Query 019911
Match_columns 334
No_of_seqs 232 out of 1498
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 05:31:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019911.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019911hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0048 Transcription factor, 100.0 8E-34 1.7E-38 264.7 11.8 111 26-136 5-115 (238)
2 PLN03212 Transcription repress 100.0 1.3E-33 2.7E-38 261.1 12.8 124 17-140 12-135 (249)
3 PLN03091 hypothetical protein; 100.0 1.8E-32 3.9E-37 269.8 12.7 122 22-143 6-127 (459)
4 KOG0049 Transcription factor, 99.8 1.3E-18 2.9E-23 177.2 11.7 127 23-149 246-428 (939)
5 KOG0049 Transcription factor, 99.7 2E-18 4.3E-23 175.9 8.0 103 23-126 353-459 (939)
6 KOG0048 Transcription factor, 99.7 5.5E-17 1.2E-21 151.5 7.2 86 79-164 5-115 (238)
7 PF13921 Myb_DNA-bind_6: Myb-l 99.7 1E-16 2.2E-21 118.5 6.6 60 33-94 1-60 (60)
8 PLN03212 Transcription repress 99.6 5.9E-15 1.3E-19 137.2 11.5 101 63-170 12-137 (249)
9 COG5147 REB1 Myb superfamily p 99.5 9.9E-15 2.1E-19 148.4 7.8 107 26-133 16-122 (512)
10 PLN03091 hypothetical protein; 99.5 5.6E-14 1.2E-18 139.5 9.3 91 78-168 9-124 (459)
11 KOG0050 mRNA splicing protein 99.5 2.3E-14 4.9E-19 143.7 5.5 106 28-135 5-110 (617)
12 KOG0051 RNA polymerase I termi 99.4 1.9E-13 4.2E-18 140.4 8.7 103 29-134 383-513 (607)
13 PF00249 Myb_DNA-binding: Myb- 99.4 8.8E-14 1.9E-18 98.8 4.2 48 30-77 1-48 (48)
14 PF00249 Myb_DNA-binding: Myb- 99.4 4.1E-13 8.8E-18 95.4 5.4 46 83-128 1-48 (48)
15 PF13921 Myb_DNA-bind_6: Myb-l 99.4 8.3E-13 1.8E-17 97.5 4.9 58 86-143 1-58 (60)
16 smart00717 SANT SANT SWI3, AD 99.2 4E-11 8.7E-16 82.9 5.7 47 83-129 1-48 (49)
17 smart00717 SANT SANT SWI3, AD 99.1 1.2E-10 2.6E-15 80.5 4.9 48 30-78 1-48 (49)
18 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 3.6E-10 7.8E-15 76.9 5.7 44 85-128 1-45 (45)
19 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 7.8E-10 1.7E-14 75.3 4.6 45 32-77 1-45 (45)
20 KOG0051 RNA polymerase I termi 98.9 2.1E-09 4.6E-14 111.0 6.7 115 26-144 304-446 (607)
21 COG5147 REB1 Myb superfamily p 98.2 6.5E-07 1.4E-11 91.8 3.4 107 21-130 63-169 (512)
22 TIGR01557 myb_SHAQKYF myb-like 98.0 1.1E-05 2.3E-10 59.8 4.7 49 29-77 2-54 (57)
23 KOG0457 Histone acetyltransfer 97.9 2E-05 4.4E-10 78.8 5.9 52 25-77 67-118 (438)
24 KOG0050 mRNA splicing protein 97.7 2.1E-05 4.5E-10 80.1 3.6 63 81-143 5-68 (617)
25 TIGR02894 DNA_bind_RsfA transc 97.7 5.1E-05 1.1E-09 67.1 4.7 52 81-133 2-60 (161)
26 TIGR01557 myb_SHAQKYF myb-like 97.6 0.00014 3.1E-09 53.9 5.8 46 83-128 3-54 (57)
27 PF13325 MCRS_N: N-terminal re 97.5 0.00057 1.2E-08 62.7 8.7 98 32-131 1-129 (199)
28 KOG0457 Histone acetyltransfer 97.4 0.00027 5.8E-09 71.0 5.9 49 80-128 69-118 (438)
29 COG5259 RSC8 RSC chromatin rem 97.3 0.00022 4.8E-09 72.0 4.1 46 29-76 278-323 (531)
30 KOG1279 Chromatin remodeling f 97.2 0.00054 1.2E-08 70.7 5.4 48 27-76 250-297 (506)
31 PF13837 Myb_DNA-bind_4: Myb/S 97.0 0.00061 1.3E-08 53.5 3.4 50 83-132 1-68 (90)
32 PF13837 Myb_DNA-bind_4: Myb/S 96.8 0.0012 2.7E-08 51.7 3.3 48 30-77 1-64 (90)
33 KOG1279 Chromatin remodeling f 96.7 0.0019 4.1E-08 66.8 5.3 49 82-130 252-300 (506)
34 COG5259 RSC8 RSC chromatin rem 96.7 0.0018 3.9E-08 65.6 4.6 45 83-127 279-323 (531)
35 PF08914 Myb_DNA-bind_2: Rap1 96.6 0.0033 7.1E-08 47.9 4.5 51 83-133 2-62 (65)
36 PRK13923 putative spore coat p 96.6 0.0025 5.3E-08 57.2 4.0 51 81-132 3-60 (170)
37 PF08914 Myb_DNA-bind_2: Rap1 96.5 0.0034 7.4E-08 47.7 3.8 52 30-81 2-61 (65)
38 PF13873 Myb_DNA-bind_5: Myb/S 96.3 0.0089 1.9E-07 46.0 5.2 52 83-134 2-75 (78)
39 TIGR02894 DNA_bind_RsfA transc 96.2 0.0031 6.7E-08 55.9 2.7 50 28-79 2-57 (161)
40 PLN03142 Probable chromatin-re 96.0 0.11 2.3E-06 58.4 13.7 101 33-134 827-990 (1033)
41 COG5114 Histone acetyltransfer 95.7 0.0067 1.5E-07 59.1 2.8 50 28-78 61-110 (432)
42 PF13873 Myb_DNA-bind_5: Myb/S 95.7 0.0098 2.1E-07 45.8 2.9 50 29-78 1-70 (78)
43 COG5114 Histone acetyltransfer 95.6 0.013 2.8E-07 57.2 4.1 46 84-129 64-110 (432)
44 PRK13923 putative spore coat p 95.0 0.015 3.2E-07 52.3 2.2 50 28-79 3-58 (170)
45 KOG4282 Transcription factor G 93.2 0.17 3.7E-06 49.7 6.0 53 83-135 54-120 (345)
46 PF09111 SLIDE: SLIDE; InterP 92.4 0.37 8.1E-06 40.8 6.0 54 80-133 46-115 (118)
47 COG5118 BDP1 Transcription ini 91.3 0.22 4.8E-06 49.8 3.9 47 84-130 366-412 (507)
48 PF12776 Myb_DNA-bind_3: Myb/S 90.8 0.65 1.4E-05 36.6 5.6 46 85-130 1-64 (96)
49 KOG2656 DNA methyltransferase 90.3 0.32 7E-06 48.8 4.0 55 84-138 131-191 (445)
50 PF09111 SLIDE: SLIDE; InterP 88.4 0.56 1.2E-05 39.7 3.7 34 27-60 46-82 (118)
51 KOG4167 Predicted DNA-binding 88.2 1.5 3.4E-05 47.2 7.5 58 72-129 605-665 (907)
52 KOG1194 Predicted DNA-binding 87.0 3.1 6.6E-05 42.8 8.5 48 82-129 186-233 (534)
53 KOG4282 Transcription factor G 85.6 0.83 1.8E-05 44.9 3.7 48 30-77 54-113 (345)
54 COG5118 BDP1 Transcription ini 83.6 1.2 2.7E-05 44.6 3.8 44 30-75 365-408 (507)
55 PF12776 Myb_DNA-bind_3: Myb/S 83.3 1.8 3.8E-05 34.1 4.0 44 32-75 1-60 (96)
56 PF11626 Rap1_C: TRF2-interact 81.4 1.5 3.2E-05 34.9 2.9 30 26-58 43-80 (87)
57 PF13404 HTH_AsnC-type: AsnC-t 80.3 2.5 5.4E-05 29.2 3.4 38 36-75 3-40 (42)
58 PF08281 Sigma70_r4_2: Sigma-7 80.3 4.9 0.00011 28.3 5.0 41 88-129 12-52 (54)
59 KOG4468 Polycomb-group transcr 77.7 6.4 0.00014 41.9 6.8 53 83-135 88-150 (782)
60 KOG4167 Predicted DNA-binding 77.3 2.8 6.2E-05 45.3 4.2 43 31-75 620-662 (907)
61 KOG4329 DNA-binding protein [G 76.9 42 0.00092 33.9 11.9 45 84-128 278-323 (445)
62 smart00595 MADF subfamily of S 74.8 3.6 7.8E-05 32.0 3.3 27 104-131 29-55 (89)
63 PRK11179 DNA-binding transcrip 72.7 4.1 8.8E-05 35.3 3.4 46 35-82 8-53 (153)
64 PF13404 HTH_AsnC-type: AsnC-t 67.4 12 0.00026 25.7 4.2 38 89-127 3-41 (42)
65 PRK11169 leucine-responsive tr 66.8 4.8 0.0001 35.4 2.6 46 35-82 13-58 (164)
66 PF11035 SnAPC_2_like: Small n 65.1 71 0.0015 31.7 10.4 88 30-131 21-129 (344)
67 KOG4468 Polycomb-group transcr 64.6 8 0.00017 41.1 4.1 48 30-78 88-144 (782)
68 PRK11179 DNA-binding transcrip 63.3 15 0.00034 31.7 5.1 43 89-132 9-52 (153)
69 PF01388 ARID: ARID/BRIGHT DNA 62.6 4.5 9.8E-05 31.8 1.5 40 39-78 39-89 (92)
70 PF11035 SnAPC_2_like: Small n 60.7 31 0.00067 34.2 7.1 50 83-132 21-74 (344)
71 KOG2009 Transcription initiati 60.7 7.1 0.00015 41.4 2.9 50 82-131 408-457 (584)
72 PF13325 MCRS_N: N-terminal re 60.2 16 0.00035 33.8 4.8 44 85-129 1-47 (199)
73 PF11626 Rap1_C: TRF2-interact 59.8 8.7 0.00019 30.4 2.7 17 79-95 43-59 (87)
74 PF04545 Sigma70_r4: Sigma-70, 57.2 36 0.00077 23.5 5.2 41 89-130 7-47 (50)
75 KOG0384 Chromodomain-helicase 56.2 14 0.0003 42.5 4.4 76 29-111 1132-1208(1373)
