQSFEPG-MTVSLVARQHGV--AA-SQLFLWRKQY 53 (121)
T ss_pred CCCCCCHHHHHHHHHHHHcCC-CCHHHHHHHHCc--CH-HHHHHHHHHH
Confidence 457899999888888777766 366788888873 33 3345576644
No 120
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=21.77 E-value=2.1e+02 Score=24.24 Aligned_cols=29 Identities=10% Similarity=-0.086 Sum_probs=23.4
Q ss_pred hCCcHHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 85 LGNKWAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 85 ~G~kWskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
.|-.-.+||..| |-+...|++|....+++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (160)
T PRK09642 121 EEKSYQEIALQE-KIEVKTVEMKLYRARKW 149 (160)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466789999999 99999999988755544
No 121
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=21.19 E-value=56 Score=26.34 Aligned_cols=44 Identities=14% Similarity=0.166 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcccCCCC
Q 018559 20 EEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYLRPGI 65 (354)
Q Consensus 20 EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L~P~i 65 (354)
+.|.+|+.++...+.-.+..||..++ -+...|+.|.......++
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l~--~s~~tv~~~l~~L~~~g~ 46 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKVG--LSPSTVHNRVKRLEEEGV 46 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 56889999999998889999999987 888889988877665553
No 122
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=20.94 E-value=1.9e+02 Score=25.50 Aligned_cols=28 Identities=18% Similarity=0.163 Sum_probs=22.3
Q ss_pred CCcHHHHHhhCCCCCHHHHHHHHHHhhhh
Q 018559 86 GNKWAAIASYLPQRTDNDIKNYWNTHLKK 114 (354)
Q Consensus 86 G~kWskIAk~LpgRT~~QcKnRW~~lLkk 114 (354)
|-...+||..| |-+...|+.|....+++
T Consensus 154 g~s~~eIA~~l-gis~~tv~~~l~Rar~~ 181 (193)
T PRK11923 154 GLSYEDIASVM-QCPVGTVRSRIFRAREA 181 (193)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 56689999999 88899999988765544
No 123
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=20.85 E-value=45 Score=28.39 Aligned_cols=45 Identities=13% Similarity=0.137 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHhCCCCCceecccCCCccChhhhhhhhhcccCCCCc
Q 018559 20 EEDIILVSYIQEHGPGNWRSVPTNTGLLRCSKSCRLRWTNYLRPGIK 66 (354)
Q Consensus 20 EEDe~L~~lV~kyG~~nW~~IA~~lg~~Rs~kQCR~RW~n~L~P~ik 66 (354)
+-|.+++.+++..+...+..||+.++ -+...|+.|-.+..+.++-
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~lg--lS~~~v~~Ri~~L~~~GiI 52 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERVG--LSPSTVLRRIKRLEEEGVI 52 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCce
Confidence 55889999999999889999999987 8889999998877666543
No 124
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=20.82 E-value=2.1e+02 Score=25.45 Aligned_cols=28 Identities=7% Similarity=-0.066 Sum_probs=23.2
Q ss_pred hCCcHHHHHhhCCCCCHHHHHHHHHHhhh
Q 018559 85 LGNKWAAIASYLPQRTDNDIKNYWNTHLK 113 (354)
Q Consensus 85 ~G~kWskIAk~LpgRT~~QcKnRW~~lLk 113 (354)
.|-...+||..| |-+...|+.|....++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~RAr~ 176 (189)
T PRK12530 149 LELSSEQICQEC-DISTSNLHVLLYRARL 176 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 467799999999 9999999998765544
No 125
>PF05186 Dpy-30: Dpy-30 motif; InterPro: IPR007858 This motif is about 40 residues long and is probably formed of two alpha-helices. It is found in the Dpy-30 proteins, hence the motifs name. Dpy-30 from Caenorhabditis elegans is an essential component of dosage compensation machinery and loss of dpy-30 activity results in XX-specific lethality; in XO animals, Dpy-30 is required for developmental processes other than dosage compensation []. In yeast, the homologue of DPY-30, Saf19p, functions as part of the Set1 complex that is necessary for the methylation of histone H3 at lysine residue 4; Set1 is a key part of epigenetic developmental control []. There is also a human homologue of Dpy-30 []. This Dpy-30 region may be a dimerisation motif analogous that found in the cAMP-dependent protein kinase regulator, type II PKA, R subunit IPR003117 from INTERPRO.; PDB: 3G36_D.
Probab=20.60 E-value=39 Score=24.20 Aligned_cols=14 Identities=36% Similarity=0.857 Sum_probs=12.0
Q ss_pred CChhHHHHhhhccC
Q 018559 323 PPLSFLEKWLLDES 336 (354)
Q Consensus 323 ~~~~~~~~~~~~~~ 336 (354)
=|+.||-.||++.|
T Consensus 28 DPi~~La~~Ll~~~ 41 (42)
T PF05186_consen 28 DPIEFLAEYLLKHN 41 (42)
T ss_dssp SHHHHHHHHHHHHG
T ss_pred ChHHHHHHHHHHhC
Confidence 48999999999764
No 126
>PF10415 FumaraseC_C: Fumarase C C-terminus; InterPro: IPR018951 Fumarase C catalyses the stereo-specific interconversion of fumarate to L-malate as part of the Krebs cycle. The full-length protein forms a tetramer with visible globular shape. FumaraseC_C is the C-terminal 65 residues referred to as domain 3. The core of the molecule consists of a bundle of 20 alpha-helices from the five-helix bundle of domain 2. The projections from the core of the tetramer are generated from domains 1 and 3 of each subunit []. This entry does not appear to be part of either the active site or the activation site but is helical in structure forming a little bundle. ; GO: 0016829 lyase activity, 0006099 tricarboxylic acid cycle; PDB: 3RRP_A 3OCE_D 3OCF_D 3E04_B 3GTD_A 3R6V_F 3R6Q_F 1J3U_B 1FUR_A 1YFE_A ....
Probab=20.57 E-value=44 Score=25.14 Aligned_cols=17 Identities=29% Similarity=0.493 Sum_probs=14.0
Q ss_pred Cccchhhhhhhhhhhccc
Q 018559 246 DLISNEEFISILSFEQNL 263 (354)
Q Consensus 246 ~~~~~~~~~~~~~~~~~~ 263 (354)
.+++.||||.||+.+ +|
T Consensus 36 g~lt~ee~d~ll~p~-~m 52 (55)
T PF10415_consen 36 GLLTEEELDELLDPE-RM 52 (55)
T ss_dssp TSS-HHHHHHHTSHH-HH
T ss_pred CCCCHHHHHHHcCHH-Hc
Confidence 578999999999998 65
No 127
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=20.20 E-value=1.4e+02 Score=24.30 Aligned_cols=30 Identities=30% Similarity=0.431 Sum_probs=22.7
Q ss_pred HHHHHHHHHhCCcHHHHHhhCCCCCHHHHHH
Q 018559 76 GMIIHLQALLGNKWAAIASYLPQRTDNDIKN 106 (354)
Q Consensus 76 elLleLVk~~G~kWskIAk~LpgRT~~QcKn 106 (354)
+.|-.+....|..|..+|+.| |=+..+|..
T Consensus 3 ~~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 3 KHLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 345566688899999999999 666666644
Done!