Query 018746
Match_columns 351
No_of_seqs 330 out of 1437
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 03:41:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018746.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018746hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03091 hypothetical protein; 100.0 4E-37 8.7E-42 306.8 11.2 128 1-128 1-128 (459)
2 PLN03212 Transcription repress 100.0 8.7E-37 1.9E-41 286.2 9.8 123 3-125 14-136 (249)
3 KOG0048 Transcription factor, 100.0 7E-35 1.5E-39 273.5 11.3 111 10-120 5-115 (238)
4 KOG0049 Transcription factor, 99.8 9.9E-20 2.2E-24 188.1 8.1 108 1-109 347-455 (939)
5 KOG0049 Transcription factor, 99.7 1.1E-18 2.4E-23 180.4 7.1 137 7-152 246-437 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.6 2.6E-16 5.7E-21 117.4 3.0 60 17-78 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.5 4.9E-15 1.1E-19 152.4 5.3 107 10-117 16-122 (512)
8 PLN03212 Transcription repress 99.5 2E-14 4.4E-19 135.8 5.5 95 63-157 21-126 (249)
9 KOG0050 mRNA splicing protein 99.5 8E-15 1.7E-19 149.1 2.7 110 10-121 3-112 (617)
10 KOG0048 Transcription factor, 99.5 1.4E-14 3E-19 136.3 3.4 96 63-158 5-111 (238)
11 PLN03091 hypothetical protein; 99.4 1.4E-13 3.1E-18 138.6 4.8 97 63-159 10-117 (459)
12 PF00249 Myb_DNA-binding: Myb- 99.4 1.2E-12 2.6E-17 94.2 6.2 46 67-112 1-48 (48)
13 KOG0051 RNA polymerase I termi 99.3 6.4E-13 1.4E-17 138.4 5.4 101 13-116 383-511 (607)
14 PF00249 Myb_DNA-binding: Myb- 99.3 1.9E-13 4.2E-18 98.3 -0.2 48 14-61 1-48 (48)
15 PF13921 Myb_DNA-bind_6: Myb-l 99.3 3.1E-12 6.6E-17 95.4 3.1 52 70-121 1-52 (60)
16 smart00717 SANT SANT SWI3, AD 99.2 6.3E-11 1.4E-15 82.3 6.0 47 67-113 1-48 (49)
17 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 4E-10 8.7E-15 77.2 6.0 44 69-112 1-45 (45)
18 smart00717 SANT SANT SWI3, AD 99.0 1.5E-10 3.3E-15 80.4 1.8 48 14-62 1-48 (49)
19 cd00167 SANT 'SWI3, ADA2, N-Co 98.8 1.1E-09 2.5E-14 75.0 1.5 45 16-61 1-45 (45)
20 KOG0051 RNA polymerase I termi 98.6 4.5E-08 9.8E-13 102.7 5.5 130 12-172 306-462 (607)
21 COG5147 REB1 Myb superfamily p 98.3 8E-08 1.7E-12 99.7 -1.9 98 13-113 290-397 (512)
22 KOG0050 mRNA splicing protein 97.8 2.4E-05 5.1E-10 81.0 4.9 60 65-124 5-65 (617)
23 TIGR01557 myb_SHAQKYF myb-like 97.6 3.1E-05 6.6E-10 58.5 2.0 48 14-61 3-54 (57)
24 KOG0457 Histone acetyltransfer 97.5 0.00023 5E-09 72.5 6.6 50 64-113 69-119 (438)
25 TIGR01557 myb_SHAQKYF myb-like 97.4 0.00046 1E-08 52.1 6.1 47 67-113 3-55 (57)
26 KOG0457 Histone acetyltransfer 97.3 7.3E-05 1.6E-09 76.1 1.0 49 12-61 70-118 (438)
27 PF13325 MCRS_N: N-terminal re 97.2 0.00096 2.1E-08 62.2 6.7 103 16-120 1-134 (199)
28 TIGR02894 DNA_bind_RsfA transc 97.1 0.00086 1.9E-08 60.5 5.5 52 66-118 3-61 (161)
29 PF13837 Myb_DNA-bind_4: Myb/S 97.0 0.0011 2.4E-08 52.4 4.4 53 67-120 1-71 (90)
30 COG5259 RSC8 RSC chromatin rem 96.9 0.0012 2.6E-08 68.0 5.0 45 67-111 279-323 (531)
31 KOG1279 Chromatin remodeling f 96.8 0.0016 3.4E-08 68.2 5.3 46 66-111 252-297 (506)
32 PF08914 Myb_DNA-bind_2: Rap1 96.7 0.0025 5.4E-08 49.4 4.3 51 67-117 2-62 (65)
33 COG5259 RSC8 RSC chromatin rem 96.5 0.00082 1.8E-08 69.2 0.6 46 13-60 278-323 (531)
34 PF13873 Myb_DNA-bind_5: Myb/S 96.2 0.015 3.2E-07 45.3 6.2 51 67-117 2-74 (78)
35 PRK13923 putative spore coat p 96.2 0.0079 1.7E-07 54.9 5.1 52 65-117 3-61 (170)
36 KOG1279 Chromatin remodeling f 96.1 0.0026 5.6E-08 66.6 1.7 46 13-60 252-297 (506)
37 PF13837 Myb_DNA-bind_4: Myb/S 95.8 0.0015 3.2E-08 51.7 -1.2 48 14-61 1-64 (90)
38 PF08914 Myb_DNA-bind_2: Rap1 95.7 0.0021 4.6E-08 49.8 -0.5 51 14-64 2-60 (65)
39 TIGR02894 DNA_bind_RsfA transc 95.1 0.0041 8.8E-08 56.2 -0.9 50 12-63 2-57 (161)
40 COG5114 Histone acetyltransfer 95.1 0.028 6E-07 56.0 4.6 49 65-113 61-110 (432)
41 PLN03142 Probable chromatin-re 94.4 0.13 2.8E-06 58.5 8.1 101 16-117 826-989 (1033)
42 PF13873 Myb_DNA-bind_5: Myb/S 94.0 0.01 2.2E-07 46.2 -1.0 49 13-61 1-69 (78)
43 COG5114 Histone acetyltransfer 93.1 0.024 5.1E-07 56.5 -0.3 50 12-62 61-110 (432)
44 KOG4282 Transcription factor G 93.1 0.26 5.6E-06 48.8 7.0 53 67-120 54-120 (345)
45 PRK13923 putative spore coat p 92.0 0.028 6E-07 51.4 -1.4 50 11-62 2-57 (170)
46 PF09111 SLIDE: SLIDE; InterP 91.9 0.32 7E-06 41.9 5.2 51 64-114 46-112 (118)
47 COG5118 BDP1 Transcription ini 91.6 0.76 1.6E-05 47.0 8.1 56 67-122 365-420 (507)
48 KOG2656 DNA methyltransferase 91.1 0.14 3E-06 52.3 2.4 84 35-119 74-188 (445)
49 PF12776 Myb_DNA-bind_3: Myb/S 90.3 0.97 2.1E-05 36.0 6.2 49 69-118 1-67 (96)
50 KOG1194 Predicted DNA-binding 87.0 1.8 3.8E-05 45.3 6.9 49 66-114 186-234 (534)
51 PF08281 Sigma70_r4_2: Sigma-7 81.0 4.7 0.0001 28.8 5.2 41 72-113 12-52 (54)
52 KOG4282 Transcription factor G 80.4 0.68 1.5E-05 45.8 0.8 47 15-61 55-113 (345)
53 smart00595 MADF subfamily of S 79.4 4.3 9.3E-05 31.9 4.9 28 89-117 30-57 (89)
54 PF13404 HTH_AsnC-type: AsnC-t 74.0 12 0.00027 26.3 5.5 39 72-111 2-41 (42)
55 PF09111 SLIDE: SLIDE; InterP 72.9 2.3 5E-05 36.7 1.9 34 11-44 46-82 (118)
56 PF11626 Rap1_C: TRF2-interact 71.2 3.9 8.5E-05 33.0 2.7 24 10-33 43-74 (87)
57 KOG4167 Predicted DNA-binding 68.3 9.4 0.0002 42.3 5.6 45 67-111 619-663 (907)
58 COG5118 BDP1 Transcription ini 68.0 2.6 5.5E-05 43.3 1.3 45 14-60 365-409 (507)
59 PRK11179 DNA-binding transcrip 65.9 15 0.00032 32.2 5.6 44 72-116 8-52 (153)
60 KOG4468 Polycomb-group transcr 63.3 12 0.00025 40.7 5.0 57 67-124 88-154 (782)
61 PF04545 Sigma70_r4: Sigma-70, 62.8 27 0.00059 24.6 5.5 41 73-114 7-47 (50)
62 PF11035 SnAPC_2_like: Small n 61.2 33 0.00072 34.6 7.5 51 67-118 21-75 (344)
63 KOG4468 Polycomb-group transcr 60.8 7.9 0.00017 41.9 3.3 48 13-62 87-144 (782)
64 KOG4329 DNA-binding protein [G 60.3 14 0.0003 38.0 4.8 44 68-111 278-322 (445)
65 PRK11169 leucine-responsive tr 58.4 20 0.00043 31.8 5.0 44 72-116 13-57 (164)
66 PF12776 Myb_DNA-bind_3: Myb/S 57.9 6.5 0.00014 31.2 1.7 44 16-59 1-60 (96)
67 PF01388 ARID: ARID/BRIGHT DNA 57.0 30 0.00064 27.5 5.4 38 77-114 40-90 (92)
68 PF02260 FATC: FATC domain; I 55.1 3.4 7.3E-05 27.9 -0.3 15 200-214 16-30 (33)
69 PF10545 MADF_DNA_bdg: Alcohol 53.4 25 0.00054 26.6 4.3 28 89-116 29-57 (85)
70 KOG4167 Predicted DNA-binding 53.3 6.2 0.00013 43.6 1.1 45 13-59 618-662 (907)
71 TIGR02985 Sig70_bacteroi1 RNA 53.0 45 0.00097 27.9 6.2 38 76-114 119-156 (161)
72 PRK11179 DNA-binding transcrip 50.9 4.9 0.00011 35.3 -0.1 47 19-67 8-54 (153)
73 PF13325 MCRS_N: N-terminal re 49.8 31 0.00068 32.5 5.0 45 69-114 1-48 (199)
74 smart00501 BRIGHT BRIGHT, ARID 49.7 43 0.00093 26.9 5.2 39 77-115 36-87 (93)
75 PF07750 GcrA: GcrA cell cycle 48.4 25 0.00054 31.8 4.0 40 69-109 2-41 (162)
76 PF13404 HTH_AsnC-type: AsnC-t 47.8 4.2 9.2E-05 28.7 -0.8 38 20-59 3-40 (42)
77 PRK11169 leucine-responsive tr 46.4 4.7 0.0001 35.9 -1.0 46 19-66 13-58 (164)
78 cd08319 Death_RAIDD Death doma 45.8 34 0.00073 27.7 4.0 31 75-106 2-32 (83)
79 TIGR02937 sigma70-ECF RNA poly 45.8 62 0.0014 26.1 5.8 35 79-114 119-153 (158)
80 PF09420 Nop16: Ribosome bioge 45.0 40 0.00087 30.2 4.8 47 66-112 113-163 (164)
81 PF11626 Rap1_C: TRF2-interact 44.5 16 0.00035 29.4 2.0 17 63-79 43-59 (87)
82 PRK09652 RNA polymerase sigma 44.3 81 0.0017 27.0 6.5 33 81-114 139-171 (182)
83 KOG2009 Transcription initiati 43.8 26 0.00056 37.9 3.9 51 65-115 407-457 (584)
84 PRK11924 RNA polymerase sigma 42.9 94 0.002 26.5 6.7 30 84-114 139-168 (179)
85 KOG2656 DNA methyltransferase 42.0 11 0.00024 38.9 0.8 49 12-61 128-181 (445)
86 cd06171 Sigma70_r4 Sigma70, re 41.4 1E+02 0.0022 20.4 5.4 36 74-110 14-49 (55)
87 PF07638 Sigma70_ECF: ECF sigm 41.4 84 0.0018 28.2 6.4 39 74-113 139-177 (185)
88 KOG0384 Chromodomain-helicase 39.8 27 0.00058 41.0 3.4 75 13-94 1132-1207(1373)
89 PF11035 SnAPC_2_like: Small n 39.8 84 0.0018 31.8 6.5 85 14-112 21-126 (344)
90 PRK04217 hypothetical protein; 38.7 1.2E+02 0.0027 25.8 6.6 46 69-116 42-87 (110)
91 PF04504 DUF573: Protein of un 38.0 1E+02 0.0022 25.6 5.8 47 68-114 5-64 (98)
92 smart00344 HTH_ASNC helix_turn 37.2 91 0.002 25.1 5.4 44 72-116 2-46 (108)
93 cd08803 Death_ank3 Death domai 36.4 61 0.0013 26.2 4.2 31 75-106 4-34 (84)
94 PRK09643 RNA polymerase sigma 36.3 1.3E+02 0.0029 26.8 6.8 30 84-114 148-177 (192)
95 TIGR02939 RpoE_Sigma70 RNA pol 36.1 95 0.0021 27.1 5.7 29 86-115 154-182 (190)
96 KOG3554 Histone deacetylase co 36.0 43 0.00094 35.6 4.0 42 68-109 286-328 (693)
97 PRK09641 RNA polymerase sigma 35.4 1.2E+02 0.0026 26.3 6.3 29 85-114 151-179 (187)
98 PF02954 HTH_8: Bacterial regu 35.1 1.1E+02 0.0025 21.0 4.9 34 73-107 5-38 (42)
99 cd08317 Death_ank Death domain 34.8 51 0.0011 26.1 3.5 31 75-106 4-34 (84)
100 PRK12512 RNA polymerase sigma 34.7 1.3E+02 0.0027 26.4 6.3 34 85-119 146-179 (184)
101 TIGR02954 Sig70_famx3 RNA poly 34.6 1.2E+02 0.0026 26.1 6.1 29 85-114 134-162 (169)
102 PRK09047 RNA polymerase factor 31.4 1.9E+02 0.0041 24.4 6.7 29 85-114 121-149 (161)
103 PRK12515 RNA polymerase sigma 31.3 1.7E+02 0.0037 25.8 6.6 30 85-115 146-175 (189)
104 TIGR02948 SigW_bacill RNA poly 30.6 1.5E+02 0.0032 25.8 6.0 28 86-114 152-179 (187)
105 cd08318 Death_NMPP84 Death dom 29.8 82 0.0018 25.2 3.9 28 78-106 10-37 (86)
106 PRK11923 algU RNA polymerase s 29.5 1.7E+02 0.0037 25.7 6.3 28 86-114 154-181 (193)
107 PRK12531 RNA polymerase sigma 29.0 1.9E+02 0.0041 25.7 6.5 29 85-114 156-184 (194)
108 KOG3841 TEF-1 and related tran 28.8 1.4E+02 0.003 31.1 6.1 59 65-123 74-153 (455)
109 PRK09637 RNA polymerase sigma 28.6 1.9E+02 0.0041 25.6 6.4 30 84-114 120-149 (181)
110 PRK09642 RNA polymerase sigma 28.4 2.1E+02 0.0046 24.2 6.6 29 85-114 121-149 (160)
111 PRK09648 RNA polymerase sigma 28.4 1.9E+02 0.0042 25.4 6.5 29 85-114 154-182 (189)
112 TIGR02943 Sig70_famx1 RNA poly 28.4 2.1E+02 0.0046 25.4 6.8 32 83-115 144-175 (188)
113 PRK09645 RNA polymerase sigma 28.0 2.1E+02 0.0045 24.7 6.5 29 85-114 133-161 (173)
114 PRK12529 RNA polymerase sigma 27.4 1.8E+02 0.004 25.5 6.1 34 84-118 141-174 (178)
115 cd08804 Death_ank2 Death domai 26.9 96 0.0021 24.9 3.8 31 75-106 4-34 (84)
116 PRK12523 RNA polymerase sigma 26.8 2E+02 0.0044 24.9 6.2 35 80-115 129-163 (172)
117 cd08777 Death_RIP1 Death Domai 26.5 89 0.0019 25.2 3.6 29 77-106 4-32 (86)
118 PRK12527 RNA polymerase sigma 26.1 2.8E+02 0.006 23.6 6.9 31 85-116 120-150 (159)
119 PRK12530 RNA polymerase sigma 25.7 2.4E+02 0.0051 25.1 6.6 29 85-114 149-177 (189)
120 smart00005 DEATH DEATH domain, 25.4 98 0.0021 23.9 3.6 30 75-105 5-35 (88)