76 smart00501 BRIGHT BRIGHT, ARID 55.7 11 0.00023 30.0 2.6 41 39-79 35-86 (93)
77 PRK11169 leucine-responsive tr 55.1 21 0.00046 31.2 4.6 44 88-132 13-57 (164)
78 smart00351 PAX Paired Box doma 51.5 95 0.0021 26.0 7.9 73 28-102 13-92 (125)
79 PF07750 GcrA: GcrA cell cycle 50.5 19 0.00041 32.0 3.6 38 85-123 2-39 (162)
80 PLN03142 Probable chromatin-re 50.2 20 0.00043 40.9 4.4 34 27-60 923-956 (1033)
81 KOG2656 DNA methyltransferase 50.1 3.6 7.8E-05 41.5 -1.2 60 17-77 117-181 (445)
82 PF02954 HTH_8: Bacterial regu 49.7 19 0.00041 24.4 2.7 30 36-66 5-34 (42)
83 PF10545 MADF_DNA_bdg: Alcohol 49.2 17 0.00037 27.3 2.7 28 104-131 28-56 (85)
84 smart00501 BRIGHT BRIGHT, ARID 49.1 28 0.00061 27.5 4.1 40 92-131 35-87 (93)
85 TIGR02985 Sig70_bacteroi1 RNA 48.8 43 0.00093 27.8 5.4 39 92-131 119-157 (161)
86 PF01388 ARID: ARID/BRIGHT DNA 48.7 41 0.00088 26.3 4.9 38 93-130 40-90 (92)
87 PRK09413 IS2 repressor TnpA; R 48.4 77 0.0017 26.3 6.8 45 29-77 9-53 (121)
88 KOG1194 Predicted DNA-binding 47.3 24 0.00051 36.6 4.0 45 29-75 186-230 (534)
89 PF08281 Sigma70_r4_2: Sigma-7 46.5 23 0.0005 24.7 2.9 38 35-75 12-49 (54)
90 smart00344 HTH_ASNC helix_turn 46.4 28 0.0006 27.8 3.7 44 36-81 3-46 (108)
91 PF09420 Nop16: Ribosome bioge 45.7 34 0.00073 30.3 4.4 47 28-75 112-161 (164)
92 smart00595 MADF subfamily of S 44.5 12 0.00027 28.9 1.3 23 52-76 29-51 (89)
93 PF07750 GcrA: GcrA cell cycle 43.0 31 0.00067 30.7 3.7 33 32-67 2-34 (162)
94 COG1522 Lrp Transcriptional re 42.5 26 0.00057 29.6 3.1 45 36-82 8-52 (154)
95 PF10545 MADF_DNA_bdg: Alcohol 41.8 14 0.0003 27.8 1.2 26 52-77 28-53 (85)
96 PF07638 Sigma70_ECF: ECF sigm 39.8 63 0.0014 28.6 5.3 40 90-130 139-178 (185)
97 TIGR02937 sigma70-ECF RNA poly 39.1 67 0.0014 25.8 5.0 37 94-131 118-154 (158)
98 PRK09652 RNA polymerase sigma 36.3 77 0.0017 26.9 5.1 36 95-131 137-172 (182)
99 smart00344 HTH_ASNC helix_turn 36.0 74 0.0016 25.2 4.7 42 89-131 3-45 (108)
100 PRK09643 RNA polymerase sigma 35.6 93 0.002 27.5 5.7 36 94-130 142-177 (192)
101 PF04504 DUF573: Protein of un 34.7 1.2E+02 0.0026 24.6 5.7 48 84-131 5-65 (98)
102 KOG3841 TEF-1 and related tran 34.2 4.1E+02 0.0089 27.2 10.3 53 82-134 75-148 (455)
103 cd00131 PAX Paired Box domain 33.0 2.6E+02 0.0057 23.6 7.7 71 30-102 15-92 (128)
104 cd08803 Death_ank3 Death domai 32.3 69 0.0015 25.4 3.8 29 91-120 4-32 (84)
105 cd08319 Death_RAIDD Death doma 32.2 63 0.0014 25.6 3.5 29 91-120 2-30 (83)
106 cd08318 Death_NMPP84 Death dom 30.9 2.6E+02 0.0057 21.9 7.1 32 85-120 4-35 (86)
107 PRK04217 hypothetical protein; 30.7 1.5E+02 0.0032 24.9 5.6 45 85-131 42-86 (110)
108 PRK11924 RNA polymerase sigma 30.6 1E+02 0.0023 26.0 5.0 32 99-131 138-169 (179)
109 cd08319 Death_RAIDD Death doma 28.3 52 0.0011 26.1 2.5 28 38-66 2-29 (83)
110 cd06171 Sigma70_r4 Sigma70, re 28.1 1.5E+02 0.0033 19.2 4.6 36 90-126 14-49 (55)
111 PF09105 SelB-wing_1: Elongati 27.2 1.6E+02 0.0034 21.5 4.5 41 38-102 4-45 (61)
112 cd08317 Death_ank Death domain 27.2 1.7E+02 0.0036 22.7 5.2 27 91-118 4-30 (84)
113 PRK09641 RNA polymerase sigma 27.0 1.2E+02 0.0027 26.0 4.9 30 101-131 151-180 (187)
114 PF09197 Rap1-DNA-bind: Rap1, 26.5 87 0.0019 26.1 3.6 17 32-48 1-17 (105)
115 PF04504 DUF573: Protein of un 26.4 1.9E+02 0.004 23.5 5.5 70 30-100 4-94 (98)
116 COG2197 CitB Response regulato 26.1 1.2E+02 0.0026 27.6 4.8 45 84-131 147-191 (211)
117 TIGR02948 SigW_bacill RNA poly 25.8 1.3E+02 0.0027 26.0 4.8 29 102-131 152-180 (187)
118 PF09420 Nop16: Ribosome bioge 25.7 1.4E+02 0.003 26.3 5.0 47 82-128 113-163 (164)
119 TIGR02939 RpoE_Sigma70 RNA pol 25.7 1.1E+02 0.0023 26.5 4.3 30 101-131 153-182 (190)
120 PF01710 HTH_Tnp_IS630: Transp 25.1 1.9E+02 0.0041 23.9 5.4 57 35-94 56-112 (119)
121 TIGR02954 Sig70_famx3 RNA poly 24.9 1.5E+02 0.0033 25.2 5.1 30 101-131 134-163 (169)
122 KOG2009 Transcription initiati 24.7 52 0.0011 35.1 2.4 48 26-75 405-452 (584)
123 PRK12523 RNA polymerase sigma 24.3 2E+02 0.0044 24.6 5.8 40 93-133 126-165 (172)
124 PF13340 DUF4096: Putative tra 24.0 84 0.0018 23.8 2.9 59 52-129 5-66 (75)
125 PRK12529 RNA polymerase sigma 23.7 2.1E+02 0.0045 24.8 5.8 39 95-134 136-174 (178)
126 PRK12512 RNA polymerase sigma 23.4 1.8E+02 0.0039 25.2 5.2 31 100-131 145-175 (184)
127 PRK12515 RNA polymerase sigma 23.2 1.6E+02 0.0036 25.6 5.0 31 100-131 145-175 (189)
128 PRK09645 RNA polymerase sigma 23.2 1.8E+02 0.0039 24.8 5.2 31 100-131 132-162 (173)
129 PRK09642 RNA polymerase sigma 23.2 1.8E+02 0.004 24.4 5.2 32 99-131 119-150 (160)
130 cd08803 Death_ank3 Death domai 23.0 82 0.0018 24.9 2.7 25 38-63 4-28 (84)
131 PF05263 DUF722: Protein of un 22.6 77 0.0017 27.4 2.6 26 86-112 82-109 (130)
132 PRK09648 RNA polymerase sigma 22.4 2E+02 0.0042 25.1 5.3 31 100-131 153-183 (189)
133 KOG3554 Histone deacetylase co 22.4 1.7E+02 0.0036 30.8 5.3 61 54-125 267-328 (693)
134 PRK09047 RNA polymerase factor 22.2 1.9E+02 0.0041 24.2 5.1 31 100-131 120-150 (161)
135 PRK09637 RNA polymerase sigma 22.2 1.8E+02 0.004 25.4 5.1 31 99-130 119-149 (181)
136 PRK08241 RNA polymerase factor 21.9 2.4E+02 0.0051 27.2 6.3 32 101-133 168-199 (339)
137 PRK11923 algU RNA polymerase s 21.9 1.5E+02 0.0033 25.8 4.6 29 102-131 154-182 (193)
138 cd08311 Death_p75NR Death doma 21.9 1E+02 0.0022 24.0 3.0 33 88-122 2-34 (77)
139 TIGR02960 SigX5 RNA polymerase 21.9 2.7E+02 0.0059 26.5 6.6 33 101-134 157-189 (324)
140 PHA01083 hypothetical protein 21.9 84 0.0018 27.8 2.7 52 39-98 5-56 (149)
141 smart00005 DEATH DEATH domain, 21.7 2E+02 0.0043 21.8 4.7 23 91-113 5-28 (88)
142 COG2963 Transposase and inacti 21.6 2.5E+02 0.0054 22.7 5.5 46 83-130 5-51 (116)
143 TIGR02943 Sig70_famx1 RNA poly 20.6 2.2E+02 0.0048 25.0 5.3 37 94-131 139-175 (188)
144 PRK12531 RNA polymerase sigma 20.3 2.2E+02 0.0047 25.0 5.2 30 101-131 156-185 (194)
145 PRK00430 fis global DNA-bindin 20.2 1.1E+02 0.0023 24.8 2.9 30 36-66 55-84 (95)
No 1
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=8e-34 Score=264.66 Aligned_cols=111 Identities=52% Similarity=0.940 Sum_probs=106.7
Q ss_pred CCCCcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccCCCCCCCCCCHHHHHHHHHHHHHhCCCh
Q 019911 26 LDLRRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSRWGNRW 105 (334)
Q Consensus 26 p~lkKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkrg~WT~EED~~Ll~lv~~~G~~W 105 (334)
+.+.||+||+|||++|+++|++||.++|..||+.+|++|++|+||+||.|||+|+++||.||+|||++|++++..+|++|
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 44668999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHhhhCCCCCHHHHHHHHHHhhhHHhhhcc
Q 019911 106 SKIAQHLPGRTDNEIKNYWRTRVQKHAKQLK 136 (334)
Q Consensus 106 ~~IAk~lpgRT~~qcrnRW~~~lr~~~kk~~ 136 (334)
+.||++|||||+++|||+|+..+++++.+..