121 PRK12514 RNA polymerase sigma 24.6 2.4E+02 0.0052 24.5 6.3 28 86-114 145-172 (179)
122 PRK05602 RNA polymerase sigma 24.2 2.4E+02 0.0052 24.7 6.3 29 85-114 143-171 (186)
123 COG1522 Lrp Transcriptional re 23.8 2.1E+02 0.0045 24.3 5.6 44 72-116 7-51 (154)
124 smart00344 HTH_ASNC helix_turn 23.7 29 0.00062 28.0 0.2 44 20-65 3-46 (108)
125 PLN03142 Probable chromatin-re 23.6 1.5E+02 0.0033 34.4 5.9 47 68-114 825-872 (1033)
126 PRK13919 putative RNA polymera 23.6 2.6E+02 0.0056 24.4 6.3 28 86-114 151-178 (186)
127 cd08779 Death_PIDD Death Domai 22.9 1.1E+02 0.0024 24.5 3.5 26 76-102 3-28 (86)
128 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 22.9 2.5E+02 0.0053 20.8 5.0 36 73-109 7-42 (50)
129 cd08805 Death_ank1 Death domai 22.6 1.2E+02 0.0026 24.6 3.6 27 75-102 4-30 (84)
130 COG2963 Transposase and inacti 22.4 2.8E+02 0.006 22.7 6.0 43 67-110 5-48 (116)
131 PRK12532 RNA polymerase sigma 22.4 2.8E+02 0.0061 24.5 6.4 29 85-114 151-179 (195)
132 COG1522 Lrp Transcriptional re 22.4 26 0.00056 29.9 -0.3 45 20-66 8-52 (154)
133 PRK12516 RNA polymerase sigma 21.8 3.1E+02 0.0066 24.5 6.5 31 83-114 129-159 (187)
134 COG2197 CitB Response regulato 21.8 1.5E+02 0.0033 27.3 4.6 44 68-114 147-190 (211)
135 PRK12536 RNA polymerase sigma 21.4 3.1E+02 0.0066 24.0 6.4 30 84-114 143-172 (181)
136 PRK09647 RNA polymerase sigma 21.3 3.3E+02 0.0072 24.7 6.7 31 85-116 153-183 (203)
137 TIGR02983 SigE-fam_strep RNA p 21.1 3E+02 0.0065 23.3 6.1 38 76-114 116-153 (162)
138 cd08311 Death_p75NR Death doma 21.1 1.1E+02 0.0025 24.3 3.2 33 72-106 2-34 (77)
139 TIGR02999 Sig-70_X6 RNA polyme 20.8 3.3E+02 0.0072 23.5 6.4 29 85-114 149-177 (183)
140 PRK01905 DNA-binding protein F 20.5 2.8E+02 0.0061 21.6 5.3 34 72-106 36-69 (77)
141 TIGR02952 Sig70_famx2 RNA poly 20.3 3.2E+02 0.0069 23.1 6.1 27 86-113 138-164 (170)
142 PRK12524 RNA polymerase sigma 20.3 3.5E+02 0.0075 24.1 6.5 29 85-114 151-179 (196)
143 TIGR02984 Sig-70_plancto1 RNA 20.1 3.4E+02 0.0074 23.4 6.4 29 85-114 155-183 (189)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=4e-37 Score=306.82 Aligned_cols=128 Identities=53% Similarity=1.001 Sum_probs=122.2
Q ss_pred CCCCCccCCCCCccCCCCHHHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccccCCCCCCCCChHHHHHHHH
Q 018746 1 MGRPPCCDKIGIKKGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTDQEEKMIIH 80 (351)
Q Consensus 1 MgR~~cc~Kp~ikKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P~ikkg~WT~EED~~Ll~ 80 (351)
|||++||+|.+++|++||+|||++|+++|++||.++|..||+.++.+|+++|||+||.+||+|.+++++||.|||++|++
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999998778999999999999999999999999999999999
Q ss_pred HHHHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhHHHHHhhhhhcCCCC
Q 018746 81 LQALLGNRWAAIASYLRQRTDNDIKNYWNTHLKKKVKKLQLAAAGCSE 128 (351)
Q Consensus 81 lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~LkkklkK~~~s~~~~~~ 128 (351)
+|.+||++|..||++|||||+++||+||+.+|+++++..++.+..+++
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~kp 128 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKP 128 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCCCC
Confidence 999999999999999999999999999999999999888777664433
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=8.7e-37 Score=286.23 Aligned_cols=123 Identities=58% Similarity=1.160 Sum_probs=117.0
Q ss_pred CCCccCCCCCccCCCCHHHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccccCCCCCCCCChHHHHHHHHHH
Q 018746 3 RPPCCDKIGIKKGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTDQEEKMIIHLQ 82 (351)
Q Consensus 3 R~~cc~Kp~ikKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P~ikkg~WT~EED~~Ll~lv 82 (351)
|+|||+|+++++++||+|||++|+++|++||..+|..||+.++.+|+++|||+||.|||+|.+++++||.|||++|+++|
T Consensus 14 ~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~ 93 (249)
T PLN03212 14 TTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLH 93 (249)
T ss_pred CCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHH
Confidence 67999999999999999999999999999999999999999876899999999999999999999999999999999999
Q ss_pred HHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhHHHHHhhhhhcC
Q 018746 83 ALLGNRWAAIASYLRQRTDNDIKNYWNTHLKKKVKKLQLAAAG 125 (351)
Q Consensus 83 ~k~G~~W~~IAk~LpgRT~~qcKnRW~~~LkkklkK~~~s~~~ 125 (351)
.+||++|..||++|||||+++|||||+.++++++.+.++.+..
T Consensus 94 ~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~~ 136 (249)
T PLN03212 94 RLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQT 136 (249)
T ss_pred HhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCCC
Confidence 9999999999999999999999999999999988876655543
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=7e-35 Score=273.48 Aligned_cols=111 Identities=59% Similarity=1.028 Sum_probs=107.3
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccccCCCCCCCCChHHHHHHHHHHHHhCCcH
Q 018746 10 IGIKKGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTDQEEKMIIHLQALLGNRW 89 (351)
Q Consensus 10 p~ikKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P~ikkg~WT~EED~~Ll~lv~k~G~~W 89 (351)
+.+.||+||+|||++|++||++||+++|..|++.+|++|++++||+||.|||+|++++|.||+|||.+|++|+.+||++|
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrW 84 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRW 84 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHH
Confidence 34558999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHcCCCCHHHHHHHHHHHhhHHHHHhh
Q 018746 90 AAIASYLRQRTDNDIKNYWNTHLKKKVKKLQ 120 (351)
Q Consensus 90 ~~IAk~LpgRT~~qcKnRW~~~LkkklkK~~ 120 (351)
+.||++|||||++.|||+|+.+|++++.+.+
T Consensus 85 s~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 9999999999999999999999999998876
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.79 E-value=9.9e-20 Score=188.06 Aligned_cols=108 Identities=26% Similarity=0.450 Sum_probs=101.4
Q ss_pred CCCCCccCCCCCccCCCCHHHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccccCCCCCCCCChHHHHHHHH
Q 018746 1 MGRPPCCDKIGIKKGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTDQEEKMIIH 80 (351)
Q Consensus 1 MgR~~cc~Kp~ikKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P~ikkg~WT~EED~~Ll~ 80 (351)
+||......|++++|+||++||.+|+.+|.+||.++|-+|-..++ +|+..|||+||.|+|+...|++.|+-.||+.|+.
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 578888899999999999999999999999999999999999999 9999999999999999999999999999999999
Q ss_pred HHHHhC-CcHHHHHHHcCCCCHHHHHHHHH
Q 018746 81 LQALLG-NRWAAIASYLRQRTDNDIKNYWN 109 (351)
Q Consensus 81 lv~k~G-~~W~~IAk~LpgRT~~qcKnRW~ 109 (351)
+|.+|| ++|.+||.+||+||..|...|=.
T Consensus 426 ~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~ 455 (939)
T KOG0049|consen 426 AVKVYGKGNWAKCAMLLPKKTSRQLRRRRL 455 (939)
T ss_pred HHHHHccchHHHHHHHccccchhHHHHHHH
Confidence 999999 78999999999999966554433
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.75 E-value=1.1e-18 Score=180.42 Aligned_cols=137 Identities=23% Similarity=0.398 Sum_probs=115.1
Q ss_pred cCCCCCccCCCCHHHHHHHHHHHHHhCCCCCccccccCCCccccccccc-------------------------------
Q 018746 7 CDKIGIKKGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRL------------------------------- 55 (351)
Q Consensus 7 c~Kp~ikKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~------------------------------- 55 (351)
...|.++|..|++|||++|..+...++..+|..||..+|..|+..||..
T Consensus 246 ~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~~~~ 325 (939)
T KOG0049|consen 246 ELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKITSI 325 (939)
T ss_pred hcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHhhc
Confidence 4678899999999999999999999998899999999986688888876
Q ss_pred -----------------------cccccccCCCCCCCCChHHHHHHHHHHHHhCC-cHHHHHHHcCCCCHHHHHHHHHHH
Q 018746 56 -----------------------RWTNYLRPGIKRGNFTDQEEKMIIHLQALLGN-RWAAIASYLRQRTDNDIKNYWNTH 111 (351)
Q Consensus 56 -----------------------RW~n~L~P~ikkg~WT~EED~~Ll~lv~k~G~-~W~~IAk~LpgRT~~qcKnRW~~~ 111 (351)
||...|+|++++|+||.+||.+|+.+|.+||. .|.+|-+.+|||++.|||.||.+.
T Consensus 326 nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nv 405 (939)
T KOG0049|consen 326 NSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNV 405 (939)
T ss_pred cCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHH
Confidence 77777999999999999999999999999995 599999999999999999999999
Q ss_pred hhHHHHHhhhhhcCCCCCCchhhhhhhcccccccchhhHHH
Q 018746 112 LKKKVKKLQLAAAGCSEDNSQYRDELASASSQQISRGQWER 152 (351)
Q Consensus 112 LkkklkK~~~s~~~~~~~~~~~~~~~~s~ss~~~~~gqWe~ 152 (351)
|...+|+..++... +.........-..|+|..
T Consensus 406 L~~s~K~~rW~l~e---------deqL~~~V~~YG~g~Wak 437 (939)
T KOG0049|consen 406 LNRSAKVERWTLVE---------DEQLLYAVKVYGKGNWAK 437 (939)
T ss_pred HHHhhccCceeecc---------hHHHHHHHHHHccchHHH
Confidence 99998887766542 111122233446788875
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=99.61 E-value=2.6e-16 Score=117.41 Aligned_cols=60 Identities=40% Similarity=0.881 Sum_probs=55.1
Q ss_pred CCHHHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccccCCCCCCCCChHHHHHH
Q 018746 17 WTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTDQEEKMI 78 (351)
Q Consensus 17 WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P~ikkg~WT~EED~~L 78 (351)
||+|||++|+++|..|| .+|..||..|| .|++.||+.||.++|+|.+++++||.+||.+|
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 99999999999999999 69999999997 89999999999999999999999999999987
No 7
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.53 E-value=4.9e-15 Score=152.42 Aligned_cols=107 Identities=29% Similarity=0.542 Sum_probs=102.3
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccccCCCCCCCCChHHHHHHHHHHHHhCCcH
Q 018746 10 IGIKKGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTDQEEKMIIHLQALLGNRW 89 (351)
Q Consensus 10 p~ikKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P~ikkg~WT~EED~~Ll~lv~k~G~~W 89 (351)
..++.|.|+..||+.|..+|+.+|+++|..||..+. .|+++||+.||.++++|.+++..|+.+||..|+.+..++|.+|
T Consensus 16 ~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~w 94 (512)
T COG5147 16 TKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQW 94 (512)
T ss_pred ceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCchh
Confidence 457899999999999999999999999999999998 6899999999999999999999999999999999999999999
Q ss_pred HHHHHHcCCCCHHHHHHHHHHHhhHHHH
Q 018746 90 AAIASYLRQRTDNDIKNYWNTHLKKKVK 117 (351)
Q Consensus 90 ~~IAk~LpgRT~~qcKnRW~~~Lkkklk 117 (351)
..||..+++|+..+|.+||...+.....
T Consensus 95 stia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 95 STIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhccccCccchHHHHHHHHHHhhhhhc
Confidence 9999999999999999999988887665
No 8
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.49 E-value=2e-14 Score=135.76 Aligned_cols=95 Identities=17% Similarity=0.336 Sum_probs=82.0
Q ss_pred CCCCCCCCChHHHHHHHHHHHHhC-CcHHHHHHHc-CCCCHHHHHHHHHHHhhHHHHHhhhhhc---------CCCCCCc
Q 018746 63 PGIKRGNFTDQEEKMIIHLQALLG-NRWAAIASYL-RQRTDNDIKNYWNTHLKKKVKKLQLAAA---------GCSEDNS 131 (351)
Q Consensus 63 P~ikkg~WT~EED~~Ll~lv~k~G-~~W~~IAk~L-pgRT~~qcKnRW~~~LkkklkK~~~s~~---------~~~~~~~ 131 (351)
+++++++||.|||++|+++|++|| .+|..||+.+ ++||++|||.||.++|++.+++..++.+ ...+.+|
T Consensus 21 ~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~GnKW 100 (249)
T PLN03212 21 MGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRW 100 (249)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhccccH
Confidence 578999999999999999999999 6799999998 5999999999999999999999887765 2334567
Q ss_pred hhhhhhhcccccccchhhHHHhhhhH
Q 018746 132 QYRDELASASSQQISRGQWERRLQTD 157 (351)
Q Consensus 132 ~~~~~~~s~ss~~~~~gqWe~rLqt~ 157 (351)
..+.....+++...+++.|...|..+
T Consensus 101 s~IAk~LpGRTDnqIKNRWns~LrK~ 126 (249)
T PLN03212 101 SLIAGRIPGRTDNEIKNYWNTHLRKK 126 (249)
T ss_pred HHHHhhcCCCCHHHHHHHHHHHHhHH
Confidence 77777778888888999999877654
No 9
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.49 E-value=8e-15 Score=149.11 Aligned_cols=110 Identities=26% Similarity=0.550 Sum_probs=103.7
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccccCCCCCCCCChHHHHHHHHHHHHhCCcH
Q 018746 10 IGIKKGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTDQEEKMIIHLQALLGNRW 89 (351)
Q Consensus 10 p~ikKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P~ikkg~WT~EED~~Ll~lv~k~G~~W 89 (351)
+-++.|.|+.-||++|..+|.+||.+.|.+|++.+. ..+++||+.||..+|+|.|++..|+.+||++|+++...+...|
T Consensus 3 i~~kggvwrntEdeilkaav~kyg~nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qw 81 (617)
T KOG0050|consen 3 IEIKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQW 81 (617)
T ss_pred eEEecceecccHHHHHHHHHHHcchHHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCcc
Confidence 357889999999999999999999999999999998 7899999999999999999999999999999999999999999
Q ss_pred HHHHHHcCCCCHHHHHHHHHHHhhHHHHHhhh
Q 018746 90 AAIASYLRQRTDNDIKNYWNTHLKKKVKKLQL 121 (351)
Q Consensus 90 ~~IAk~LpgRT~~qcKnRW~~~LkkklkK~~~ 121 (351)
..|+..| ||+.+||-.||++++.....+..-
T Consensus 82 rtIa~i~-gr~~~qc~eRy~~ll~~~~s~~~~ 112 (617)
T KOG0050|consen 82 RTIADIM-GRTSQQCLERYNNLLDVYVSYHYH 112 (617)
T ss_pred chHHHHh-hhhHHHHHHHHHHHHHHHHhhhcc
Confidence 9999999 999999999999999987766543
No 10
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.48 E-value=1.4e-14 Score=136.35 Aligned_cols=96 Identities=14% Similarity=0.288 Sum_probs=84.7
Q ss_pred CCCCCCCCChHHHHHHHHHHHHhC-CcHHHHHHHcC-CCCHHHHHHHHHHHhhHHHHHhhhhhc---------CCCCCCc
Q 018746 63 PGIKRGNFTDQEEKMIIHLQALLG-NRWAAIASYLR-QRTDNDIKNYWNTHLKKKVKKLQLAAA---------GCSEDNS 131 (351)
Q Consensus 63 P~ikkg~WT~EED~~Ll~lv~k~G-~~W~~IAk~Lp-gRT~~qcKnRW~~~LkkklkK~~~s~~---------~~~~~~~ 131 (351)
+.+.+|+||.|||.+|+++|.+|| ++|..|++.++ +|++++||.||.++|++.+++..++.+ ...+.+|
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrW 84 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRW 84 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHH
Confidence 345579999999999999999999 56999999999 999999999999999999999888865 4556778
Q ss_pred hhhhhhhcccccccchhhHHHhhhhHH
Q 018746 132 QYRDELASASSQQISRGQWERRLQTDI 158 (351)
Q Consensus 132 ~~~~~~~s~ss~~~~~gqWe~rLqt~i 158 (351)
..+....++++++..++.|..+|..++
T Consensus 85 s~IA~~LPGRTDNeIKN~Wnt~lkkkl 111 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHWNTHLKKKL 111 (238)
T ss_pred HHHHhhCCCcCHHHHHHHHHHHHHHHH
Confidence 888888999999999999988885444
No 11
>PLN03091 hypothetical protein; Provisional
Probab=99.41 E-value=1.4e-13 Score=138.60 Aligned_cols=97 Identities=11% Similarity=0.292 Sum_probs=84.4
Q ss_pred CCCCCCCCChHHHHHHHHHHHHhC-CcHHHHHHHcC-CCCHHHHHHHHHHHhhHHHHHhhhhhc---------CCCCCCc
Q 018746 63 PGIKRGNFTDQEEKMIIHLQALLG-NRWAAIASYLR-QRTDNDIKNYWNTHLKKKVKKLQLAAA---------GCSEDNS 131 (351)
Q Consensus 63 P~ikkg~WT~EED~~Ll~lv~k~G-~~W~~IAk~Lp-gRT~~qcKnRW~~~LkkklkK~~~s~~---------~~~~~~~ 131 (351)
+.+++++||.|||++|+++|.+|| .+|..||+.++ +|+++|||.||+++|++.+++..++.+ ...+.+|
T Consensus 10 qklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnKW 89 (459)
T PLN03091 10 QKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRW 89 (459)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcch
Confidence 578899999999999999999999 57999999985 999999999999999999998887765 2235677
Q ss_pred hhhhhhhcccccccchhhHHHhhhhHHH
Q 018746 132 QYRDELASASSQQISRGQWERRLQTDIH 159 (351)
Q Consensus 132 ~~~~~~~s~ss~~~~~gqWe~rLqt~i~ 159 (351)
..+.....+++...+++.|...|+.+++
T Consensus 90 skIAk~LPGRTDnqIKNRWnslLKKklr 117 (459)
T PLN03091 90 SQIAAQLPGRTDNEIKNLWNSCLKKKLR 117 (459)
T ss_pred HHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 8888888889999999999998876654
No 12
>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=99.37 E-value=1.2e-12 Score=94.16 Aligned_cols=46 Identities=24% Similarity=0.512 Sum_probs=42.0
Q ss_pred CCCCChHHHHHHHHHHHHhCCc-HHHHHHHcC-CCCHHHHHHHHHHHh
Q 018746 67 RGNFTDQEEKMIIHLQALLGNR-WAAIASYLR-QRTDNDIKNYWNTHL 112 (351)
Q Consensus 67 kg~WT~EED~~Ll~lv~k~G~~-W~~IAk~Lp-gRT~~qcKnRW~~~L 112 (351)
+++||+|||++|+++|.+||.. |..||..|| +||..||++||++++
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 13
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.35 E-value=6.4e-13 Score=138.42 Aligned_cols=101 Identities=29% Similarity=0.633 Sum_probs=92.1
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccccCC--CCCCCCChHHHHHHHHHHH-------
Q 018746 13 KKGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYLRPG--IKRGNFTDQEEKMIIHLQA------- 83 (351)
Q Consensus 13 kKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P~--ikkg~WT~EED~~Ll~lv~------- 83 (351)
.+|.||+||++.|..+|.++| +.|..|+..|+ |.+..||+||.+|..++ .+++.||.||+++|+++|.
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 79999999987 99999999999999887 4899999999999999995
Q ss_pred Hh-------C------------CcHHHHHHHcCCCCHHHHHHHHHHHhhHHH
Q 018746 84 LL-------G------------NRWAAIASYLRQRTDNDIKNYWNTHLKKKV 116 (351)
Q Consensus 84 k~-------G------------~~W~~IAk~LpgRT~~qcKnRW~~~Lkkkl 116 (351)
++ | =+|..|++.+..|+..|||-+|+.++....
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s 511 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPS 511 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHH
Confidence 33 1 149999999999999999999998887754
No 14
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.32 E-value=1.9e-13 Score=98.33 Aligned_cols=48 Identities=38% Similarity=0.738 Sum_probs=43.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccc
Q 018746 14 KGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYL 61 (351)
Q Consensus 14 Kg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L 61 (351)
|++||+|||++|+++|.+||.++|..||..|+.+|+..||+.||.++|
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 689999999999999999997679999999988999999999999875
No 15
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.26 E-value=3.1e-12 Score=95.43 Aligned_cols=52 Identities=31% Similarity=0.634 Sum_probs=43.2
Q ss_pred CChHHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhHHHHHhhh
Q 018746 70 FTDQEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWNTHLKKKVKKLQL 121 (351)
Q Consensus 70 WT~EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~LkkklkK~~~ 121 (351)
||++||.+|+++|.+||++|..||++|+.||..+|++||+.+|++.+++..+
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~w 52 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPW 52 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSS
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCc
Confidence 9999999999999999999999999997799999999999977765544433
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.17 E-value=6.3e-11 Score=82.34 Aligned_cols=47 Identities=36% Similarity=0.722 Sum_probs=44.3
Q ss_pred CCCCChHHHHHHHHHHHHhC-CcHHHHHHHcCCCCHHHHHHHHHHHhh
Q 018746 67 RGNFTDQEEKMIIHLQALLG-NRWAAIASYLRQRTDNDIKNYWNTHLK 113 (351)
Q Consensus 67 kg~WT~EED~~Ll~lv~k~G-~~W~~IAk~LpgRT~~qcKnRW~~~Lk 113 (351)
+++||.+||.+|+.++.+|| .+|..||..|++||..+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998764
No 17
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.05 E-value=4e-10 Score=77.23 Aligned_cols=44 Identities=27% Similarity=0.585 Sum_probs=41.8
Q ss_pred CCChHHHHHHHHHHHHhC-CcHHHHHHHcCCCCHHHHHHHHHHHh
Q 018746 69 NFTDQEEKMIIHLQALLG-NRWAAIASYLRQRTDNDIKNYWNTHL 112 (351)
Q Consensus 69 ~WT~EED~~Ll~lv~k~G-~~W~~IAk~LpgRT~~qcKnRW~~~L 112 (351)
+||.+||.+|+.++.+|| .+|..||..|++||..+|++||+.++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999998753
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.99 E-value=1.5e-10 Score=80.35 Aligned_cols=48 Identities=38% Similarity=0.832 Sum_probs=44.8
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCccccccCCCcccccccccccccccc
Q 018746 14 KGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYLR 62 (351)
Q Consensus 14 Kg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L~ 62 (351)
+++||++||++|+.++..||..+|..|+..++ +|++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~-~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcC-CCCHHHHHHHHHHHcC
Confidence 47899999999999999999779999999999 9999999999998764
No 19
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.83 E-value=1.1e-09 Score=74.97 Aligned_cols=45 Identities=40% Similarity=0.834 Sum_probs=42.1
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccc
Q 018746 16 PWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYL 61 (351)
Q Consensus 16 ~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L 61 (351)
+||+|||..|+.++..||..+|..|+..++ +|+..+|+.||.+++
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 20
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.60 E-value=4.5e-08 Score=102.65 Aligned_cols=130 Identities=25% Similarity=0.361 Sum_probs=97.3
Q ss_pred CccCCCCHHHHHHHHHHHHHhCC-----------------------CCCccccccCCCccccccccc---cccccccCCC
Q 018746 12 IKKGPWTPEEDIILVSYIQEHGP-----------------------GNWRAVPTNTGLLRCSKSCRL---RWTNYLRPGI 65 (351)
Q Consensus 12 ikKg~WT~EEDe~L~~lV~~~G~-----------------------~nW~~IA~~l~~~Rt~kQCR~---RW~n~L~P~i 65 (351)
++-+.|+.+||..|...|..|-. +-|+.|...|| .|+...+.. |=++.+.+
T Consensus 306 ~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~-- 382 (607)
T KOG0051|consen 306 INLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFEN-- 382 (607)
T ss_pred hhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCcccc--
Confidence 34489999999999999987710 12567777788 499888866 33344444
Q ss_pred CCCCCChHHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhHHHHHhhhhhcCCCCCCchhhhhhhccccccc
Q 018746 66 KRGNFTDQEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWNTHLKKKVKKLQLAAAGCSEDNSQYRDELASASSQQI 145 (351)
Q Consensus 66 kkg~WT~EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~LkkklkK~~~s~~~~~~~~~~~~~~~~s~ss~~~ 145 (351)
++|.||++|++.|..+|.++|+.|..|++.| ||.+..|+.||..+....- ..
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~---------------------------~~ 434 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGS---------------------------KR 434 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhcccc---------------------------cc
Confidence 8999999999999999999999999999999 9999999999997655421 13
Q ss_pred chhhHHHhhhhHH-HHHHHHHhhhcCCC
Q 018746 146 SRGQWERRLQTDI-HMAKQALCAALSPD 172 (351)
Q Consensus 146 ~~gqWe~rLqt~i-~~a~q~~~~als~~ 172 (351)
.+|.|..-....+ .....-++++++++
T Consensus 435 ~r~~Ws~eEe~~Llk~V~~~~~~~~q~q 462 (607)
T KOG0051|consen 435 NRGAWSIEEEEKLLKTVNEMIREALQPQ 462 (607)
T ss_pred ccCcchHHHHHHHHHHHHHHHHHhhccc
Confidence 4566665544443 44456666666664
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=98.29 E-value=8e-08 Score=99.66 Aligned_cols=98 Identities=28% Similarity=0.624 Sum_probs=85.8
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccccC--CCCCCCCChHHHHHHHHHHHHhC----
Q 018746 13 KKGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYLRP--GIKRGNFTDQEEKMIIHLQALLG---- 86 (351)
Q Consensus 13 kKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P--~ikkg~WT~EED~~Ll~lv~k~G---- 86 (351)
.+|.||+||+..|...+..+| ..|..|...++ |-+..||+||.+|..+ .+++++|+.||+.+|...|...-
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 69999998776 9999999999999988 68889999999999999887432
Q ss_pred ----CcHHHHHHHcCCCCHHHHHHHHHHHhh
Q 018746 87 ----NRWAAIASYLRQRTDNDIKNYWNTHLK 113 (351)
Q Consensus 87 ----~~W~~IAk~LpgRT~~qcKnRW~~~Lk 113 (351)
-.|..|++++++|..-+|+.++..+..
T Consensus 367 ~~~~~~~~li~~~~~~~~~~~~~~~~~~~~~ 397 (512)
T COG5147 367 QSSRILWLLIAQNIRNRLQHHCRDKYGVLIS 397 (512)
T ss_pred hhhhhhHHHHHHhhhccccCCCCCccccccc
Confidence 249999999999999888887765444
No 22
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.78 E-value=2.4e-05 Score=80.98 Aligned_cols=60 Identities=28% Similarity=0.524 Sum_probs=56.2
Q ss_pred CCCCCCChHHHHHHHHHHHHhC-CcHHHHHHHcCCCCHHHHHHHHHHHhhHHHHHhhhhhc
Q 018746 65 IKRGNFTDQEEKMIIHLQALLG-NRWAAIASYLRQRTDNDIKNYWNTHLKKKVKKLQLAAA 124 (351)
Q Consensus 65 ikkg~WT~EED~~Ll~lv~k~G-~~W~~IAk~LpgRT~~qcKnRW~~~LkkklkK~~~s~~ 124 (351)
++.|.|+.-||+.|...|.+|| +.|++|++.++-.|..||++||+.++++.+++..++..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~e 65 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSRE 65 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhh
Confidence 5678999999999999999999 67999999999999999999999999999999887765
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=97.61 E-value=3.1e-05 Score=58.52 Aligned_cols=48 Identities=13% Similarity=0.216 Sum_probs=43.0
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCC---ccccccCCCcc-ccccccccccccc
Q 018746 14 KGPWTPEEDIILVSYIQEHGPGNW---RAVPTNTGLLR-CSKSCRLRWTNYL 61 (351)
Q Consensus 14 Kg~WT~EEDe~L~~lV~~~G~~nW---~~IA~~l~~~R-t~kQCR~RW~n~L 61 (351)
+-.||+||..+++++|+.+|.++| ..|+..|...| +..||+.+++.|.