T Consensus 85 s~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 9999999999999999999999998887765
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=1.3e-33 Score=261.08 Aligned_cols=124 Identities=55% Similarity=0.987 Sum_probs=115.6
Q ss_pred CCCCccccCCCCCcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccCCCCCCCCCCHHHHHHHHH
Q 019911 17 SSTTISEEDLDLRRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILE 96 (334)
Q Consensus 17 ~~~~~s~~~p~lkKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkrg~WT~EED~~Ll~ 96 (334)
..+.-+..++.++|++||+|||++|+++|++||..+|..||+.++++|+++|||+||.++|+|.+++++||+|||++|++
T Consensus 12 ~~~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLle 91 (249)
T PLN03212 12 KKTTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILR 91 (249)
T ss_pred CCCCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHH
Confidence 44556888999999999999999999999999988999999999779999999999999999999999999999999999
Q ss_pred HHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhHHhhhccCCcc
Q 019911 97 LHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKHAKQLKCDVN 140 (334)
Q Consensus 97 lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~~kk~~~~~~ 140 (334)
++.+||++|+.||++|||||+++||+||+.++++.+++.+....
T Consensus 92 l~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~ 135 (249)
T PLN03212 92 LHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQ 135 (249)
T ss_pred HHHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCC
Confidence 99999999999999999999999999999999998777554443
No 3
>PLN03091 hypothetical protein; Provisional
Probab=99.98 E-value=1.8e-32 Score=269.84 Aligned_cols=122 Identities=50% Similarity=0.930 Sum_probs=114.3
Q ss_pred cccCCCCCcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccCCCCCCCCCCHHHHHHHHHHHHHh
Q 019911 22 SEEDLDLRRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSRW 101 (334)
Q Consensus 22 s~~~p~lkKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkrg~WT~EED~~Ll~lv~~~ 101 (334)
+..+..++|++||+|||++|+++|++||..+|..||+.++++|+++|||+||.++|+|.+++++||+|||++|++++++|
T Consensus 6 Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~ 85 (459)
T PLN03091 6 CCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVL 85 (459)
T ss_pred cCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHh
Confidence 56678999999999999999999999999999999999988999999999999999999999999999999999999999
Q ss_pred CCChhHHhhhCCCCCHHHHHHHHHHhhhHHhhhccCCccchh
Q 019911 102 GNRWSKIAQHLPGRTDNEIKNYWRTRVQKHAKQLKCDVNSKQ 143 (334)
Q Consensus 102 G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~~kk~~~~~~~~~ 143 (334)
|++|.+||++|+|||+++||+||+.++|+.+++.+......+
T Consensus 86 GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~k 127 (459)
T PLN03091 86 GNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHK 127 (459)
T ss_pred CcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCCC
Confidence 999999999999999999999999999999887766554433
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.77 E-value=1.3e-18 Score=177.17 Aligned_cols=127 Identities=24% Similarity=0.418 Sum_probs=116.9
Q ss_pred ccCCCCCcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhh--------------------------------
Q 019911 23 EEDLDLRRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCR-------------------------------- 70 (334)
Q Consensus 23 ~~~p~lkKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr-------------------------------- 70 (334)
..+|+++|..|++|||++|..+...++..+|.+||..+|..|+..||.
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 678999999999999999999999999999999999999779999994
Q ss_pred ----------------------hhhhcccCCCCCCCCCCHHHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHh
Q 019911 71 ----------------------LRWLNYLRPDVRRGNITLEEQLMILELHSRWG-NRWSKIAQHLPGRTDNEIKNYWRTR 127 (334)
Q Consensus 71 ----------------------~Rw~~~L~p~lkrg~WT~EED~~Ll~lv~~~G-~~W~~IAk~lpgRT~~qcrnRW~~~ 127 (334)
-||...|+|.+++|+||.+||.+|+.+|.+|| ..|.+|-..+|||++.|||.||.+.
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 58999999999999999999999999999999 5699999999999999999999999
Q ss_pred hhHHhhhccCCccch-hhhHHHh
Q 019911 128 VQKHAKQLKCDVNSK-QFKDTMR 149 (334)
Q Consensus 128 lr~~~kk~~~~~~~~-~~~~~~k 149 (334)
|...+|+.+++..++ ++...++
T Consensus 406 L~~s~K~~rW~l~edeqL~~~V~ 428 (939)
T KOG0049|consen 406 LNRSAKVERWTLVEDEQLLYAVK 428 (939)
T ss_pred HHHhhccCceeecchHHHHHHHH
Confidence 999999999987655 5554443
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.74 E-value=2e-18 Score=175.87 Aligned_cols=103 Identities=26% Similarity=0.436 Sum_probs=95.8
Q ss_pred ccCCCCCcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccCCCCCCCCCCHHHHHHHHHHHHHhC
Q 019911 23 EEDLDLRRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSRWG 102 (334)
Q Consensus 23 ~~~p~lkKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkrg~WT~EED~~Ll~lv~~~G 102 (334)
.-+|.+++|+||++||-+|+.+|.+||..+|.+|-..++ +|+..|||+||.+.|....|++.|+..||+.|+.+|++||
T Consensus 353 ~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~YG 431 (939)
T KOG0049|consen 353 TLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKVYG 431 (939)
T ss_pred ccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCceeecchHHHHHHHHHHc
Confidence 457999999999999999999999999999999999998 9999999999999999999999999999999999999999
Q ss_pred -CChhHHhhhCCCCCHHH---HHHHHHH
Q 019911 103 -NRWSKIAQHLPGRTDNE---IKNYWRT 126 (334)
Q Consensus 103 -~~W~~IAk~lpgRT~~q---crnRW~~ 126 (334)
++|.+||.+||.||.+| ||.|...
T Consensus 432 ~g~WakcA~~Lp~~t~~q~~rrR~R~~~ 459 (939)
T KOG0049|consen 432 KGNWAKCAMLLPKKTSRQLRRRRLRLIA 459 (939)
T ss_pred cchHHHHHHHccccchhHHHHHHHHHHH
Confidence 89999999999999954 5555443
No 6
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.68 E-value=5.5e-17 Score=151.51 Aligned_cols=86 Identities=14% Similarity=0.275 Sum_probs=80.1
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhC-CChhHHhhhCC-CCCHHHHHHHHHHhhhHHhhhccCCccchhhh-----------
Q 019911 79 PDVRRGNITLEEQLMILELHSRWG-NRWSKIAQHLP-GRTDNEIKNYWRTRVQKHAKQLKCDVNSKQFK----------- 145 (334)
Q Consensus 79 p~lkrg~WT~EED~~Ll~lv~~~G-~~W~~IAk~lp-gRT~~qcrnRW~~~lr~~~kk~~~~~~~~~~~----------- 145 (334)
+.+.||+||+|||.+|+++|++|| .+|..||+.++ +|++++||.||.+|||+.++++.++.+|+.++
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 67999999997 99999999999999999999999999999886
Q ss_pred ------------HHHhhhhhhhHHHHHhhhc
Q 019911 146 ------------DTMRYLWMPRLIERIQANK 164 (334)
Q Consensus 146 ------------~~~k~~~~p~l~~~i~~~~ 164 (334)
+++|++|..++++++....