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 567999999999999999998899 99999887567 9999999988764
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.46 E-value=0.00023 Score=72.49 Aligned_cols=50 Identities=22% Similarity=0.416 Sum_probs=45.0
Q ss_pred CCCCCCCChHHHHHHHHHHHHhC-CcHHHHHHHcCCCCHHHHHHHHHHHhh
Q 018746 64 GIKRGNFTDQEEKMIIHLQALLG-NRWAAIASYLRQRTDNDIKNYWNTHLK 113 (351)
Q Consensus 64 ~ikkg~WT~EED~~Ll~lv~k~G-~~W~~IAk~LpgRT~~qcKnRW~~~Lk 113 (351)
.+-...||.+|+.+|++++..|| ++|..||.+++.|+..+|+.+|.+++-
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHh
Confidence 34567899999999999999999 999999999999999999999986543
No 25
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.41 E-value=0.00046 Score=52.15 Aligned_cols=47 Identities=15% Similarity=0.237 Sum_probs=41.1
Q ss_pred CCCCChHHHHHHHHHHHHhCC-cH---HHHHHHcC-CC-CHHHHHHHHHHHhh
Q 018746 67 RGNFTDQEEKMIIHLQALLGN-RW---AAIASYLR-QR-TDNDIKNYWNTHLK 113 (351)
Q Consensus 67 kg~WT~EED~~Ll~lv~k~G~-~W---~~IAk~Lp-gR-T~~qcKnRW~~~Lk 113 (351)
+-.||+||..++++++..||. +| ..|++.|. .| |..||+.+...+..
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 558999999999999999996 99 99999985 45 99999999876543
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.31 E-value=7.3e-05 Score=76.06 Aligned_cols=49 Identities=24% Similarity=0.636 Sum_probs=45.9
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccc
Q 018746 12 IKKGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYL 61 (351)
Q Consensus 12 ikKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L 61 (351)
+-...||.+|+-.|++++..||.+||..||.++| .|+..+|+++|.+++
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 27
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.17 E-value=0.00096 Score=62.17 Aligned_cols=103 Identities=17% Similarity=0.382 Sum_probs=74.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCccccccCCCc--ccccccccccccccc-CCC--------------------CCCCCCh
Q 018746 16 PWTPEEDIILVSYIQEHGPGNWRAVPTNTGLL--RCSKSCRLRWTNYLR-PGI--------------------KRGNFTD 72 (351)
Q Consensus 16 ~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~--Rt~kQCR~RW~n~L~-P~i--------------------kkg~WT~ 72 (351)
+|++++|-.|+.+|..-. +-..|+.-+.+. -|-..+.+||+..|. |.+ .+-+||.
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 699999999999998654 666666554433 366788999998753 322 3568999
Q ss_pred HHHHHHHHHHHHhCC---cHHHHHH-----HcCCCCHHHHHHHHHHHhhHHHHHhh
Q 018746 73 QEEKMIIHLQALLGN---RWAAIAS-----YLRQRTDNDIKNYWNTHLKKKVKKLQ 120 (351)
Q Consensus 73 EED~~Ll~lv~k~G~---~W~~IAk-----~LpgRT~~qcKnRW~~~LkkklkK~~ 120 (351)
+|+++|......... .+.+|=. +-++||++++.++|..+.+..+-..+
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~LL~DQ 134 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHLLPDQ 134 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhchhhcc
Confidence 999999997765543 4766622 33689999999999976555554433
No 28
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.10 E-value=0.00086 Score=60.47 Aligned_cols=52 Identities=15% Similarity=0.289 Sum_probs=45.7
Q ss_pred CCCCCChHHHHHHHHHHHHhC---C----cHHHHHHHcCCCCHHHHHHHHHHHhhHHHHH
Q 018746 66 KRGNFTDQEEKMIIHLQALLG---N----RWAAIASYLRQRTDNDIKNYWNTHLKKKVKK 118 (351)
Q Consensus 66 kkg~WT~EED~~Ll~lv~k~G---~----~W~~IAk~LpgRT~~qcKnRW~~~LkkklkK 118 (351)
+...||.|||.+|-+.|.+|= . -+..++..| +||...|.-|||.++++++..
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~ 61 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEE 61 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHH
Confidence 457899999999999999873 2 389999999 999999999999999998754
No 29
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.96 E-value=0.0011 Score=52.45 Aligned_cols=53 Identities=42% Similarity=0.676 Sum_probs=37.2
Q ss_pred CCCCChHHHHHHHHHHHH------hC--C------cHHHHHHHcC----CCCHHHHHHHHHHHhhHHHHHhh
Q 018746 67 RGNFTDQEEKMIIHLQAL------LG--N------RWAAIASYLR----QRTDNDIKNYWNTHLKKKVKKLQ 120 (351)
Q Consensus 67 kg~WT~EED~~Ll~lv~k------~G--~------~W~~IAk~Lp----gRT~~qcKnRW~~~LkkklkK~~ 120 (351)
+..||.+|...||+++.. ++ + -|..||..|. .||..||+++|.+ |++.+++..
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~-L~~~Yk~~k 71 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKN-LKKKYKKIK 71 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHH-HHHHHHCSS
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHHHHHHHH
Confidence 357999999999999877 22 1 3999999883 6999999999998 555565543
No 30
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.89 E-value=0.0012 Score=68.04 Aligned_cols=45 Identities=16% Similarity=0.280 Sum_probs=42.3
Q ss_pred CCCCChHHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHH
Q 018746 67 RGNFTDQEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWNTH 111 (351)
Q Consensus 67 kg~WT~EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~ 111 (351)
..+||.+|..+|++.++.||..|.+||++++.||..||--||-++
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 448999999999999999999999999999999999999999764
No 31
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.81 E-value=0.0016 Score=68.23 Aligned_cols=46 Identities=17% Similarity=0.375 Sum_probs=43.0
Q ss_pred CCCCCChHHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHH
Q 018746 66 KRGNFTDQEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWNTH 111 (351)
Q Consensus 66 kkg~WT~EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~ 111 (351)
.+..||++|..+|++.|..||..|.+||.++.+||..||-.++..+
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhc
Confidence 4678999999999999999999999999999999999999998754
No 32
>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=96.69 E-value=0.0025 Score=49.41 Aligned_cols=51 Identities=16% Similarity=0.362 Sum_probs=33.0
Q ss_pred CCCCChHHHHHHHHHHHHhC--------Cc-HHHHHHHcC-CCCHHHHHHHHHHHhhHHHH
Q 018746 67 RGNFTDQEEKMIIHLQALLG--------NR-WAAIASYLR-QRTDNDIKNYWNTHLKKKVK 117 (351)
Q Consensus 67 kg~WT~EED~~Ll~lv~k~G--------~~-W~~IAk~Lp-gRT~~qcKnRW~~~Lkkklk 117 (351)
+.+||.+||..|++.|.++. ++ |.++++.-+ .+|-...|+||...|.++..
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 45899999999999996642 22 999999888 99999999999988877643
No 33
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.50 E-value=0.00082 Score=69.18 Aligned_cols=46 Identities=22% Similarity=0.575 Sum_probs=43.2
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCccccccCCCcccccccccccccc
Q 018746 13 KKGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNY 60 (351)
Q Consensus 13 kKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~ 60 (351)
....|+.+|..+|++.|+.|| .+|.+||.++| .|+..||..||.++
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 99999999999875
No 34
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.22 E-value=0.015 Score=45.29 Aligned_cols=51 Identities=27% Similarity=0.518 Sum_probs=41.4
Q ss_pred CCCCChHHHHHHHHHHHHhC----C-------------cHHHHHHHc-----CCCCHHHHHHHHHHHhhHHHH
Q 018746 67 RGNFTDQEEKMIIHLQALLG----N-------------RWAAIASYL-----RQRTDNDIKNYWNTHLKKKVK 117 (351)
Q Consensus 67 kg~WT~EED~~Ll~lv~k~G----~-------------~W~~IAk~L-----pgRT~~qcKnRW~~~Lkkklk 117 (351)
...||.+|...|++++.+|. + -|..|+..| +.||..+||.+|.++...-.+
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 45799999999999998873 1 299999987 269999999999986665433
No 35
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.19 E-value=0.0079 Score=54.88 Aligned_cols=52 Identities=13% Similarity=0.308 Sum_probs=44.0
Q ss_pred CCCCCCChHHHHHHHHHHHHhCCc-------HHHHHHHcCCCCHHHHHHHHHHHhhHHHH
Q 018746 65 IKRGNFTDQEEKMIIHLQALLGNR-------WAAIASYLRQRTDNDIKNYWNTHLKKKVK 117 (351)
Q Consensus 65 ikkg~WT~EED~~Ll~lv~k~G~~-------W~~IAk~LpgRT~~qcKnRW~~~Lkkklk 117 (351)
.+...||.|||.+|-+.|..|+.. ...++..| +||..+|.-|||.++++++.
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Ye 61 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQ 61 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHH
Confidence 356789999999999999888732 67777888 99999999999999998763
No 36
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.09 E-value=0.0026 Score=66.63 Aligned_cols=46 Identities=24% Similarity=0.640 Sum_probs=42.9
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCccccccCCCcccccccccccccc
Q 018746 13 KKGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNY 60 (351)
Q Consensus 13 kKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~ 60 (351)
-++.||.+|+.+|+++|+.|| .+|.+|+.+++ .|+..||-.++.+.
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~-ddW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYG-DDWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhc-ccHHHHHhccC-CCCHHHHHHHHHhc
Confidence 477899999999999999999 59999999999 99999999998774
No 37
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.81 E-value=0.0015 Score=51.67 Aligned_cols=48 Identities=27% Similarity=0.629 Sum_probs=32.8
Q ss_pred cCCCCHHHHHHHHHHHHH--h----C--C-----CCCccccccC---CCccccccccccccccc
Q 018746 14 KGPWTPEEDIILVSYIQE--H----G--P-----GNWRAVPTNT---GLLRCSKSCRLRWTNYL 61 (351)
Q Consensus 14 Kg~WT~EEDe~L~~lV~~--~----G--~-----~nW~~IA~~l---~~~Rt~kQCR~RW~n~L 61 (351)
+-.||.+|...|+.++.. + + . .-|..||..| |..|++.||+.||.++.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 357999999999999887 2 1 1 1499999775 56799999999998853
No 38
>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=95.75 E-value=0.0021 Score=49.81 Aligned_cols=51 Identities=25% Similarity=0.445 Sum_probs=32.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCC--------CCCccccccCCCccccccccccccccccCC
Q 018746 14 KGPWTPEEDIILVSYIQEHGP--------GNWRAVPTNTGLLRCSKSCRLRWTNYLRPG 64 (351)
Q Consensus 14 Kg~WT~EEDe~L~~lV~~~G~--------~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P~ 64 (351)
+.+||.|||++|+++|..+.. .=|.+++..-+..++-.+-|+||...|.+.
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 138888877665788889999999988754
No 39
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=95.13 E-value=0.0041 Score=56.21 Aligned_cols=50 Identities=30% Similarity=0.735 Sum_probs=42.0
Q ss_pred CccCCCCHHHHHHHHHHHHHh---CC---CCCccccccCCCccccccccccccccccC
Q 018746 12 IKKGPWTPEEDIILVSYIQEH---GP---GNWRAVPTNTGLLRCSKSCRLRWTNYLRP 63 (351)
Q Consensus 12 ikKg~WT~EEDe~L~~lV~~~---G~---~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P 63 (351)
.+...||.|||.+|-+.|-+| |. ....+|+..++ ||+.-|.-||..+++.
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 467789999999999999888 21 15788888876 9999999999999874
No 40
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.09 E-value=0.028 Score=55.98 Aligned_cols=49 Identities=27% Similarity=0.504 Sum_probs=43.7
Q ss_pred CCCCCCChHHHHHHHHHHHHhC-CcHHHHHHHcCCCCHHHHHHHHHHHhh
Q 018746 65 IKRGNFTDQEEKMIIHLQALLG-NRWAAIASYLRQRTDNDIKNYWNTHLK 113 (351)
Q Consensus 65 ikkg~WT~EED~~Ll~lv~k~G-~~W~~IAk~LpgRT~~qcKnRW~~~Lk 113 (351)
|--..|+..|+.+|++...-+| ++|..||.+++.|+...||.+|..+..
T Consensus 61 I~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 61 IGEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred ccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 3345799999999999999999 899999999999999999999876554
No 41
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.36 E-value=0.13 Score=58.48 Aligned_cols=101 Identities=11% Similarity=0.311 Sum_probs=74.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCccccccCCCccccccccc----------------------------------------
Q 018746 16 PWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRL---------------------------------------- 55 (351)
Q Consensus 16 ~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~---------------------------------------- 55 (351)
.|+.-+=..++.+..+||..+-..||..|. +++...++.
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 477777777888888999888888988886 566655542
Q ss_pred --------ccccc-c-cCCCCCCCCChHHHHHHHHHHHHhC-CcHHHHHHH------------cCCCCHHHHHHHHHHHh
Q 018746 56 --------RWTNY-L-RPGIKRGNFTDQEEKMIIHLQALLG-NRWAAIASY------------LRQRTDNDIKNYWNTHL 112 (351)
Q Consensus 56 --------RW~n~-L-~P~ikkg~WT~EED~~Ll~lv~k~G-~~W~~IAk~------------LpgRT~~qcKnRW~~~L 112 (351)
-|... + .+..++..||++||..|+..+.+|| .+|..|-.. +..||+..|..|...++
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 12110 0 1223455799999999999999999 779999443 24699999999999888
Q ss_pred hHHHH
Q 018746 113 KKKVK 117 (351)
Q Consensus 113 kkklk 117 (351)
+-..+
T Consensus 985 ~~~~~ 989 (1033)
T PLN03142 985 RLIEK 989 (1033)
T ss_pred HHHHH
Confidence 76533
No 42
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=93.97 E-value=0.01 Score=46.23 Aligned_cols=49 Identities=24% Similarity=0.447 Sum_probs=39.3
Q ss_pred ccCCCCHHHHHHHHHHHHHhCC----------------CCCccccccC----CCccccccccccccccc
Q 018746 13 KKGPWTPEEDIILVSYIQEHGP----------------GNWRAVPTNT----GLLRCSKSCRLRWTNYL 61 (351)
Q Consensus 13 kKg~WT~EEDe~L~~lV~~~G~----------------~nW~~IA~~l----~~~Rt~kQCR~RW~n~L 61 (351)
++..||++|.+.|+++|.+|.. .-|..|+..| +..|+..||+.+|.++.
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 4568999999999999999821 2499998664 22699999999998864
No 43
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=93.10 E-value=0.024 Score=56.48 Aligned_cols=50 Identities=20% Similarity=0.554 Sum_probs=45.7
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCCccccccCCCcccccccccccccccc
Q 018746 12 IKKGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYLR 62 (351)
Q Consensus 12 ikKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L~ 62 (351)
|---.|+..|+.+|++..+-.|-+||..||..+| .|....|+++|..++.