T Consensus 85 s~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 8999999999999998765
No 7
>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=99.67 E-value=1e-16 Score=118.54 Aligned_cols=60 Identities=43% Similarity=0.762 Sum_probs=55.3
Q ss_pred CCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccCCCCCCCCCCHHHHHHH
Q 019911 33 WTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMI 94 (334)
Q Consensus 33 WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkrg~WT~EED~~L 94 (334)
||+|||++|+++|.+||. +|..||+.|| .|++.+|+.||.++|.+.+++++||+|||.+|
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999997 9999999997 89999999999999999999999999999987
No 8
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.60 E-value=5.9e-15 Score=137.25 Aligned_cols=101 Identities=16% Similarity=0.366 Sum_probs=84.8
Q ss_pred ccChhhhhhhhhcccCCCCCCCCCCHHHHHHHHHHHHHhC-CChhHHhhhC-CCCCHHHHHHHHHHhhhHHhhhccCCcc
Q 019911 63 KRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSRWG-NRWSKIAQHL-PGRTDNEIKNYWRTRVQKHAKQLKCDVN 140 (334)
Q Consensus 63 ~Rt~~qCr~Rw~~~L~p~lkrg~WT~EED~~Ll~lv~~~G-~~W~~IAk~l-pgRT~~qcrnRW~~~lr~~~kk~~~~~~ 140 (334)
.|+..-|. ++.++|++||+|||++|+++|++|| .+|..||+.+ ++||++|||.||.++|++.+++..++.+
T Consensus 12 ~~~~pcc~-------K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~E 84 (249)
T PLN03212 12 KKTTPCCT-------KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSD 84 (249)
T ss_pred CCCCCCcc-------cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChH
Confidence 45555443 3578999999999999999999999 6899999998 7999999999999999999999999999
Q ss_pred chhhh-----------------------HHHhhhhhhhHHHHHhhhccCCCCC
Q 019911 141 SKQFK-----------------------DTMRYLWMPRLIERIQANKASAAPA 170 (334)
Q Consensus 141 ~~~~~-----------------------~~~k~~~~p~l~~~i~~~~~s~s~~ 170 (334)
|+++. +.+++.|...+.+++......+...
T Consensus 85 ED~lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~~~ 137 (249)
T PLN03212 85 EEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTH 137 (249)
T ss_pred HHHHHHHHHHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCCCC
Confidence 88764 5678888888888877655554443
No 9
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.54 E-value=9.9e-15 Score=148.43 Aligned_cols=107 Identities=25% Similarity=0.448 Sum_probs=102.1
Q ss_pred CCCCcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccCCCCCCCCCCHHHHHHHHHHHHHhCCCh
Q 019911 26 LDLRRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSRWGNRW 105 (334)
Q Consensus 26 p~lkKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkrg~WT~EED~~Ll~lv~~~G~~W 105 (334)
-.++.|.|+..||+.|+.+|+++|+.+|.+||..+. -|+++||+.||.++++|.+++..|+.|||+.|+.+..++|..|
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 356789999999999999999999999999999998 6999999999999999999999999999999999999999999
Q ss_pred hHHhhhCCCCCHHHHHHHHHHhhhHHhh
Q 019911 106 SKIAQHLPGRTDNEIKNYWRTRVQKHAK 133 (334)
Q Consensus 106 ~~IAk~lpgRT~~qcrnRW~~~lr~~~k 133 (334)
+-|+..+++|+..+|.+||...+....+
T Consensus 95 stia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 95 STIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhccccCccchHHHHHHHHHHhhhhhc
Confidence 9999999999999999999999887766
No 10
>PLN03091 hypothetical protein; Provisional
Probab=99.50 E-value=5.6e-14 Score=139.50 Aligned_cols=91 Identities=15% Similarity=0.353 Sum_probs=79.5
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhC-CChhHHhhhC-CCCCHHHHHHHHHHhhhHHhhhccCCccchhhh----------
Q 019911 78 RPDVRRGNITLEEQLMILELHSRWG-NRWSKIAQHL-PGRTDNEIKNYWRTRVQKHAKQLKCDVNSKQFK---------- 145 (334)
Q Consensus 78 ~p~lkrg~WT~EED~~Ll~lv~~~G-~~W~~IAk~l-pgRT~~qcrnRW~~~lr~~~kk~~~~~~~~~~~---------- 145 (334)
+..++|++||+|||++|+++|++|| .+|..||+++ ++|+++|||.||.++|++.+++..++.+|+.+.
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnK 88 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcc
Confidence 3578999999999999999999999 6899999988 699999999999999999999999999988753
Q ss_pred -------------HHHhhhhhhhHHHHHhhhccCCC
Q 019911 146 -------------DTMRYLWMPRLIERIQANKASAA 168 (334)
Q Consensus 146 -------------~~~k~~~~p~l~~~i~~~~~s~s 168 (334)
+.+|+.|...+.+++......+.
T Consensus 89 WskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~ 124 (459)
T PLN03091 89 WSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPN 124 (459)
T ss_pred hHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCC
Confidence 56788899888888776554443
No 11
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.49 E-value=2.3e-14 Score=143.67 Aligned_cols=106 Identities=23% Similarity=0.478 Sum_probs=99.8
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccCCCCCCCCCCHHHHHHHHHHHHHhCCChhH
Q 019911 28 LRRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSRWGNRWSK 107 (334)
Q Consensus 28 lkKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkrg~WT~EED~~Ll~lv~~~G~~W~~ 107 (334)
++.|-|+.-||+.|..+|.+||...|.+|++.+. ..+++||+.||..+|+|.+++..|+.|||.+|+.+.+.....|.-
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrt 83 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRT 83 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccch
Confidence 5778999999999999999999989999999998 899999999999999999999999999999999999999999999
Q ss_pred HhhhCCCCCHHHHHHHHHHhhhHHhhhc
Q 019911 108 IAQHLPGRTDNEIKNYWRTRVQKHAKQL 135 (334)
Q Consensus 108 IAk~lpgRT~~qcrnRW~~~lr~~~kk~ 135 (334)
|+..+ ||++.+|-.||.+++-......
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s~~ 110 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVSYH 110 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHhhh
Confidence 99998 9999999999999987655443
No 12
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.44 E-value=1.9e-13 Score=140.44 Aligned_cols=103 Identities=25% Similarity=0.535 Sum_probs=93.3
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccCCC--CCCCCCCHHHHHHHHHHHH-------
Q 019911 29 RRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLRPD--VRRGNITLEEQLMILELHS------- 99 (334)
Q Consensus 29 kKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~--lkrg~WT~EED~~Ll~lv~------- 99 (334)
.+|.||+||++.|..+|.+||. .|.+|++.|| |.+..||+||+++...+ .+++.||.||+++|+.+|.
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 KRGKWTPEEEEELKKLVVEHGN-DWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREAL 459 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc-cHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhh
Confidence 8999999999999999999998 9999999987 99999999999999887 4899999999999999995
Q ss_pred Hh-------------------CCChhHHhhhCCCCCHHHHHHHHHHhhhHHhhh
Q 019911 100 RW-------------------GNRWSKIAQHLPGRTDNEIKNYWRTRVQKHAKQ 134 (334)
Q Consensus 100 ~~-------------------G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~~kk 134 (334)
.+ +-.|..|++.+..|+..+||-+|..++......
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n 513 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFN 513 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhh
Confidence 23 115999999999999999999999988766544
No 13
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.44 E-value=8.8e-14 Score=98.82 Aligned_cols=48 Identities=44% Similarity=0.769 Sum_probs=43.5
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhccc
Q 019911 30 RGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYL 77 (334)
Q Consensus 30 Kg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L 77 (334)
|++||+|||++|+++|.+||.++|..||..||.+|+..||+.||.++|
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 689999999999999999999669999999988999999999999875
No 14
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.40 E-value=4.1e-13 Score=95.40 Aligned_cols=46 Identities=35% Similarity=0.668 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCC-hhHHhhhCC-CCCHHHHHHHHHHhh
Q 019911 83 RGNITLEEQLMILELHSRWGNR-WSKIAQHLP-GRTDNEIKNYWRTRV 128 (334)
Q Consensus 83 rg~WT~EED~~Ll~lv~~~G~~-W~~IAk~lp-gRT~~qcrnRW~~~l 128 (334)
|++||+|||.+|+++|.+||.. |..||+.|+ +||..||++||.+++
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 6899999999999999999987 999999998 999999999999875
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=99.35 E-value=8.3e-13 Score=97.54 Aligned_cols=58 Identities=34% Similarity=0.597 Sum_probs=49.9
Q ss_pred CCHHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhHHhhhccCCccchh
Q 019911 86 ITLEEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKHAKQLKCDVNSKQ 143 (334)
Q Consensus 86 WT~EED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~~kk~~~~~~~~~ 143 (334)
||+|||.+|+++|++||.+|..||++|+.||..+|++||...|++.+++..++.+++.
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~ 58 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQ 58 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHh
Confidence 9999999999999999999999999996699999999999988888888777776553
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.19 E-value=4e-11 Score=82.89 Aligned_cols=47 Identities=38% Similarity=0.818 Sum_probs=44.4
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhhh
Q 019911 83 RGNITLEEQLMILELHSRWG-NRWSKIAQHLPGRTDNEIKNYWRTRVQ 129 (334)
Q Consensus 83 rg~WT~EED~~Ll~lv~~~G-~~W~~IAk~lpgRT~~qcrnRW~~~lr 129 (334)
+++||+|||.+|+.++.+|| .+|..||+.|++||..+|+.||..+++
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
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.10 E-value=1.2e-10 Score=80.49 Aligned_cols=48 Identities=40% Similarity=0.770 Sum_probs=44.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccC
Q 019911 30 RGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLR 78 (334)
Q Consensus 30 Kg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~ 78 (334)
+++||++||++|+.++.+||..+|..||..++ +|++.+|+.||.+++.
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 57899999999999999999559999999998 9999999999998764
No 18
>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=3.6e-10 Score=76.94 Aligned_cols=44 Identities=41% Similarity=0.778 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhh
Q 019911 85 NITLEEQLMILELHSRWG-NRWSKIAQHLPGRTDNEIKNYWRTRV 128 (334)
Q Consensus 85 ~WT~EED~~Ll~lv~~~G-~~W~~IAk~lpgRT~~qcrnRW~~~l 128 (334)
+||+||+.+|+.++.++| .+|..||+.+++|+..+|++||.+++
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 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=98.97 E-value=7.8e-10 Score=75.27 Aligned_cols=45 Identities=42% Similarity=0.773 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhccc
Q 019911 32 PWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYL 77 (334)
Q Consensus 32 ~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L 77 (334)
+||++||++|+.++.++|..+|..||+.++ +|+..+|+.||.+++
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 599999999999999999669999999998 899999999998753
No 20
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.89 E-value=2.1e-09 Score=110.99 Aligned_cols=115 Identities=24% Similarity=0.347 Sum_probs=94.7
Q ss_pred CCCCcCCCCHHHHHHHHHHHHHh----CCC-------------------ChHHHHhhhCCccChhhhhh---hhhcccCC
Q 019911 26 LDLRRGPWTVEEDFKLINYISNH----GEG-------------------RWNCLARCAGLKRTGKSCRL---RWLNYLRP 79 (334)
Q Consensus 26 p~lkKg~WT~EEDe~L~~lV~~~----g~~-------------------~W~~IA~~l~~~Rt~~qCr~---Rw~~~L~p 79 (334)
-.++-+.|+.+||..|.+.|..| |-. -|..|...|+ -|+.+.++. |=.+.|.+
T Consensus 304 ~e~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~ 382 (607)
T KOG0051|consen 304 DEINLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFEN 382 (607)
T ss_pred hhhhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCcccc
Confidence 35666899999999999999866 111 2788888888 599999988 33334444
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhHHh--hhccCCccchhh
Q 019911 80 DVRRGNITLEEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKHA--KQLKCDVNSKQF 144 (334)
Q Consensus 80 ~lkrg~WT~EED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~~--kk~~~~~~~~~~ 144 (334)
.+|.||+||++.|..+|.++|+.|..|++.| ||.+..||.||+++++..- ++..++.+++..
T Consensus 383 --~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~ 446 (607)
T KOG0051|consen 383 --KRGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEK 446 (607)
T ss_pred --ccCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHH
Confidence 8999999999999999999999999999998 9999999999999998764 666777666543
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=98.23 E-value=6.5e-07 Score=91.85 Aligned_cols=107 Identities=16% Similarity=0.214 Sum_probs=94.7
Q ss_pred ccccCCCCCcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccCCCCCCCCCCHHHHHHHHHHHHH
Q 019911 21 ISEEDLDLRRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSR 100 (334)
Q Consensus 21 ~s~~~p~lkKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkrg~WT~EED~~Ll~lv~~ 100 (334)
....+|.+++..|+.|||+.|+.+-.++|. .|..||..++ +|+..+|.+||.+.|.+... ..|+..++...+..+..
T Consensus 63 ~~~lnp~lk~~~~~~eed~~li~l~~~~~~-~wstia~~~d-~rt~~~~~ery~~~~~~~~s-~~~s~~~~~~~f~k~d~ 139 (512)
T COG5147 63 NNHLNPQLKKKNWSEEEDEQLIDLDKELGT-QWSTIADYKD-RRTAQQCVERYVNTLEDLSS-THDSKLQRRNEFDKIDP 139 (512)
T ss_pred hhhhchhcccccccHHHHHHHHHHHHhcCc-hhhhhccccC-ccchHHHHHHHHHHhhhhhc-cccccccchhhccccCc
Confidence 356789999999999999999999999999 7999999998 99999999999999988666 78999998888888889
Q ss_pred hCCChhHHhhhCCCCCHHHHHHHHHHhhhH
Q 019911 101 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 130 (334)
Q Consensus 101 ~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~ 130 (334)
|+..|..+....-.+-...|.++|.++...
T Consensus 140 f~~~~~~~~~~~~~~~~~~~~N~~~~~~~~ 169 (512)
T COG5147 140 FNENSARRPDIYEDELLEREVNREASYRLR 169 (512)
T ss_pred hhhhhhhhhhhhhcccchhhhhHHHHHHHH
Confidence 998888888777778888888888766544
No 22
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.98 E-value=1.1e-05 Score=59.84 Aligned_cols=49 Identities=14% Similarity=0.248 Sum_probs=44.0
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCh---HHHHhhhCCcc-Chhhhhhhhhccc
Q 019911 29 RRGPWTVEEDFKLINYISNHGEGRW---NCLARCAGLKR-TGKSCRLRWLNYL 77 (334)
Q Consensus 29 kKg~WT~EEDe~L~~lV~~~g~~~W---~~IA~~l~~~R-t~~qCr~Rw~~~L 77 (334)
.+-.||+||.++++++|+.+|.++| ..|++.|+..| |..||+.+++.|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 4678999999999999999998899 99999987566 9999999988764
No 23
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.87 E-value=2e-05 Score=78.81 Aligned_cols=52 Identities=23% Similarity=0.551 Sum_probs=48.6
Q ss_pred CCCCCcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhccc
Q 019911 25 DLDLRRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYL 77 (334)
Q Consensus 25 ~p~lkKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L 77 (334)
.-.+-...||.+|+-+|+++++.+|.|||..||.++| .|+..+|+++|.+++
T Consensus 67 s~~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 67 SFPILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHH
Confidence 5567788999999999999999999999999999999 999999999999875
No 24
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.74 E-value=2.1e-05 Score=80.12 Aligned_cols=63 Identities=21% Similarity=0.392 Sum_probs=58.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhhhHHhhhccCCccchh
Q 019911 81 VRRGNITLEEQLMILELHSRWG-NRWSKIAQHLPGRTDNEIKNYWRTRVQKHAKQLKCDVNSKQ 143 (334)
Q Consensus 81 lkrg~WT~EED~~Ll~lv~~~G-~~W~~IAk~lpgRT~~qcrnRW~~~lr~~~kk~~~~~~~~~ 143 (334)
++-|.|+.-||++|-.+|.+|| +.|++|++.++-.+..||++||..++.+.+++-.++.+++.
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eede 68 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDE 68 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHH
Confidence 5678999999999999999999 67999999999999999999999999999999888877654
No 25
>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=97.68 E-value=5.1e-05 Score=67.06 Aligned_cols=52 Identities=27% Similarity=0.419 Sum_probs=45.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHh---CC----ChhHHhhhCCCCCHHHHHHHHHHhhhHHhh
Q 019911 81 VRRGNITLEEQLMILELHSRW---GN----RWSKIAQHLPGRTDNEIKNYWRTRVQKHAK 133 (334)
Q Consensus 81 lkrg~WT~EED~~Ll~lv~~~---G~----~W~~IAk~lpgRT~~qcrnRW~~~lr~~~k 133 (334)
.+.+.||.|||.+|.+.|-+| |+ -...+++.| +||+.+|.-||+.++|+...
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~ 60 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYE 60 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHH
Confidence 467899999999999999888 43 388888987 99999999999999997643
No 26
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.63 E-value=0.00014 Score=53.87 Aligned_cols=46 Identities=15% Similarity=0.214 Sum_probs=40.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-Ch---hHHhhhC-CCC-CHHHHHHHHHHhh
Q 019911 83 RGNITLEEQLMILELHSRWGN-RW---SKIAQHL-PGR-TDNEIKNYWRTRV 128 (334)
Q Consensus 83 rg~WT~EED~~Ll~lv~~~G~-~W---~~IAk~l-pgR-T~~qcrnRW~~~l 128 (334)
|-.||+||..+++++++.+|. +| ..|++.+ ..| |..+|+.|...+.
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 558999999999999999995 99 9999988 455 9999999987654
No 27
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.47 E-value=0.00057 Score=62.66 Aligned_cols=98 Identities=22% Similarity=0.374 Sum_probs=73.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHHhhhC--CccChhhhhhhhhcccC-CCC--------------------CCCCCCH
Q 019911 32 PWTVEEDFKLINYISNHGEGRWNCLARCAG--LKRTGKSCRLRWLNYLR-PDV--------------------RRGNITL 88 (334)
Q Consensus 32 ~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~--~~Rt~~qCr~Rw~~~L~-p~l--------------------krg~WT~ 88 (334)
+|++++|-+|+.+|..-. +-..|+.-+. ..-|-+.+.+||+..|. |.+ .+-+||.
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 699999999999997665 5777876543 24566777899999773 322 3568999
Q ss_pred HHHHHHHHHHHHhCC---ChhHHh----hhC-CCCCHHHHHHHHHHhhhHH
Q 019911 89 EEQLMILELHSRWGN---RWSKIA----QHL-PGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 89 EED~~Ll~lv~~~G~---~W~~IA----k~l-pgRT~~qcrnRW~~~lr~~ 131 (334)
+|+++|......... .+.+|= ..| ++||+++...+|..+.+..