T Consensus 61 I~~e~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 61 IGEEGWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred ccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 3455799999999999999999999999999999 9999999999998765
No 44
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=93.10 E-value=0.26 Score=48.80 Aligned_cols=53 Identities=21% Similarity=0.361 Sum_probs=41.3
Q ss_pred CCCCChHHHHHHHHHHHHh----------CCcHHHHHHHcC----CCCHHHHHHHHHHHhhHHHHHhh
Q 018746 67 RGNFTDQEEKMIIHLQALL----------GNRWAAIASYLR----QRTDNDIKNYWNTHLKKKVKKLQ 120 (351)
Q Consensus 67 kg~WT~EED~~Ll~lv~k~----------G~~W~~IAk~Lp----gRT~~qcKnRW~~~LkkklkK~~ 120 (351)
...|+.+|-..||++..+. +.-|..||+.+. -||+.+||++|.++.++ +++..
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~-Yk~~k 120 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKK-YKKEK 120 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHH-HHHHh
Confidence 4689999999999998653 234999999653 69999999999985554 55543
No 45
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=92.01 E-value=0.028 Score=51.40 Aligned_cols=50 Identities=24% Similarity=0.523 Sum_probs=38.9
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCC------CCccccccCCCcccccccccccccccc
Q 018746 11 GIKKGPWTPEEDIILVSYIQEHGPG------NWRAVPTNTGLLRCSKSCRLRWTNYLR 62 (351)
Q Consensus 11 ~ikKg~WT~EEDe~L~~lV~~~G~~------nW~~IA~~l~~~Rt~kQCR~RW~n~L~ 62 (351)
..++..||.|||.+|-+.|-.|+.. -...++..+. |++..|..||..+++
T Consensus 2 k~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 2 KTRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred cchhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 3578899999999999988888542 2445555555 999999999977765
No 46
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=91.94 E-value=0.32 Score=41.90 Aligned_cols=51 Identities=20% Similarity=0.447 Sum_probs=40.2
Q ss_pred CCCCCCCChHHHHHHHHHHHHhCC----cHHHHHHH------------cCCCCHHHHHHHHHHHhhH
Q 018746 64 GIKRGNFTDQEEKMIIHLQALLGN----RWAAIASY------------LRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 64 ~ikkg~WT~EED~~Ll~lv~k~G~----~W~~IAk~------------LpgRT~~qcKnRW~~~Lkk 114 (351)
..++..||++||..|+.++.+||- .|..|-.. +..||+..|..|.+.+++-
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~ 112 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKL 112 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHH
Confidence 456779999999999999999995 69888653 3469999999999988765
No 47
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=91.62 E-value=0.76 Score=47.00 Aligned_cols=56 Identities=16% Similarity=0.243 Sum_probs=47.2
Q ss_pred CCCCChHHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhHHHHHhhhh
Q 018746 67 RGNFTDQEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWNTHLKKKVKKLQLA 122 (351)
Q Consensus 67 kg~WT~EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~LkkklkK~~~s 122 (351)
..+|+.+|-++...+...+|..+.-|+..||.|...|||.+|.+--++.-.+...+
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~nP~rIn~a 420 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKVNPERINEA 420 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhhCHHHHHHH
Confidence 34899999999999999999999999999999999999999987655543333333
No 48
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=91.15 E-value=0.14 Score=52.26 Aligned_cols=84 Identities=19% Similarity=0.330 Sum_probs=63.0
Q ss_pred CCCccccccCCCccccccccccccccccCC-------------------------CCCCCCChHHHHHHHHHHHHhCCcH
Q 018746 35 GNWRAVPTNTGLLRCSKSCRLRWTNYLRPG-------------------------IKRGNFTDQEEKMIIHLQALLGNRW 89 (351)
Q Consensus 35 ~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P~-------------------------ikkg~WT~EED~~Ll~lv~k~G~~W 89 (351)
..|.-++-..+ -|...-...+|...-++. +....||.+|-+.|++|...|.-+|
T Consensus 74 ~~W~w~pFtn~-aRkD~~~l~HWvr~~d~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf 152 (445)
T KOG2656|consen 74 RPWKWVPFTNS-ARKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRF 152 (445)
T ss_pred CCceeeccCCc-cccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeE
Confidence 36766664444 566666677777663321 1234699999999999999999999
Q ss_pred HHHHHH-----cCC-CCHHHHHHHHHHHhhHHHHHh
Q 018746 90 AAIASY-----LRQ-RTDNDIKNYWNTHLKKKVKKL 119 (351)
Q Consensus 90 ~~IAk~-----Lpg-RT~~qcKnRW~~~LkkklkK~ 119 (351)
-.||.. ++. ||-.++|.||+...++.++..
T Consensus 153 ~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr 188 (445)
T KOG2656|consen 153 FVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKAR 188 (445)
T ss_pred EEEeeccchhhccccccHHHHHHHHHHHHHHHHHcc
Confidence 999876 665 999999999999887766543
No 49
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=90.31 E-value=0.97 Score=35.99 Aligned_cols=49 Identities=31% Similarity=0.557 Sum_probs=36.7
Q ss_pred CCChHHHHHHHHHHHHh---CC----------cHHHHHHHcC-----CCCHHHHHHHHHHHhhHHHHH
Q 018746 69 NFTDQEEKMIIHLQALL---GN----------RWAAIASYLR-----QRTDNDIKNYWNTHLKKKVKK 118 (351)
Q Consensus 69 ~WT~EED~~Ll~lv~k~---G~----------~W~~IAk~Lp-----gRT~~qcKnRW~~~LkkklkK 118 (351)
.||++++..|++++.+. |+ .|..|+..|. ..+..||++||.. |++..+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~-lk~~y~~ 67 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKT-LKKDYRI 67 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHH-HHHHHHH
Confidence 49999999999998653 21 2999998773 4588999999986 4444443
No 50
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=86.97 E-value=1.8 Score=45.26 Aligned_cols=49 Identities=14% Similarity=0.251 Sum_probs=44.2
Q ss_pred CCCCCChHHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 66 KRGNFTDQEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 66 kkg~WT~EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
....||.||--++-+++..||.++.+|-+.||.|+-..+..+|+...+.
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~ 234 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKT 234 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHH
Confidence 3568999999999999999999999999999999999999998865544
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=80.95 E-value=4.7 Score=28.78 Aligned_cols=41 Identities=22% Similarity=0.305 Sum_probs=30.4
Q ss_pred hHHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHHhh
Q 018746 72 DQEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWNTHLK 113 (351)
Q Consensus 72 ~EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lk 113 (351)
++++..++.++...|-.|.+||..+ |.+...|+.+....++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARK 52 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHh
Confidence 4677888888888999999999999 9999999998765443
No 52
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=80.41 E-value=0.68 Score=45.84 Aligned_cols=47 Identities=26% Similarity=0.471 Sum_probs=37.5
Q ss_pred CCCCHHHHHHHHHHHHHh---------CCCCCcccccc---CCCccccccccccccccc
Q 018746 15 GPWTPEEDIILVSYIQEH---------GPGNWRAVPTN---TGLLRCSKSCRLRWTNYL 61 (351)
Q Consensus 15 g~WT~EEDe~L~~lV~~~---------G~~nW~~IA~~---l~~~Rt~kQCR~RW~n~L 61 (351)
..|+.+|-..|+.+.... ....|..||.. .|..|++.||+.+|.|+.
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 689999999999987643 12369999974 456699999999998854
No 53
>smart00595 MADF subfamily of SANT domain.
Probab=79.37 E-value=4.3 Score=31.90 Aligned_cols=28 Identities=21% Similarity=0.423 Sum_probs=23.1
Q ss_pred HHHHHHHcCCCCHHHHHHHHHHHhhHHHH
Q 018746 89 WAAIASYLRQRTDNDIKNYWNTHLKKKVK 117 (351)
Q Consensus 89 W~~IAk~LpgRT~~qcKnRW~~~Lkkklk 117 (351)
|..||..| +-+..+|+.+|+++-..-.+
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~~y~~ 57 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRDRYRR 57 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHHHHHH
Confidence 99999999 44999999999986555443
No 54
>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=73.96 E-value=12 Score=26.30 Aligned_cols=39 Identities=18% Similarity=0.283 Sum_probs=30.4
Q ss_pred hHHHHHHHHHHHHhCC-cHHHHHHHcCCCCHHHHHHHHHHH
Q 018746 72 DQEEKMIIHLQALLGN-RWAAIASYLRQRTDNDIKNYWNTH 111 (351)
Q Consensus 72 ~EED~~Ll~lv~k~G~-~W~~IAk~LpgRT~~qcKnRW~~~ 111 (351)
++=|.+|+.+...-|. .|.+||+.+ |=|...|..|+..+
T Consensus 2 D~~D~~Il~~Lq~d~r~s~~~la~~l-glS~~~v~~Ri~rL 41 (42)
T PF13404_consen 2 DELDRKILRLLQEDGRRSYAELAEEL-GLSESTVRRRIRRL 41 (42)
T ss_dssp -HHHHHHHHHHHH-TTS-HHHHHHHH-TS-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHcCCccHHHHHHHH-CcCHHHHHHHHHHh
Confidence 3568889999988884 499999999 99999999998753
No 55
>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=72.85 E-value=2.3 Score=36.68 Aligned_cols=34 Identities=29% Similarity=0.524 Sum_probs=27.9
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCC---CCCccccccC
Q 018746 11 GIKKGPWTPEEDIILVSYIQEHGP---GNWRAVPTNT 44 (351)
Q Consensus 11 ~ikKg~WT~EEDe~L~~lV~~~G~---~nW~~IA~~l 44 (351)
+-++..||.|||.-|+-++.+||. +.|..|-..+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 556888999999999999999998 8998887553
No 56
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=71.15 E-value=3.9 Score=32.97 Aligned_cols=24 Identities=42% Similarity=0.736 Sum_probs=13.9
Q ss_pred CCCccCCCCHHHHHHH--------HHHHHHhC
Q 018746 10 IGIKKGPWTPEEDIIL--------VSYIQEHG 33 (351)
Q Consensus 10 p~ikKg~WT~EEDe~L--------~~lV~~~G 33 (351)
|.-..|-||+|+|+.| .+++++||
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG 74 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHG 74 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH-
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC
Confidence 3445889999999999 44667777
No 57
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=68.34 E-value=9.4 Score=42.26 Aligned_cols=45 Identities=13% Similarity=0.217 Sum_probs=41.5
Q ss_pred CCCCChHHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHH
Q 018746 67 RGNFTDQEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWNTH 111 (351)
Q Consensus 67 kg~WT~EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~ 111 (351)
...||..|-.++-+++..|.+.+..|++.++++|-.||-.+|+..
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 458999999999999999999999999999999999999987753
No 58
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=68.04 E-value=2.6 Score=43.30 Aligned_cols=45 Identities=11% Similarity=0.145 Sum_probs=41.0
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCccccccCCCcccccccccccccc
Q 018746 14 KGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNY 60 (351)
Q Consensus 14 Kg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~ 60 (351)
--+|+.+|-+++.+++...|. ++..|+..+| .|..+|++.+|.+-
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP-~R~RkqIKaKfi~E 409 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGT-DFSLISSLFP-NRERKQIKAKFIKE 409 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcc-hHHHHHHhcC-chhHHHHHHHHHHH
Confidence 347999999999999999995 9999999999 99999999998764
No 59
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=65.89 E-value=15 Score=32.18 Aligned_cols=44 Identities=11% Similarity=0.089 Sum_probs=37.8
Q ss_pred hHHHHHHHHHHHHhC-CcHHHHHHHcCCCCHHHHHHHHHHHhhHHH
Q 018746 72 DQEEKMIIHLQALLG-NRWAAIASYLRQRTDNDIKNYWNTHLKKKV 116 (351)
Q Consensus 72 ~EED~~Ll~lv~k~G-~~W~~IAk~LpgRT~~qcKnRW~~~Lkkkl 116 (351)
++-|.+|+++..+-| -.|++||+.+ |-+...|+.|++.+....+
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 467899999998888 4599999999 9999999999988766654
No 60
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=63.32 E-value=12 Score=40.72 Aligned_cols=57 Identities=16% Similarity=0.390 Sum_probs=43.3
Q ss_pred CCCCChHHHHHHHHHHHHhCCcHHHHHHHc----------CCCCHHHHHHHHHHHhhHHHHHhhhhhc
Q 018746 67 RGNFTDQEEKMIIHLQALLGNRWAAIASYL----------RQRTDNDIKNYWNTHLKKKVKKLQLAAA 124 (351)
Q Consensus 67 kg~WT~EED~~Ll~lv~k~G~~W~~IAk~L----------pgRT~~qcKnRW~~~LkkklkK~~~s~~ 124 (351)
+..||.+|+.-...++.++|+.+.+|-.++ .-+|-.|++.+|+..+.+- .|.-+.++
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m-~k~~F~~~ 154 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRM-NKLLFGPD 154 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHH-Hhhhcccc
Confidence 668999999999999999999999983332 3357789999998877664 33334443
No 61
>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=62.78 E-value=27 Score=24.57 Aligned_cols=41 Identities=24% Similarity=0.325 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 73 QEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 73 EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
+++..++.++-..|-.+.+||..| |-+...|+.+-...+++
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 455566666555567799999999 88999999887765554
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=61.25 E-value=33 Score=34.63 Aligned_cols=51 Identities=22% Similarity=0.438 Sum_probs=39.0
Q ss_pred CCCCChHHHHHHHHHHHHh-CCc---HHHHHHHcCCCCHHHHHHHHHHHhhHHHHH
Q 018746 67 RGNFTDQEEKMIIHLQALL-GNR---WAAIASYLRQRTDNDIKNYWNTHLKKKVKK 118 (351)
Q Consensus 67 kg~WT~EED~~Ll~lv~k~-G~~---W~~IAk~LpgRT~~qcKnRW~~~LkkklkK 118 (351)
-..||.-|...|+.+.+-. |.. -.+|++.++||+..+|++.-.. ||.++.+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~-LK~rvar 75 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQ-LKGRVAR 75 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHH-HHHHHHH
Confidence 4589999999999887754 433 5789999999999999997665 4444433
No 63
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=60.80 E-value=7.9 Score=41.94 Aligned_cols=48 Identities=17% Similarity=0.333 Sum_probs=36.3
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCcccccc----------CCCcccccccccccccccc
Q 018746 13 KKGPWTPEEDIILVSYIQEHGPGNWRAVPTN----------TGLLRCSKSCRLRWTNYLR 62 (351)
Q Consensus 13 kKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~----------l~~~Rt~kQCR~RW~n~L~ 62 (351)
+|..||..|.+.+..+++++| .+...|-.. .. -++-.|.|.+|++.+.
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~-~Ktkdqvr~~yY~~~~ 144 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQ-SKTKDQVRHYYYRLVR 144 (782)
T ss_pred cccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchh-hhhhHHHHHHHHHHHH
Confidence 367899999999999999999 688888221 21 2566788888877543
No 64
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=60.28 E-value=14 Score=37.99 Aligned_cols=44 Identities=16% Similarity=0.322 Sum_probs=39.5
Q ss_pred CCCChHHHHHHHHHHHHhCCcHHHHH-HHcCCCCHHHHHHHHHHH
Q 018746 68 GNFTDQEEKMIIHLQALLGNRWAAIA-SYLRQRTDNDIKNYWNTH 111 (351)
Q Consensus 68 g~WT~EED~~Ll~lv~k~G~~W~~IA-k~LpgRT~~qcKnRW~~~ 111 (351)
..|+++|-+..-+.++.||+.+..|. ..++.|+-..|-.+|+..