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~ 129 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYH 129 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhc
Confidence 999999998766543 366663 235 8999999999998655543
No 28
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.38 E-value=0.00027 Score=70.97 Aligned_cols=49 Identities=24% Similarity=0.505 Sum_probs=44.3
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhh
Q 019911 80 DVRRGNITLEEQLMILELHSRWG-NRWSKIAQHLPGRTDNEIKNYWRTRV 128 (334)
Q Consensus 80 ~lkrg~WT~EED~~Ll~lv~~~G-~~W~~IAk~lpgRT~~qcrnRW~~~l 128 (334)
.+-...||.+|+.+||+++..|| ++|..||.++..|+..+|+.||.+++
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 34456899999999999999999 99999999999999999999997644
No 29
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.29 E-value=0.00022 Score=72.05 Aligned_cols=46 Identities=30% Similarity=0.619 Sum_probs=43.5
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcc
Q 019911 29 RRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNY 76 (334)
Q Consensus 29 kKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~ 76 (334)
....||.+|-.+|++.|+.||. +|.+||+++| .|+..||..|+.++
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 5679999999999999999998 9999999999 99999999999875
No 30
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.15 E-value=0.00054 Score=70.72 Aligned_cols=48 Identities=29% Similarity=0.621 Sum_probs=44.4
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcc
Q 019911 27 DLRRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNY 76 (334)
Q Consensus 27 ~lkKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~ 76 (334)
...++.||.+|.-+|+++|+.||. +|.+||.++| .|+..||..++.+.
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYGD-DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhcc-cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 345788999999999999999998 9999999999 99999999999874
No 31
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.02 E-value=0.00061 Score=53.48 Aligned_cols=50 Identities=32% Similarity=0.537 Sum_probs=35.5
Q ss_pred CCCCCHHHHHHHHHHHHH------hC--C------ChhHHhhhC----CCCCHHHHHHHHHHhhhHHh
Q 019911 83 RGNITLEEQLMILELHSR------WG--N------RWSKIAQHL----PGRTDNEIKNYWRTRVQKHA 132 (334)
Q Consensus 83 rg~WT~EED~~Ll~lv~~------~G--~------~W~~IAk~l----pgRT~~qcrnRW~~~lr~~~ 132 (334)
|..||.+|...||+++.+ ++ + .|..||..| ..||..||+.||.++.+...
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk 68 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYK 68 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence 458999999999999877 21 1 399999986 46999999999999766553
No 32
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.77 E-value=0.0012 Score=51.70 Aligned_cols=48 Identities=33% Similarity=0.578 Sum_probs=33.3
Q ss_pred cCCCCHHHHHHHHHHHHHh------CC--C-----ChHHHHhhh---CCccChhhhhhhhhccc
Q 019911 30 RGPWTVEEDFKLINYISNH------GE--G-----RWNCLARCA---GLKRTGKSCRLRWLNYL 77 (334)
Q Consensus 30 Kg~WT~EEDe~L~~lV~~~------g~--~-----~W~~IA~~l---~~~Rt~~qCr~Rw~~~L 77 (334)
|..||.+|...|++++... +. . -|..||..| |..|++.||+.||.++.
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 4579999999999999872 11 0 399999887 66799999999998854
No 33
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.75 E-value=0.0019 Score=66.79 Aligned_cols=49 Identities=24% Similarity=0.410 Sum_probs=44.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhH
Q 019911 82 RRGNITLEEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 130 (334)
Q Consensus 82 krg~WT~EED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~ 130 (334)
-++.||++|..+|++.|+.||-.|.+||.++.+||..+|-.|+..+-..
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~LPie 300 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRLPIE 300 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhcCcc
Confidence 4678999999999999999999999999999999999999988765443
No 34
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.71 E-value=0.0018 Score=65.64 Aligned_cols=45 Identities=24% Similarity=0.404 Sum_probs=42.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHh
Q 019911 83 RGNITLEEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTR 127 (334)
Q Consensus 83 rg~WT~EED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~ 127 (334)
...||.+|..+|++.|+.||..|.+||+++..||..||-.||.++
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 348999999999999999999999999999999999999999864
No 35
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.63 E-value=0.0033 Score=47.85 Aligned_cols=51 Identities=16% Similarity=0.345 Sum_probs=32.5
Q ss_pred CCCCCHHHHHHHHHHHHHhC--------CC-hhHHhhhCC-CCCHHHHHHHHHHhhhHHhh
Q 019911 83 RGNITLEEQLMILELHSRWG--------NR-WSKIAQHLP-GRTDNEIKNYWRTRVQKHAK 133 (334)
Q Consensus 83 rg~WT~EED~~Ll~lv~~~G--------~~-W~~IAk~lp-gRT~~qcrnRW~~~lr~~~k 133 (334)
|-++|+|||.+|++.|.++. ++ |..+++.-+ .+|-.+.|+||...|+....
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 12 999999876 99999999999888876543
No 36
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.57 E-value=0.0025 Score=57.15 Aligned_cols=51 Identities=22% Similarity=0.287 Sum_probs=42.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCC-------hhHHhhhCCCCCHHHHHHHHHHhhhHHh
Q 019911 81 VRRGNITLEEQLMILELHSRWGNR-------WSKIAQHLPGRTDNEIKNYWRTRVQKHA 132 (334)
Q Consensus 81 lkrg~WT~EED~~Ll~lv~~~G~~-------W~~IAk~lpgRT~~qcrnRW~~~lr~~~ 132 (334)
.+.+.||.|||.+|.+.|-+|+.. ...++..| +||..+|..||+.++|+..
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Y 60 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQY 60 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHH
Confidence 467899999999999999888632 45555665 9999999999999999764
No 37
>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=96.48 E-value=0.0034 Score=47.73 Aligned_cols=52 Identities=33% Similarity=0.521 Sum_probs=33.5
Q ss_pred cCCCCHHHHHHHHHHHHHhCC------C--ChHHHHhhhCCccChhhhhhhhhcccCCCC
Q 019911 30 RGPWTVEEDFKLINYISNHGE------G--RWNCLARCAGLKRTGKSCRLRWLNYLRPDV 81 (334)
Q Consensus 30 Kg~WT~EEDe~L~~lV~~~g~------~--~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~l 81 (334)
|-+||.|||++|++.|..+.. | =|..+++.-++.++-.+-|+||.+.|.+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~ 61 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRP 61 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence 568999999999999976532 1 299999887668999999999999987643
No 38
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.27 E-value=0.0089 Score=46.02 Aligned_cols=52 Identities=27% Similarity=0.513 Sum_probs=42.3
Q ss_pred CCCCCHHHHHHHHHHHHHh-----CC------------ChhHHhhhC-----CCCCHHHHHHHHHHhhhHHhhh
Q 019911 83 RGNITLEEQLMILELHSRW-----GN------------RWSKIAQHL-----PGRTDNEIKNYWRTRVQKHAKQ 134 (334)
Q Consensus 83 rg~WT~EED~~Ll~lv~~~-----G~------------~W~~IAk~l-----pgRT~~qcrnRW~~~lr~~~kk 134 (334)
+..||.+|...|++++.+| |. .|..|+..| +.|+..+||.+|.++.....++
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk~ 75 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKKK 75 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 4579999999999999887 31 399999865 3699999999999987765443
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=96.23 E-value=0.0031 Score=55.90 Aligned_cols=50 Identities=32% Similarity=0.628 Sum_probs=42.4
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCC------ChHHHHhhhCCccChhhhhhhhhcccCC
Q 019911 28 LRRGPWTVEEDFKLINYISNHGEG------RWNCLARCAGLKRTGKSCRLRWLNYLRP 79 (334)
Q Consensus 28 lkKg~WT~EEDe~L~~lV~~~g~~------~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p 79 (334)
.+...||.|||.+|.+.|-+|=.. .+.+|+..++ ||+..|.-||..+++.
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 467789999999999999988321 4889999886 9999999999998864
No 40
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.97 E-value=0.11 Score=58.44 Aligned_cols=101 Identities=15% Similarity=0.231 Sum_probs=77.3
Q ss_pred CCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhh-------hhhcc---------c-------------------
Q 019911 33 WTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRL-------RWLNY---------L------------------- 77 (334)
Q Consensus 33 WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~-------Rw~~~---------L------------------- 77 (334)
|+..+=..++.++.+||..+-..||..|. +++...++. ||..+ +
T Consensus 827 w~~~~f~~f~~~~~~~gr~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~~ 905 (1033)
T PLN03142 827 WSRRDFNAFIRACEKYGRNDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIGK 905 (1033)
T ss_pred ccHHHHHHHHHHHHHhCHhHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 77777778888889999889999999997 788877752 21110 0
Q ss_pred ---------------CCCCCCCCCCHHHHHHHHHHHHHhC-CChhHHhhh------------CCCCCHHHHHHHHHHhhh
Q 019911 78 ---------------RPDVRRGNITLEEQLMILELHSRWG-NRWSKIAQH------------LPGRTDNEIKNYWRTRVQ 129 (334)
Q Consensus 78 ---------------~p~lkrg~WT~EED~~Ll~lv~~~G-~~W~~IAk~------------lpgRT~~qcrnRW~~~lr 129 (334)
.+..++..+|+|||+.|+-.+.+|| .+|..|-.. +..||...+..|...+++
T Consensus 906 k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~ 985 (1033)
T PLN03142 906 KLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIR 985 (1033)
T ss_pred HHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHH
Confidence 1122344699999999999999999 789998432 257999999999999988
Q ss_pred HHhhh
Q 019911 130 KHAKQ 134 (334)
Q Consensus 130 ~~~kk 134 (334)
-..|.
T Consensus 986 ~~~~e 990 (1033)
T PLN03142 986 LIEKE 990 (1033)
T ss_pred HHHHH
Confidence 76443
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.75 E-value=0.0067 Score=59.10 Aligned_cols=50 Identities=22% Similarity=0.529 Sum_probs=46.1
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccC
Q 019911 28 LRRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLR 78 (334)
Q Consensus 28 lkKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~ 78 (334)
+---.|+..|+-+|++.....|-|||.-||.++| .|+...|+++|.+++.