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHh
Confidence 37999999999999999999999995 578999999999988753
No 65
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=58.37 E-value=20 Score=31.82 Aligned_cols=44 Identities=7% Similarity=-0.017 Sum_probs=37.8
Q ss_pred hHHHHHHHHHHHHhC-CcHHHHHHHcCCCCHHHHHHHHHHHhhHHH
Q 018746 72 DQEEKMIIHLQALLG-NRWAAIASYLRQRTDNDIKNYWNTHLKKKV 116 (351)
Q Consensus 72 ~EED~~Ll~lv~k~G-~~W~~IAk~LpgRT~~qcKnRW~~~Lkkkl 116 (351)
++-|.+|+.+.++-| -.|.+||+.+ |-+...|+.|++.+.+..+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 667889999888888 4599999999 9999999999998766654
No 66
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=57.86 E-value=6.5 Score=31.18 Aligned_cols=44 Identities=30% Similarity=0.684 Sum_probs=28.5
Q ss_pred CCCHHHHHHHHHHHHHh---CC----C-----CCccccccC----CCccccccccccccc
Q 018746 16 PWTPEEDIILVSYIQEH---GP----G-----NWRAVPTNT----GLLRCSKSCRLRWTN 59 (351)
Q Consensus 16 ~WT~EEDe~L~~lV~~~---G~----~-----nW~~IA~~l----~~~Rt~kQCR~RW~n 59 (351)
.||+++++.|++++... |. + .|..|+..| +...+..||+.||..
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~ 60 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKT 60 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHH
Confidence 59999999999987554 21 1 266666554 233456677777654
No 67
>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=57.02 E-value=30 Score=27.47 Aligned_cols=38 Identities=16% Similarity=0.285 Sum_probs=28.0
Q ss_pred HHHHHHHHhCC--------cHHHHHHHcCC---CC--HHHHHHHHHHHhhH
Q 018746 77 MIIHLQALLGN--------RWAAIASYLRQ---RT--DNDIKNYWNTHLKK 114 (351)
Q Consensus 77 ~Ll~lv~k~G~--------~W~~IAk~Lpg---RT--~~qcKnRW~~~Lkk 114 (351)
.|..+|.+.|+ .|..|++.|.- -+ ..++|..|..+|.+
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 37777777774 59999999842 12 36889999888764
No 68
>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=55.07 E-value=3.4 Score=27.94 Aligned_cols=15 Identities=40% Similarity=0.904 Sum_probs=13.0
Q ss_pred cccHHHHHHHHhhhh
Q 018746 200 ASSTENIAKLLKGWT 214 (351)
Q Consensus 200 ass~eni~rll~~w~ 214 (351)
|.+.+|+++|-.|||
T Consensus 16 At~~~nLa~my~GW~ 30 (33)
T PF02260_consen 16 ATDPENLARMYIGWM 30 (33)
T ss_dssp HHHHHHHHHHCTSS-
T ss_pred HcCHHHHHHHhcchh
Confidence 678999999999998
No 69
>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=53.44 E-value=25 Score=26.61 Aligned_cols=28 Identities=25% Similarity=0.431 Sum_probs=22.7
Q ss_pred HHHHHHHcC-CCCHHHHHHHHHHHhhHHH
Q 018746 89 WAAIASYLR-QRTDNDIKNYWNTHLKKKV 116 (351)
Q Consensus 89 W~~IAk~Lp-gRT~~qcKnRW~~~Lkkkl 116 (351)
|..||..|. .-+..+|+.+|.++...-.
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~~y~ 57 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRDRYR 57 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHHHHH
Confidence 999999996 3678899999998665543
No 70
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=53.27 E-value=6.2 Score=43.60 Aligned_cols=45 Identities=13% Similarity=0.205 Sum_probs=40.4
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCccccccCCCccccccccccccc
Q 018746 13 KKGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTN 59 (351)
Q Consensus 13 kKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n 59 (351)
-...||+.|-.++.+++-.|. +++..|++.++ +++.+||-+-|+.
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 9999999887764
No 71
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=53.03 E-value=45 Score=27.87 Aligned_cols=38 Identities=21% Similarity=0.258 Sum_probs=27.9
Q ss_pred HHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 76 KMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 76 ~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
..++.+.-..|-.+.+||..+ |.+...|+.+....+++
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 334444334567899999999 89999999998874443
No 72
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=50.88 E-value=4.9 Score=35.27 Aligned_cols=47 Identities=13% Similarity=0.169 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccccCCCCC
Q 018746 19 PEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYLRPGIKR 67 (351)
Q Consensus 19 ~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P~ikk 67 (351)
.+-|.+|+.++++.|...|.+||+.++ -+...|+.|+.+....++-+
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCee
Confidence 467999999999999899999999987 78999999999887666543
No 73
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=49.77 E-value=31 Score=32.47 Aligned_cols=45 Identities=13% Similarity=0.274 Sum_probs=35.4
Q ss_pred CCChHHHHHHHHHHHHhCCcHHHHHHHcC---CCCHHHHHHHHHHHhhH
Q 018746 69 NFTDQEEKMIIHLQALLGNRWAAIASYLR---QRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 69 ~WT~EED~~Ll~lv~k~G~~W~~IAk~Lp---gRT~~qcKnRW~~~Lkk 114 (351)
.|+.++|.+|+..|.. |+.-..|+.-++ .-|-..|..||+.+|--
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd 48 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLYD 48 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHcC
Confidence 4999999999998865 566677766543 56999999999987744
No 74
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=49.74 E-value=43 Score=26.87 Aligned_cols=39 Identities=18% Similarity=0.274 Sum_probs=28.9
Q ss_pred HHHHHHHHhCC--------cHHHHHHHcCCC-----CHHHHHHHHHHHhhHH
Q 018746 77 MIIHLQALLGN--------RWAAIASYLRQR-----TDNDIKNYWNTHLKKK 115 (351)
Q Consensus 77 ~Ll~lv~k~G~--------~W~~IAk~LpgR-----T~~qcKnRW~~~Lkkk 115 (351)
.|..+|.+.|+ .|..|++.|.-. ...++|..|..+|.+-
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 36777777764 599999998432 3578899898888763
No 75
>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=48.40 E-value=25 Score=31.81 Aligned_cols=40 Identities=20% Similarity=0.140 Sum_probs=33.8
Q ss_pred CCChHHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHH
Q 018746 69 NFTDQEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWN 109 (351)
Q Consensus 69 ~WT~EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~ 109 (351)
.||+|+.++|.+|. .-|-.=.+||..|++.|.|.|.-+-+
T Consensus 2 ~Wtde~~~~L~~lw-~~G~SasqIA~~lg~vsRnAViGk~h 41 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGLSASQIARQLGGVSRNAVIGKAH 41 (162)
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHhCCcchhhhhhhhh
Confidence 59999999999887 44777899999998799998876554
No 76
>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=47.76 E-value=4.2 Score=28.65 Aligned_cols=38 Identities=21% Similarity=0.330 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHhCCCCCccccccCCCccccccccccccc
Q 018746 20 EEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTN 59 (351)
Q Consensus 20 EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n 59 (351)
+=|.+|+.+++..+...|.+||..+| =+...|+.|+..
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 45889999999999899999999988 677888888653
No 77
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=46.43 E-value=4.7 Score=35.85 Aligned_cols=46 Identities=17% Similarity=0.196 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccccCCCC
Q 018746 19 PEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYLRPGIK 66 (351)
Q Consensus 19 ~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P~ik 66 (351)
.+-|.+|+.+.++.|.-.|.+||+.++ -+...|+.|+.+..+.++-
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 567999999999999899999999988 7888999999887766653
No 78
>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=45.85 E-value=34 Score=27.71 Aligned_cols=31 Identities=23% Similarity=0.407 Sum_probs=25.0
Q ss_pred HHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHH
Q 018746 75 EKMIIHLQALLGNRWAAIASYLRQRTDNDIKN 106 (351)
Q Consensus 75 D~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKn 106 (351)
|+.|..+....|..|..+|.+| |=|..+|..
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I~~ 32 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDIYR 32 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 5668889999999999999999 666665543
No 79
>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=45.76 E-value=62 Score=26.10 Aligned_cols=35 Identities=26% Similarity=0.249 Sum_probs=25.8
Q ss_pred HHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 79 IHLQALLGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 79 l~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
+.++-..|..+.+||+.+ |-+...|+++.+..+++
T Consensus 119 i~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 119 LVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred HhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333334577899999999 67999999988875444
No 80
>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=45.01 E-value=40 Score=30.19 Aligned_cols=47 Identities=19% Similarity=0.213 Sum_probs=39.3
Q ss_pred CCCCCChHHHHHHHHHHHHhCCcHHHHHHHcC----CCCHHHHHHHHHHHh
Q 018746 66 KRGNFTDQEEKMIIHLQALLGNRWAAIASYLR----QRTDNDIKNYWNTHL 112 (351)
Q Consensus 66 kkg~WT~EED~~Ll~lv~k~G~~W~~IAk~Lp----gRT~~qcKnRW~~~L 112 (351)
....-|..|...|..|+.+||.++..++.-.. ..|..||+.+...+.
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 34578899999999999999999999987542 689999999877653
No 81
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=44.47 E-value=16 Score=29.40 Aligned_cols=17 Identities=24% Similarity=0.487 Sum_probs=10.1
Q ss_pred CCCCCCCCChHHHHHHH
Q 018746 63 PGIKRGNFTDQEEKMII 79 (351)
Q Consensus 63 P~ikkg~WT~EED~~Ll 79 (351)
|....|-||.++|..|.
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 55668899999999994
No 82
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=44.27 E-value=81 Score=26.96 Aligned_cols=33 Identities=12% Similarity=0.131 Sum_probs=25.2
Q ss_pred HHHHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 81 LQALLGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 81 lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
+....|-.+..||..| |.+...|+.+....+++
T Consensus 139 l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 139 LREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREA 171 (182)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334567899999999 88999999887764444
No 83
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=43.79 E-value=26 Score=37.93 Aligned_cols=51 Identities=14% Similarity=0.301 Sum_probs=44.6
Q ss_pred CCCCCCChHHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhHH
Q 018746 65 IKRGNFTDQEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWNTHLKKK 115 (351)
Q Consensus 65 ikkg~WT~EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkkk 115 (351)
...++|+.+|-.+.......+|...+.|+..+|+|...|||.++..-=++.
T Consensus 407 ~~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE~r~ 457 (584)
T KOG2009|consen 407 LETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEEKRN 457 (584)
T ss_pred cccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhhhcc
Confidence 346789999999999999999999999999999999999999887544443
No 84
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=42.94 E-value=94 Score=26.46 Aligned_cols=30 Identities=17% Similarity=0.131 Sum_probs=24.0
Q ss_pred HhCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 84 LLGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 84 k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
..|-.+..||..| |-+...|++++...+++
T Consensus 139 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 139 VEGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466799999999 88999999988765444
No 85
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=41.96 E-value=11 Score=38.91 Aligned_cols=49 Identities=12% Similarity=0.203 Sum_probs=41.9
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCCcccccc-----CCCccccccccccccccc
Q 018746 12 IKKGPWTPEEDIILVSYIQEHGPGNWRAVPTN-----TGLLRCSKSCRLRWTNYL 61 (351)
Q Consensus 12 ikKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~-----l~~~Rt~kQCR~RW~n~L 61 (351)
+.-..||.||-+-|.++.++|. -.|--|+.. ++..|+....++||+.+.
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 4557899999999999999999 589999976 665599999999998764
No 86
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=41.41 E-value=1e+02 Score=20.37 Aligned_cols=36 Identities=19% Similarity=0.252 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHH
Q 018746 74 EEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWNT 110 (351)
Q Consensus 74 ED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~ 110 (351)
++..++.++-..|-.+..||..+ |-+...|+.+...
T Consensus 14 ~~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~ 49 (55)
T cd06171 14 REREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHR 49 (55)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHH
Confidence 34555556556677899999999 7777777776554
No 87
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=41.36 E-value=84 Score=28.18 Aligned_cols=39 Identities=13% Similarity=0.199 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHHhh
Q 018746 74 EEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWNTHLK 113 (351)
Q Consensus 74 ED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lk 113 (351)
+...++.+....|-.+.+||..| |-+...|+.+|.....
T Consensus 139 ~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR~ 177 (185)
T PF07638_consen 139 RQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRARA 177 (185)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 33444444444577899999999 9999999999987543
No 88
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=39.80 E-value=27 Score=40.96 Aligned_cols=75 Identities=16% Similarity=0.260 Sum_probs=47.8
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccccCCCCCCCCChHHHHHHHHHHHHh-CCcHHH
Q 018746 13 KKGPWTPEEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTDQEEKMIIHLQALL-GNRWAA 91 (351)
Q Consensus 13 kKg~WT~EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P~ikkg~WT~EED~~Ll~lv~k~-G~~W~~ 91 (351)
.-.-|..+||..|+-.|-+||.++|..|-.- +.-|... ...+...+-.+.|=..+-..|+.+.... +.+|.+
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 3456999999999999999999999998422 1111111 1122222445566667777777777766 455555
Q ss_pred HHH
Q 018746 92 IAS 94 (351)
Q Consensus 92 IAk 94 (351)
..+
T Consensus 1205 ~~~ 1207 (1373)
T KOG0384|consen 1205 KLK 1207 (1373)
T ss_pred hhh
Confidence 443
No 89
>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=39.79 E-value=84 Score=31.84 Aligned_cols=85 Identities=13% Similarity=0.195 Sum_probs=59.7
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCC---ccccccCCCccccccccccccccccCCCCCCCCChHHHHHHHHHHHH-h----
Q 018746 14 KGPWTPEEDIILVSYIQEHGPGNW---RAVPTNTGLLRCSKSCRLRWTNYLRPGIKRGNFTDQEEKMIIHLQAL-L---- 85 (351)
Q Consensus 14 Kg~WT~EEDe~L~~lV~~~G~~nW---~~IA~~l~~~Rt~kQCR~RW~n~L~P~ikkg~WT~EED~~Ll~lv~k-~---- 85 (351)
...|+.-|...|+.+.+......+ .+|++.+. +|+..++++ |.+.|+ +..+.+++++ |
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g~ 86 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRD-FLQQLK------------GRVAREAIQKVHPGGL 86 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHH-HHHHHH------------HHHHHHHHHHhccccc
Confidence 457999999999999987743444 46677787 899888876 344443 2344455544 2
Q ss_pred -CC------------cHHHHHHHcCCCCHHHHHHHHHHHh
Q 018746 86 -GN------------RWAAIASYLRQRTDNDIKNYWNTHL 112 (351)
Q Consensus 86 -G~------------~W~~IAk~LpgRT~~qcKnRW~~~L 112 (351)
|. -|..+|+.+-|.-...+-.-|-.+|
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l 126 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVL 126 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHH
Confidence 11 1999999999988888877776544
No 90
>PRK04217 hypothetical protein; Provisional
Probab=38.66 E-value=1.2e+02 Score=25.78 Aligned_cols=46 Identities=13% Similarity=0.011 Sum_probs=36.3
Q ss_pred CCChHHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhHHH
Q 018746 69 NFTDQEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWNTHLKKKV 116 (351)
Q Consensus 69 ~WT~EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkkkl 116 (351)
.-+.+| ..++.++...|-...+||+.+ |.+...|+.+++...++-.