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 4456799999999999999999999999999999 9999999999998765
No 42
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.67 E-value=0.0098 Score=45.80 Aligned_cols=50 Identities=24% Similarity=0.398 Sum_probs=40.4
Q ss_pred CcCCCCHHHHHHHHHHHHHhCC----------------CChHHHHhhh----CCccChhhhhhhhhcccC
Q 019911 29 RRGPWTVEEDFKLINYISNHGE----------------GRWNCLARCA----GLKRTGKSCRLRWLNYLR 78 (334)
Q Consensus 29 kKg~WT~EEDe~L~~lV~~~g~----------------~~W~~IA~~l----~~~Rt~~qCr~Rw~~~L~ 78 (334)
++..||.+|.+.|+++|.+|.. .-|..|+..+ |..|+..+|+.+|.++..
T Consensus 1 R~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~ 70 (78)
T PF13873_consen 1 RKPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKS 70 (78)
T ss_pred CCCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHH
Confidence 4678999999999999998831 1499999877 236999999999988643
No 43
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.60 E-value=0.013 Score=57.18 Aligned_cols=46 Identities=24% Similarity=0.442 Sum_probs=42.5
Q ss_pred CCCCHHHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhhh
Q 019911 84 GNITLEEQLMILELHSRWG-NRWSKIAQHLPGRTDNEIKNYWRTRVQ 129 (334)
Q Consensus 84 g~WT~EED~~Ll~lv~~~G-~~W~~IAk~lpgRT~~qcrnRW~~~lr 129 (334)
..|+.+|+.+|++.....| ++|..||.++..|+...||.||..+.-
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 4699999999999999999 899999999999999999999976554
No 44
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=94.98 E-value=0.015 Score=52.25 Aligned_cols=50 Identities=26% Similarity=0.474 Sum_probs=40.5
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCC------ChHHHHhhhCCccChhhhhhhhhcccCC
Q 019911 28 LRRGPWTVEEDFKLINYISNHGEG------RWNCLARCAGLKRTGKSCRLRWLNYLRP 79 (334)
Q Consensus 28 lkKg~WT~EEDe~L~~lV~~~g~~------~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p 79 (334)
.+...||.|||.+|.+.|.+|+.. -...++..|. |+..+|..||..+++.
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vrk 58 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVRK 58 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHHH
Confidence 567899999999999999888643 2566677775 9999999999776653
No 45
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=93.24 E-value=0.17 Score=49.68 Aligned_cols=53 Identities=21% Similarity=0.326 Sum_probs=42.4
Q ss_pred CCCCCHHHHHHHHHHHHHh----------CCChhHHhhhC----CCCCHHHHHHHHHHhhhHHhhhc
Q 019911 83 RGNITLEEQLMILELHSRW----------GNRWSKIAQHL----PGRTDNEIKNYWRTRVQKHAKQL 135 (334)
Q Consensus 83 rg~WT~EED~~Ll~lv~~~----------G~~W~~IAk~l----pgRT~~qcrnRW~~~lr~~~kk~ 135 (334)
...|+.+|-..||++..+. +..|..||+.+ .-||+.+||.+|.++.++..+..
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~k 120 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKEK 120 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 3689999999999998653 23499999955 45999999999999887765443
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=92.41 E-value=0.37 Score=40.81 Aligned_cols=54 Identities=24% Similarity=0.405 Sum_probs=42.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC----ChhHHhhh------------CCCCCHHHHHHHHHHhhhHHhh
Q 019911 80 DVRRGNITLEEQLMILELHSRWGN----RWSKIAQH------------LPGRTDNEIKNYWRTRVQKHAK 133 (334)
Q Consensus 80 ~lkrg~WT~EED~~Ll~lv~~~G~----~W~~IAk~------------lpgRT~~qcrnRW~~~lr~~~k 133 (334)
..++..+|+|||+-|+-.+.+||- .|..|-.. +..||+..+..|...+++-..|
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~K 115 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIEK 115 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHHC
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHHH
Confidence 456779999999999999999996 69888653 2569999999999998886544
No 47
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=91.26 E-value=0.22 Score=49.81 Aligned_cols=47 Identities=21% Similarity=0.288 Sum_probs=43.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhH
Q 019911 84 GNITLEEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 130 (334)
Q Consensus 84 g~WT~EED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~ 130 (334)
.+|+.+|-+++..+...+|....-|+..||.|..+|||.+|.+--++
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~ 412 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKV 412 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhh
Confidence 37999999999999999999999999999999999999999865443
No 48
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=90.78 E-value=0.65 Score=36.60 Aligned_cols=46 Identities=30% Similarity=0.530 Sum_probs=34.9
Q ss_pred CCCHHHHHHHHHHHHHh---CC----------ChhHHhhhC---C--CCCHHHHHHHHHHhhhH
Q 019911 85 NITLEEQLMILELHSRW---GN----------RWSKIAQHL---P--GRTDNEIKNYWRTRVQK 130 (334)
Q Consensus 85 ~WT~EED~~Ll~lv~~~---G~----------~W~~IAk~l---p--gRT~~qcrnRW~~~lr~ 130 (334)
.||+++++.|++++.+. |+ .|..|++.| . ..+..+|++||..+.+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~ 64 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKD 64 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHH
Confidence 49999999999998654 21 299998876 2 35678999998775554
No 49
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=90.28 E-value=0.32 Score=48.78 Aligned_cols=55 Identities=22% Similarity=0.255 Sum_probs=47.9
Q ss_pred CCCCHHHHHHHHHHHHHhCCChhHHhhh-----CCC-CCHHHHHHHHHHhhhHHhhhccCC
Q 019911 84 GNITLEEQLMILELHSRWGNRWSKIAQH-----LPG-RTDNEIKNYWRTRVQKHAKQLKCD 138 (334)
Q Consensus 84 g~WT~EED~~Ll~lv~~~G~~W~~IAk~-----lpg-RT~~qcrnRW~~~lr~~~kk~~~~ 138 (334)
..||.||-..|+++++.|.-+|--|+.. ++. ||-..+|.||....++.++...-.
T Consensus 131 n~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~s 191 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARAPS 191 (445)
T ss_pred ccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHccCCC
Confidence 5799999999999999999999999876 655 999999999999988887765433
No 50
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=88.43 E-value=0.56 Score=39.73 Aligned_cols=34 Identities=21% Similarity=0.377 Sum_probs=29.0
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCC---CChHHHHhhh
Q 019911 27 DLRRGPWTVEEDFKLINYISNHGE---GRWNCLARCA 60 (334)
Q Consensus 27 ~lkKg~WT~EEDe~L~~lV~~~g~---~~W~~IA~~l 60 (334)
.-++..||.+||.-|+-++.+||. +.|.+|-..+
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 667889999999999999999998 8999998765
No 51
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=88.22 E-value=1.5 Score=47.25 Aligned_cols=58 Identities=10% Similarity=0.064 Sum_probs=46.7
Q ss_pred hhhcccCCCC---CCCCCCHHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhh
Q 019911 72 RWLNYLRPDV---RRGNITLEEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQ 129 (334)
Q Consensus 72 Rw~~~L~p~l---krg~WT~EED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr 129 (334)
||..|+--.. -...||+.|-.++-+++..|.+....|++.++++|-++|-.+|..+.+
T Consensus 605 ~~~~h~la~Y~Y~gSd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtWKK 665 (907)
T KOG4167|consen 605 RLKCHPLANYHYAGSDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTWKK 665 (907)
T ss_pred CccccccceeeecCcccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHHHH
Confidence 5555443322 246899999999999999999999999999999999999887765443
No 52
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=87.02 E-value=3.1 Score=42.80 Aligned_cols=48 Identities=21% Similarity=0.331 Sum_probs=43.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhh
Q 019911 82 RRGNITLEEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQ 129 (334)
Q Consensus 82 krg~WT~EED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr 129 (334)
....||.||-.+|-.+...||....+|-+.||.|+-.++..+|....+
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK 233 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKK 233 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHH
Confidence 356899999999999999999999999999999999999998876544
No 53
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=85.63 E-value=0.83 Score=44.90 Aligned_cols=48 Identities=29% Similarity=0.521 Sum_probs=37.8
Q ss_pred cCCCCHHHHHHHHHHHHHh----CCC-----ChHHHHhhh---CCccChhhhhhhhhccc
Q 019911 30 RGPWTVEEDFKLINYISNH----GEG-----RWNCLARCA---GLKRTGKSCRLRWLNYL 77 (334)
Q Consensus 30 Kg~WT~EEDe~L~~lV~~~----g~~-----~W~~IA~~l---~~~Rt~~qCr~Rw~~~L 77 (334)
...|+.+|-..|+++..+. ..+ -|..||+.+ |..|++.||+.+|.++.
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 3789999999999988643 111 499999843 56799999999998754
No 54
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=83.62 E-value=1.2 Score=44.64 Aligned_cols=44 Identities=16% Similarity=0.269 Sum_probs=40.8
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhc
Q 019911 30 RGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLN 75 (334)
Q Consensus 30 Kg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~ 75 (334)
.-+|+.+|-+++.+++...|. ++.-|+.++| .|..+|+..+|.+
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP-~R~RkqIKaKfi~ 408 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGT-DFSLISSLFP-NRERKQIKAKFIK 408 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcc-hHHHHHHhcC-chhHHHHHHHHHH
Confidence 357999999999999999999 9999999998 9999999998876
No 55
>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=83.27 E-value=1.8 Score=34.09 Aligned_cols=44 Identities=30% Similarity=0.549 Sum_probs=32.5
Q ss_pred CCCHHHHHHHHHHHHHh---CCC---------ChHHHHhhh----CCccChhhhhhhhhc
Q 019911 32 PWTVEEDFKLINYISNH---GEG---------RWNCLARCA----GLKRTGKSCRLRWLN 75 (334)
Q Consensus 32 ~WT~EEDe~L~~lV~~~---g~~---------~W~~IA~~l----~~~Rt~~qCr~Rw~~ 75 (334)
.||+++++.|++++... |.. .|..|+..| +...+..||..||..