T Consensus 42 ~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkkLr 87 (110)
T PRK04217 42 FMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKKVA 87 (110)
T ss_pred cCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHH
Confidence 455555 677777777788899999999 9999999999987555543
No 91
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=38.00 E-value=1e+02 Score=25.57 Aligned_cols=47 Identities=15% Similarity=0.215 Sum_probs=32.7
Q ss_pred CCCChHHHHHHHHHHHHh----C----CcHHHHHHHc----C-CCCHHHHHHHHHHHhhH
Q 018746 68 GNFTDQEEKMIIHLQALL----G----NRWAAIASYL----R-QRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 68 g~WT~EED~~Ll~lv~k~----G----~~W~~IAk~L----p-gRT~~qcKnRW~~~Lkk 114 (351)
.-||+++|..||+.+..| | ..|..+-.++ . .=+..|+.++-..+-++
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~K 64 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKK 64 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHH
Confidence 469999999999999877 5 2355544443 2 34778888887764444
No 92
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=37.21 E-value=91 Score=25.05 Aligned_cols=44 Identities=14% Similarity=0.083 Sum_probs=36.8
Q ss_pred hHHHHHHHHHHHHhC-CcHHHHHHHcCCCCHHHHHHHHHHHhhHHH
Q 018746 72 DQEEKMIIHLQALLG-NRWAAIASYLRQRTDNDIKNYWNTHLKKKV 116 (351)
Q Consensus 72 ~EED~~Ll~lv~k~G-~~W~~IAk~LpgRT~~qcKnRW~~~Lkkkl 116 (351)
++.|.+|+.+..+.| -.+..||+.+ |-+...|+.+...+.+..+
T Consensus 2 d~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~ 46 (108)
T smart00344 2 DEIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGV 46 (108)
T ss_pred CHHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 357888888888877 4699999999 9999999999988776654
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=36.41 E-value=61 Score=26.19 Aligned_cols=31 Identities=19% Similarity=0.354 Sum_probs=25.2
Q ss_pred HHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHH
Q 018746 75 EKMIIHLQALLGNRWAAIASYLRQRTDNDIKN 106 (351)
Q Consensus 75 D~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKn 106 (351)
|..|..+....|..|..+|..| |=+..+|.+
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI~~ 34 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEINQ 34 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHHHH
Confidence 6678888899999999999999 666655544
No 94
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=36.27 E-value=1.3e+02 Score=26.77 Aligned_cols=30 Identities=17% Similarity=0.160 Sum_probs=24.2
Q ss_pred HhCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 84 LLGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 84 k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
..|-...+||..| |-+...|++|+...+++
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 3466799999999 99999999998764444
No 95
>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=36.06 E-value=95 Score=27.07 Aligned_cols=29 Identities=10% Similarity=0.086 Sum_probs=23.3
Q ss_pred CCcHHHHHHHcCCCCHHHHHHHHHHHhhHH
Q 018746 86 GNRWAAIASYLRQRTDNDIKNYWNTHLKKK 115 (351)
Q Consensus 86 G~~W~~IAk~LpgRT~~qcKnRW~~~Lkkk 115 (351)
|-...+||..| |-+...|+++....+++-
T Consensus 154 ~~s~~EIA~~l-gis~~tv~~~l~rar~~L 182 (190)
T TIGR02939 154 GLSYEDIARIM-DCPVGTVRSRIFRAREAI 182 (190)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 55689999999 888999999987655543
No 96
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=36.02 E-value=43 Score=35.59 Aligned_cols=42 Identities=14% Similarity=0.323 Sum_probs=38.0
Q ss_pred CCCChHHHHHHHHHHHHhCCcHHHHH-HHcCCCCHHHHHHHHH
Q 018746 68 GNFTDQEEKMIIHLQALLGNRWAAIA-SYLRQRTDNDIKNYWN 109 (351)
Q Consensus 68 g~WT~EED~~Ll~lv~k~G~~W~~IA-k~LpgRT~~qcKnRW~ 109 (351)
..|+..|-.+.-++.++||+.+..|- .+||-++-..|-.+|+
T Consensus 286 EEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 286 EEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred hhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 37999999999999999999999995 5789999999988876
No 97
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=35.41 E-value=1.2e+02 Score=26.29 Aligned_cols=29 Identities=10% Similarity=-0.005 Sum_probs=23.0
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
.|..+.+||..| |-+...|+++.....++
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 456799999999 88999999887764444
No 98
>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=35.09 E-value=1.1e+02 Score=21.00 Aligned_cols=34 Identities=15% Similarity=0.106 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHH
Q 018746 73 QEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNY 107 (351)
Q Consensus 73 EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnR 107 (351)
-|...|.++...++++..+.|+.| |=+...+..+
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~k 38 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRK 38 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHH
Confidence 477888999999999999999999 5555555444
No 99
>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=34.83 E-value=51 Score=26.10 Aligned_cols=31 Identities=26% Similarity=0.514 Sum_probs=24.5
Q ss_pred HHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHH
Q 018746 75 EKMIIHLQALLGNRWAAIASYLRQRTDNDIKN 106 (351)
Q Consensus 75 D~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKn 106 (351)
|..|..+....|..|.++|++| |=+..+|..
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI~~ 34 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDIDL 34 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHHHH
Confidence 4567888889999999999999 666665544
No 100
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=34.75 E-value=1.3e+02 Score=26.36 Aligned_cols=34 Identities=15% Similarity=0.149 Sum_probs=25.9
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhHHHHHh
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKKKVKKL 119 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~LkkklkK~ 119 (351)
.|....+||..| |-+...|+.+....+++-.+++
T Consensus 146 ~g~s~~eIA~~l-~is~~tV~~~l~ra~~~Lr~~l 179 (184)
T PRK12512 146 EGASIKETAAKL-SMSEGAVRVALHRGLAALAAKF 179 (184)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHHh
Confidence 356789999999 9999999999887665544333
No 101
>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=34.62 E-value=1.2e+02 Score=26.09 Aligned_cols=29 Identities=24% Similarity=0.371 Sum_probs=23.1
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
.|-...+||..| |-|...|++++...+++
T Consensus 134 ~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~ 162 (169)
T TIGR02954 134 HDLTIKEIAEVM-NKPEGTVKTYLHRALKK 162 (169)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 456789999999 77999999988865554
No 102
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=31.42 E-value=1.9e+02 Score=24.42 Aligned_cols=29 Identities=10% Similarity=0.030 Sum_probs=23.5
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
.|-.-.+||..| |-+...|+.+....+++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 121 EDMDVAETAAAM-GCSEGSVKTHCSRATHA 149 (161)
T ss_pred hcCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 356689999999 88999999988765544
No 103
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=31.30 E-value=1.7e+02 Score=25.77 Aligned_cols=30 Identities=10% Similarity=0.011 Sum_probs=24.2
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhHH
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKKK 115 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkkk 115 (351)
.|-...+||..| |-+...|++++...+++-
T Consensus 146 ~~~s~~eIA~~l-gis~~tV~~~l~Rar~~L 175 (189)
T PRK12515 146 HEKSVEEVGEIV-GIPESTVKTRMFYARKKL 175 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 456789999999 889999999988755443
No 104
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=30.55 E-value=1.5e+02 Score=25.76 Aligned_cols=28 Identities=11% Similarity=0.027 Sum_probs=22.3
Q ss_pred CCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 86 GNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 86 G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
|....+||..| |.+...|+++....+++
T Consensus 152 g~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T TIGR02948 152 DLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 55689999999 88999999988765444
No 105
>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=29.75 E-value=82 Score=25.25 Aligned_cols=28 Identities=29% Similarity=0.578 Sum_probs=21.6
Q ss_pred HHHHHHHhCCcHHHHHHHcCCCCHHHHHH
Q 018746 78 IIHLQALLGNRWAAIASYLRQRTDNDIKN 106 (351)
Q Consensus 78 Ll~lv~k~G~~W~~IAk~LpgRT~~qcKn 106 (351)
|..+....|..|..+|+.| |-+..+|..
T Consensus 10 l~~ia~~iG~~Wk~Lar~L-Gls~~dI~~ 37 (86)
T cd08318 10 ITVFANKLGEDWKTLAPHL-EMKDKEIRA 37 (86)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 3445678899999999999 777776643
No 106
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=29.45 E-value=1.7e+02 Score=25.72 Aligned_cols=28 Identities=18% Similarity=0.159 Sum_probs=22.5
Q ss_pred CCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 86 GNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 86 G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
|-...+||..| |-+...|+++....+++
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 55689999999 88899999988765544
No 107
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=29.03 E-value=1.9e+02 Score=25.74 Aligned_cols=29 Identities=10% Similarity=0.036 Sum_probs=22.7
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
.|-...+||..| |-+...|+.|....+++
T Consensus 156 eg~s~~EIA~~l-gis~~tVk~rl~ra~~~ 184 (194)
T PRK12531 156 EELPHQQVAEMF-DIPLGTVKSRLRLAVEK 184 (194)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 356789999999 89999999887765444
No 108
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=28.84 E-value=1.4e+02 Score=31.09 Aligned_cols=59 Identities=19% Similarity=0.278 Sum_probs=46.3
Q ss_pred CCCCCCChHHHHHHHHHHHHhCC----------------cHHHHHHHcC-----CCCHHHHHHHHHHHhhHHHHHhhhhh
Q 018746 65 IKRGNFTDQEEKMIIHLQALLGN----------------RWAAIASYLR-----QRTDNDIKNYWNTHLKKKVKKLQLAA 123 (351)
Q Consensus 65 ikkg~WT~EED~~Ll~lv~k~G~----------------~W~~IAk~Lp-----gRT~~qcKnRW~~~LkkklkK~~~s~ 123 (351)
.--|.|+++-|+-..++...|.. +=.-||+++. .||.+||-.+-..+-++++++.+...
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~reiq~kl 153 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLREIQAKL 153 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHhhh
Confidence 45689999999999999988742 3578898873 58999999998888888877766443
No 109
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=28.61 E-value=1.9e+02 Score=25.64 Aligned_cols=30 Identities=23% Similarity=0.031 Sum_probs=24.3
Q ss_pred HhCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 84 LLGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 84 k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
..|-...+||..| |-+...|+.+....+++
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 3466799999999 88999999998765554
No 110
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=28.44 E-value=2.1e+02 Score=24.24 Aligned_cols=29 Identities=10% Similarity=-0.089 Sum_probs=23.1
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
.|-.-.+||..| |-+...|+++....+++
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 456689999999 99999999987765544
No 111
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=28.37 E-value=1.9e+02 Score=25.35 Aligned_cols=29 Identities=14% Similarity=0.107 Sum_probs=23.1
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
.|....+||..| |-+...|+.+....+++
T Consensus 154 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 154 VGLSAEETAEAV-GSTPGAVRVAQHRALAR 182 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466799999999 88899999887765544
No 112
>TIGR02943 Sig70_famx1 RNA polymerase sigma-70 factor, TIGR02943 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=28.36 E-value=2.1e+02 Score=25.39 Aligned_cols=32 Identities=13% Similarity=0.043 Sum_probs=24.8
Q ss_pred HHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhHH
Q 018746 83 ALLGNRWAAIASYLRQRTDNDIKNYWNTHLKKK 115 (351)
Q Consensus 83 ~k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkkk 115 (351)
-..|....+||..| |-+.+.|+.|....+++-
T Consensus 144 ~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~L 175 (188)
T TIGR02943 144 EVLGFESDEICQEL-EISTSNCHVLLYRARLSL 175 (188)
T ss_pred HHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 33466789999999 999999999887655543
No 113
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=27.96 E-value=2.1e+02 Score=24.68 Aligned_cols=29 Identities=24% Similarity=0.201 Sum_probs=23.3
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
.|-.-.+||..| |.+...|+.+....+++
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 356689999999 88999999988765544
No 114
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=27.41 E-value=1.8e+02 Score=25.46 Aligned_cols=34 Identities=21% Similarity=0.151 Sum_probs=27.2
Q ss_pred HhCCcHHHHHHHcCCCCHHHHHHHHHHHhhHHHHH
Q 018746 84 LLGNRWAAIASYLRQRTDNDIKNYWNTHLKKKVKK 118 (351)
Q Consensus 84 k~G~~W~~IAk~LpgRT~~qcKnRW~~~LkkklkK 118 (351)
..|-...+||..| |-+...|+.|...-+.+-+..
T Consensus 141 ~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~~ 174 (178)
T PRK12529 141 LDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLSL 174 (178)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHh
Confidence 3466799999999 999999999988777665544
No 115
>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=26.86 E-value=96 Score=24.87 Aligned_cols=31 Identities=26% Similarity=0.452 Sum_probs=25.2
Q ss_pred HHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHH
Q 018746 75 EKMIIHLQALLGNRWAAIASYLRQRTDNDIKN 106 (351)
Q Consensus 75 D~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKn 106 (351)
|..|-.+....|..|..+|+.| |=+...|.+
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 4567777888999999999999 677777665
No 116
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=26.81 E-value=2e+02 Score=24.88 Aligned_cols=35 Identities=23% Similarity=0.245 Sum_probs=26.0
Q ss_pred HHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhHH
Q 018746 80 HLQALLGNRWAAIASYLRQRTDNDIKNYWNTHLKKK 115 (351)
Q Consensus 80 ~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkkk 115 (351)
.|....|-...+||..| |.+...|+.+-..-+++-
T Consensus 129 ~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~ 163 (172)
T PRK12523 129 LYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQC 163 (172)
T ss_pred HHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 33334466799999999 999999999877655553
No 117
>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=26.53 E-value=89 Score=25.24 Aligned_cols=29 Identities=28% Similarity=0.453 Sum_probs=23.3
Q ss_pred HHHHHHHHhCCcHHHHHHHcCCCCHHHHHH
Q 018746 77 MIIHLQALLGNRWAAIASYLRQRTDNDIKN 106 (351)
Q Consensus 77 ~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKn 106 (351)
.|-.+....|.+|..+|+.| |=++.+|..
T Consensus 4 ~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 4 HLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 35556678899999999999 777777766
No 118
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=26.15 E-value=2.8e+02 Score=23.56 Aligned_cols=31 Identities=16% Similarity=0.034 Sum_probs=23.4
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhHHH
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKKKV 116 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkkkl 116 (351)
.|-.-.+||..| |-+...|+.|....++.-.
T Consensus 120 ~~~s~~eIA~~l-gis~~tv~~~l~ra~~~Lr 150 (159)
T PRK12527 120 EGLSHQQIAEHL-GISRSLVEKHIVNAMKHCR 150 (159)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHH
Confidence 345678999999 8999999998776555433
No 119
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=25.74 E-value=2.4e+02 Score=25.08 Aligned_cols=29 Identities=7% Similarity=-0.050 Sum_probs=23.4
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
.|-...+||..| |-+...|+.|....+++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~RAr~~ 177 (189)
T PRK12530 149 LELSSEQICQEC-DISTSNLHVLLYRARLQ 177 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 356799999999 99999999987754443
No 120
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=25.37 E-value=98 Score=23.93 Aligned_cols=30 Identities=27% Similarity=0.453 Sum_probs=21.9
Q ss_pred HHHHHHHHHH-hCCcHHHHHHHcCCCCHHHHH
Q 018746 75 EKMIIHLQAL-LGNRWAAIASYLRQRTDNDIK 105 (351)
Q Consensus 75 D~~Ll~lv~k-~G~~W~~IAk~LpgRT~~qcK 105 (351)
+..|..++.. .|..|..+|+.| |-+..+|.
T Consensus 5 ~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i~ 35 (88)
T smart00005 5 REKLAKLLDHPLGLDWRELARKL-GLSEADID 35 (88)
T ss_pred HHHHHHHHcCccchHHHHHHHHc-CCCHHHHH
Confidence 4556667777 899999999999 44555543
No 121
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=24.60 E-value=2.4e+02 Score=24.49 Aligned_cols=28 Identities=18% Similarity=0.260 Sum_probs=22.7
Q ss_pred CCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 86 GNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 86 G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
|-.-.+||..| |.+...|+.+....+++
T Consensus 145 g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 172 (179)
T PRK12514 145 GLSYKELAERH-DVPLNTMRTWLRRSLLK 172 (179)
T ss_pred CCCHHHHHHHH-CCChHHHHHHHHHHHHH
Confidence 55689999999 99999999988765544
No 122
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=24.18 E-value=2.4e+02 Score=24.67 Aligned_cols=29 Identities=7% Similarity=0.039 Sum_probs=22.1
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
.|-...+||+.| |-+...|+.+....+++
T Consensus 143 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 171 (186)
T PRK05602 143 QGLSNIEAAAVM-DISVDALESLLARGRRA 171 (186)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 456688999998 88888888887665444
No 123
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=23.84 E-value=2.1e+02 Score=24.29 Aligned_cols=44 Identities=14% Similarity=0.086 Sum_probs=35.9
Q ss_pred hHHHHHHHHHHHHhCC-cHHHHHHHcCCCCHHHHHHHHHHHhhHHH
Q 018746 72 DQEEKMIIHLQALLGN-RWAAIASYLRQRTDNDIKNYWNTHLKKKV 116 (351)
Q Consensus 72 ~EED~~Ll~lv~k~G~-~W~~IAk~LpgRT~~qcKnRW~~~Lkkkl 116 (351)
++-|.+|+++.++-+. .+..||+.+ |-+...|++|-+.+.+..+
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~Gi 51 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGV 51 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCc
Confidence 4668888888888774 599999999 8999999999877666554
No 124
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=23.70 E-value=29 Score=28.03 Aligned_cols=44 Identities=14% Similarity=0.164 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccccCCC
Q 018746 20 EEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYLRPGI 65 (351)
Q Consensus 20 EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P~i 65 (351)
+.|.+|+.++++.+.-.+..|++.++ -+...|+.|.......++
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 57899999999999889999999987 778888888777665544
No 125
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=23.63 E-value=1.5e+02 Score=34.42 Aligned_cols=47 Identities=17% Similarity=0.337 Sum_probs=38.7
Q ss_pred CCCChHHHHHHHHHHHHhC-CcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 68 GNFTDQEEKMIIHLQALLG-NRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 68 g~WT~EED~~Ll~lv~k~G-~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
..|+.-+=..++.+..+|| ..-..||..|.++|..+|+.+-.....+
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~~f~~~ 872 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAKVFWER 872 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHHHHHHh
Confidence 3688888888888889999 5699999999999999999876654433
No 126
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=23.56 E-value=2.6e+02 Score=24.35 Aligned_cols=28 Identities=18% Similarity=0.120 Sum_probs=22.1
Q ss_pred CCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 86 GNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 86 G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
|-.-.+||..| |-+...|+.+.+..+++
T Consensus 151 ~~s~~eIA~~l-gis~~~V~~~l~ra~~~ 178 (186)
T PRK13919 151 GYTHREAAQLL-GLPLGTLKTRARRALSR 178 (186)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 45678999999 88899999987765544
No 127
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members
Probab=22.92 E-value=1.1e+02 Score=24.53 Aligned_cols=26 Identities=23% Similarity=0.359 Sum_probs=20.9
Q ss_pred HHHHHHHHHhCCcHHHHHHHcCCCCHH
Q 018746 76 KMIIHLQALLGNRWAAIASYLRQRTDN 102 (351)
Q Consensus 76 ~~Ll~lv~k~G~~W~~IAk~LpgRT~~ 102 (351)
..|..+....|..|..++++| |=+..
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L-Glse~ 28 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL-GLSYR 28 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc-CCCHH
Confidence 457888899999999999999 43333
No 128
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=22.90 E-value=2.5e+02 Score=20.82 Aligned_cols=36 Identities=22% Similarity=0.336 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHH
Q 018746 73 QEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWN 109 (351)
Q Consensus 73 EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~ 109 (351)
++|+-.+.+..+.|-.-.+||+.+ +|+.+.|+++-+
T Consensus 7 ~~Eqaqid~m~qlG~s~~~isr~i-~RSr~~Ir~yl~ 42 (50)
T PF11427_consen 7 DAEQAQIDVMHQLGMSLREISRRI-GRSRTCIRRYLK 42 (50)
T ss_dssp HHHHHHHHHHHHTT--HHHHHHHH-T--HHHHHHHHH
T ss_pred HHHHHHHHHHHHhchhHHHHHHHh-CccHHHHHHHhc
Confidence 344555667788899999999999 999998888643
No 129
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=22.64 E-value=1.2e+02 Score=24.58 Aligned_cols=27 Identities=30% Similarity=0.399 Sum_probs=21.6
Q ss_pred HHHHHHHHHHhCCcHHHHHHHcCCCCHH
Q 018746 75 EKMIIHLQALLGNRWAAIASYLRQRTDN 102 (351)
Q Consensus 75 D~~Ll~lv~k~G~~W~~IAk~LpgRT~~ 102 (351)
|.+|..+....|..|.++|.+| |=+..
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L-~vs~~ 30 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL-QFSVE 30 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc-CCCHH
Confidence 5667788899999999999999 44443
No 130
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=22.42 E-value=2.8e+02 Score=22.74 Aligned_cols=43 Identities=9% Similarity=0.105 Sum_probs=35.0
Q ss_pred CCCCChHHHHHHHHHHHHhCCcHHHHHHHcCCC-CHHHHHHHHHH
Q 018746 67 RGNFTDQEEKMIIHLQALLGNRWAAIASYLRQR-TDNDIKNYWNT 110 (351)
Q Consensus 67 kg~WT~EED~~Ll~lv~k~G~~W~~IAk~LpgR-T~~qcKnRW~~ 110 (351)
+..||.|.-..+++++..-|..=..||+.+ |- ..++++..+..
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l~~W~~~ 48 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQLYKWRIQ 48 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHHHHHHHH
Confidence 568999999999999999998889999999 64 66666654443
No 131
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=22.39 E-value=2.8e+02 Score=24.49 Aligned_cols=29 Identities=10% Similarity=0.062 Sum_probs=22.9
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
.|-.-.+||..| |-+...|+.+....++.
T Consensus 151 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 179 (195)
T PRK12532 151 LGFSSDEIQQMC-GISTSNYHTIMHRARES 179 (195)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466689999999 99999999988764444
No 132
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=22.38 E-value=26 Score=29.92 Aligned_cols=45 Identities=13% Similarity=0.135 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHhCCCCCccccccCCCccccccccccccccccCCCC
Q 018746 20 EEDIILVSYIQEHGPGNWRAVPTNTGLLRCSKSCRLRWTNYLRPGIK 66 (351)
Q Consensus 20 EEDe~L~~lV~~~G~~nW~~IA~~l~~~Rt~kQCR~RW~n~L~P~ik 66 (351)
+-|.+++++++..+...+..||+.++ -+...|+.|-.+..+.++.
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 56889999999999889999999988 7888899987777665543
No 133
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=21.84 E-value=3.1e+02 Score=24.46 Aligned_cols=31 Identities=16% Similarity=0.080 Sum_probs=24.1
Q ss_pred HHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 83 ALLGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 83 ~k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
...|-...+||..| |-+...|+.|-...+++
T Consensus 129 ~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~~ 159 (187)
T PRK12516 129 GASGFAYEEAAEIC-GCAVGTIKSRVNRARQR 159 (187)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33466799999999 88899999987765544
No 134
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=21.77 E-value=1.5e+02 Score=27.27 Aligned_cols=44 Identities=23% Similarity=0.224 Sum_probs=34.7
Q ss_pred CCCChHHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 68 GNFTDQEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 68 g~WT~EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
...|+.|-+.|.-+.. |-.=.+||..| +.+.+-||+|..++++|
T Consensus 147 ~~LT~RE~eVL~lla~--G~snkeIA~~L-~iS~~TVk~h~~~i~~K 190 (211)
T COG2197 147 ELLTPRELEVLRLLAE--GLSNKEIAEEL-NLSEKTVKTHVSNILRK 190 (211)
T ss_pred CCCCHHHHHHHHHHHC--CCCHHHHHHHH-CCCHhHHHHHHHHHHHH
Confidence 3688888877665554 44457999999 99999999999887766
No 135
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=21.38 E-value=3.1e+02 Score=24.01 Aligned_cols=30 Identities=23% Similarity=0.129 Sum_probs=23.7
Q ss_pred HhCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 84 LLGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 84 k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
..|-...+||..| |.+...|+++-...+++
T Consensus 143 ~~g~s~~EIA~~l-~is~~tV~~~l~rar~~ 172 (181)
T PRK12536 143 LEGLSVAETAQLT-GLSESAVKVGIHRGLKA 172 (181)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466789999999 99999999987764444
No 136
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=21.29 E-value=3.3e+02 Score=24.72 Aligned_cols=31 Identities=13% Similarity=0.080 Sum_probs=23.6
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhHHH
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKKKV 116 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkkkl 116 (351)
.|..-.+||+.| |-+...|+++....+++-.
T Consensus 153 ~g~s~~EIA~~L-gis~~tV~~~l~RArk~Lr 183 (203)
T PRK09647 153 EGLSYEEIAATL-GVKLGTVRSRIHRGRQQLR 183 (203)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 355678999999 8899999998876555433
No 137
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=21.14 E-value=3e+02 Score=23.31 Aligned_cols=38 Identities=16% Similarity=0.138 Sum_probs=26.8
Q ss_pred HHHHHHHHHhCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 76 KMIIHLQALLGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 76 ~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
..++.+.-..|-.-.+||..| |-+...|+.+....+++
T Consensus 116 r~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~ 153 (162)
T TIGR02983 116 RAVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALAR 153 (162)
T ss_pred HHHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 334444444466688999999 88899999988765554
No 138
>cd08311 Death_p75NR Death domain of p75 Neurotophin Receptor. Death Domain (DD) found in p75 neurotrophin receptor (p75NTR, NGFR, TNFRSF16). p75NTR binds members of the neurotrophin (NT) family including nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT3, among others. It contains an NT-binding extracellular region that bears four cysteine-rich repeats, a transmembrane domain, and an intracellular DD. p75NTR plays roles in the immune, vascular, and nervous systems, and has been shown to promote cell death or survival, and to induce neurite outgrowth or collapse depending on its ligands and co-receptors. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptor
Probab=21.12 E-value=1.1e+02 Score=24.26 Aligned_cols=33 Identities=21% Similarity=0.401 Sum_probs=24.7
Q ss_pred hHHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHH
Q 018746 72 DQEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKN 106 (351)
Q Consensus 72 ~EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKn 106 (351)
.||.++|+.. -..|.+|..+|..| |=++..|++
T Consensus 2 ~~~v~~ll~~-~nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLES-GRPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhC-CCCccCHHHHHHHc-CCCHHHHHH
Confidence 5777777732 24678899999999 777777765
No 139
>TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in a variety of species including Rhodopirellula baltica which encodes a paralogous group of five.
Probab=20.83 E-value=3.3e+02 Score=23.52 Aligned_cols=29 Identities=17% Similarity=0.155 Sum_probs=22.6
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
.|-...+||..| |-+...|+.|....+++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 177 (183)
T TIGR02999 149 AGLTVEEIAELL-GVSVRTVERDWRFARAW 177 (183)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 355689999999 89999999988764443
No 140
>PRK01905 DNA-binding protein Fis; Provisional
Probab=20.48 E-value=2.8e+02 Score=21.61 Aligned_cols=34 Identities=18% Similarity=0.231 Sum_probs=26.1
Q ss_pred hHHHHHHHHHHHHhCCcHHHHHHHcCCCCHHHHHH
Q 018746 72 DQEEKMIIHLQALLGNRWAAIASYLRQRTDNDIKN 106 (351)
Q Consensus 72 ~EED~~Ll~lv~k~G~~W~~IAk~LpgRT~~qcKn 106 (351)
.-|...|++++..+|+++.+.|+.+ |=+...++.
T Consensus 36 ~~E~~~i~~aL~~~~gn~s~aAr~L-GIsrstL~r 69 (77)
T PRK01905 36 CVEKPLLEVVMEQAGGNQSLAAEYL-GINRNTLRK 69 (77)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHH
Confidence 4577789999999999999999999 444444443
No 141
>TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in a limited number of Gram-positive bacterial lineages.
Probab=20.31 E-value=3.2e+02 Score=23.14 Aligned_cols=27 Identities=22% Similarity=0.192 Sum_probs=20.6
Q ss_pred CCcHHHHHHHcCCCCHHHHHHHHHHHhh
Q 018746 86 GNRWAAIASYLRQRTDNDIKNYWNTHLK 113 (351)
Q Consensus 86 G~~W~~IAk~LpgRT~~qcKnRW~~~Lk 113 (351)
|-...+||+.| |.+...|+.+-...++
T Consensus 138 g~s~~eIA~~l-~is~~tv~~~l~ra~~ 164 (170)
T TIGR02952 138 NLPIAEVARIL-GKTEGAVKILQFRAIK 164 (170)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 55688999999 8888888887665333
No 142
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=20.28 E-value=3.5e+02 Score=24.05 Aligned_cols=29 Identities=10% Similarity=0.020 Sum_probs=22.3
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
.|-.+.+||+.| |-+...|+++-...+++
T Consensus 151 ~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~ 179 (196)
T PRK12524 151 EGLSNPEIAEVM-EIGVEAVESLTARGKRA 179 (196)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 456799999999 88888888877654443
No 143
>TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are apparently found only in the Planctomycetaceae family including the genuses Gemmata and Pirellula (in which seven sequences are found).
Probab=20.14 E-value=3.4e+02 Score=23.41 Aligned_cols=29 Identities=21% Similarity=0.471 Sum_probs=22.6
Q ss_pred hCCcHHHHHHHcCCCCHHHHHHHHHHHhhH
Q 018746 85 LGNRWAAIASYLRQRTDNDIKNYWNTHLKK 114 (351)
Q Consensus 85 ~G~~W~~IAk~LpgRT~~qcKnRW~~~Lkk 114 (351)
.|-...+||..| |-+...|+.+....+++
T Consensus 155 ~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~ 183 (189)
T TIGR02984 155 EGLSFAEVAERM-DRSEGAVSMLWVRGLAR 183 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 456688999998 88999999887765544
Done!