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 59999999999998654 211 388888876 334667888888765
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=81.44 E-value=1.5 Score=34.90 Aligned_cols=30 Identities=40% Similarity=0.560 Sum_probs=17.7
Q ss_pred CCCCcCCCCHHHHHHH--------HHHHHHhCCCChHHHHh
Q 019911 26 LDLRRGPWTVEEDFKL--------INYISNHGEGRWNCLAR 58 (334)
Q Consensus 26 p~lkKg~WT~EEDe~L--------~~lV~~~g~~~W~~IA~ 58 (334)
|.-..|-||+|+|+.| .+++++||. ..|++
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG~---~~i~~ 80 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHGE---ERIER 80 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH-H---HHHHH
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhCH---HHHHH
Confidence 6677899999999999 566677773 55544
No 57
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=80.33 E-value=2.5 Score=29.18 Aligned_cols=38 Identities=24% Similarity=0.309 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhc
Q 019911 36 EEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLN 75 (334)
Q Consensus 36 EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~ 75 (334)
+=|.+|+.++.+.+...|.+||+.+| =+...|..|+.+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg--lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG--LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT--S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC--cCHHHHHHHHHH
Confidence 45889999999999889999999997 788889888764
No 58
>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=80.30 E-value=4.9 Score=28.28 Aligned_cols=41 Identities=27% Similarity=0.306 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhh
Q 019911 88 LEEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQ 129 (334)
Q Consensus 88 ~EED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr 129 (334)
++++..++.++...|-.|.+||+.+ |.+...|+.+....++
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 4678889999999999999999998 8999999887765444
No 59
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=77.69 E-value=6.4 Score=41.86 Aligned_cols=53 Identities=17% Similarity=0.369 Sum_probs=43.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCChhHHhhh----------CCCCCHHHHHHHHHHhhhHHhhhc
Q 019911 83 RGNITLEEQLMILELHSRWGNRWSKIAQH----------LPGRTDNEIKNYWRTRVQKHAKQL 135 (334)
Q Consensus 83 rg~WT~EED~~Ll~lv~~~G~~W~~IAk~----------lpgRT~~qcrnRW~~~lr~~~kk~ 135 (334)
|..||-.|++-+..+++++|....+|-+. ..-+|..|+|.+|...+++..+-.
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~ 150 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLL 150 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhh
Confidence 56899999999999999999999999332 234677899999999998876654
No 60
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=77.34 E-value=2.8 Score=45.33 Aligned_cols=43 Identities=12% Similarity=0.169 Sum_probs=39.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhc
Q 019911 31 GPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLN 75 (334)
Q Consensus 31 g~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~ 75 (334)
..||+.|-.++.+++..|.. ++-.|++++. +++.+||-+-|..
T Consensus 620 d~WTp~E~~lF~kA~y~~~K-DF~~v~km~~-~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSK-DFIFVQKMVK-SKTVAQCVEYYYT 662 (907)
T ss_pred ccccHHHHHHHHHHHHHhcc-cHHHHHHHhc-cccHHHHHHHHHH
Confidence 47999999999999999997 9999999998 9999999987653
No 61
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=76.91 E-value=42 Score=33.93 Aligned_cols=45 Identities=18% Similarity=0.169 Sum_probs=39.7
Q ss_pred CCCCHHHHHHHHHHHHHhCCChhHHhh-hCCCCCHHHHHHHHHHhh
Q 019911 84 GNITLEEQLMILELHSRWGNRWSKIAQ-HLPGRTDNEIKNYWRTRV 128 (334)
Q Consensus 84 g~WT~EED~~Ll~lv~~~G~~W~~IAk-~lpgRT~~qcrnRW~~~l 128 (334)
..|+++|-+.+-+.++.||+....|-+ +++.|+--.|-..|....
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWK 323 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWK 323 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhh
Confidence 479999999999999999999999977 679999999988775543
No 62
>smart00595 MADF subfamily of SANT domain.
Probab=74.79 E-value=3.6 Score=31.96 Aligned_cols=27 Identities=26% Similarity=0.498 Sum_probs=22.2
Q ss_pred ChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 104 RWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 104 ~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
-|..||..|.. +...|+.+|+++-...
T Consensus 29 aW~~Ia~~l~~-~~~~~~~kw~~LR~~y 55 (89)
T smart00595 29 AWEEIAEELGL-SVEECKKRWKNLRDRY 55 (89)
T ss_pred HHHHHHHHHCc-CHHHHHHHHHHHHHHH
Confidence 39999999944 9999999999865443
No 63
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=72.71 E-value=4.1 Score=35.34 Aligned_cols=46 Identities=11% Similarity=0.104 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccCCCCC
Q 019911 35 VEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLRPDVR 82 (334)
Q Consensus 35 ~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lk 82 (334)
.+-|.+|+++.++.|...|.+||+.+| -+...|+.|+.+..+.++-
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 357999999999999889999999997 8999999999988776654
No 64
>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=67.37 E-value=12 Score=25.75 Aligned_cols=38 Identities=24% Similarity=0.375 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHh
Q 019911 89 EEQLMILELHSRWG-NRWSKIAQHLPGRTDNEIKNYWRTR 127 (334)
Q Consensus 89 EED~~Ll~lv~~~G-~~W~~IAk~lpgRT~~qcrnRW~~~ 127 (334)
+=|.+|+.+..+-| ..|..||+.+ |=+...|..|+..+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~l-glS~~~v~~Ri~rL 41 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEEL-GLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHH-TS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHH-CcCHHHHHHHHHHh
Confidence 45788999998888 5699999998 88999999988653
No 65
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=66.82 E-value=4.8 Score=35.35 Aligned_cols=46 Identities=17% Similarity=0.134 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccCCCCC
Q 019911 35 VEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLRPDVR 82 (334)
Q Consensus 35 ~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lk 82 (334)
.+-|.+|+.+.++.|.-.|.+||+.+| -+...|+.|+.+..+.++-
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 567999999999999889999999997 8888999999988776653
No 66
>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=65.07 E-value=71 Score=31.70 Aligned_cols=88 Identities=17% Similarity=0.310 Sum_probs=61.5
Q ss_pred cCCCCHHHHHHHHHHHHHh-CC--CChHHHHhhhCCccChhhhhhhhhcccCCCCCCCCCCHHHHHHHHHHHHH-h----
Q 019911 30 RGPWTVEEDFKLINYISNH-GE--GRWNCLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSR-W---- 101 (334)
Q Consensus 30 Kg~WT~EEDe~L~~lV~~~-g~--~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkrg~WT~EED~~Ll~lv~~-~---- 101 (334)
...||..|...|+++.+.. |. -+-.+|++.+. +|+..++++ |.+.|+ ++.+.+++++ |
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 4579999999998888755 32 14678899998 999999887 333333 2234444444 1
Q ss_pred -CC------------ChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 102 -GN------------RWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 102 -G~------------~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
|. -|..+|+++.|.-...+-.-|-+.|--.
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ia 129 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLTIA 129 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHHHh
Confidence 21 2999999999998888888777766543
No 67
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=64.63 E-value=8 Score=41.14 Aligned_cols=48 Identities=15% Similarity=0.321 Sum_probs=36.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCC---------ccChhhhhhhhhcccC
Q 019911 30 RGPWTVEEDFKLINYISNHGEGRWNCLARCAGL---------KRTGKSCRLRWLNYLR 78 (334)
Q Consensus 30 Kg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~---------~Rt~~qCr~Rw~~~L~ 78 (334)
|..||-.|.+-+..++.++|. ++.+|-..+-- -++..|+|.+|++.+.
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~ 144 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVR 144 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHH
Confidence 668999999999999999998 89888322210 2556788888877653
No 68
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=63.31 E-value=15 Score=31.69 Aligned_cols=43 Identities=16% Similarity=0.115 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhhhHHh
Q 019911 89 EEQLMILELHSRWG-NRWSKIAQHLPGRTDNEIKNYWRTRVQKHA 132 (334)
Q Consensus 89 EED~~Ll~lv~~~G-~~W~~IAk~lpgRT~~qcrnRW~~~lr~~~ 132 (334)
+-|.+|+++.++-| ..|+.||+.+ |-+...|+.|++.+....+
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 57889999999988 5799999998 9999999999988777653
No 69
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=62.58 E-value=4.5 Score=31.81 Aligned_cols=40 Identities=25% Similarity=0.530 Sum_probs=27.4
Q ss_pred HHHHHHHHHhC-------CCChHHHHhhhCCccC----hhhhhhhhhcccC
Q 019911 39 FKLINYISNHG-------EGRWNCLARCAGLKRT----GKSCRLRWLNYLR 78 (334)
Q Consensus 39 e~L~~lV~~~g-------~~~W~~IA~~l~~~Rt----~~qCr~Rw~~~L~ 78 (334)
-+|..+|.+.| .+.|..||+.+|.... ..+++..|.++|.
T Consensus 39 ~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 39 YKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 36778888776 2369999999985442 3556677777664
No 70
>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=60.71 E-value=31 Score=34.17 Aligned_cols=50 Identities=24% Similarity=0.421 Sum_probs=38.6
Q ss_pred CCCCCHHHHHHHHHHHHHh-CCC---hhHHhhhCCCCCHHHHHHHHHHhhhHHh
Q 019911 83 RGNITLEEQLMILELHSRW-GNR---WSKIAQHLPGRTDNEIKNYWRTRVQKHA 132 (334)
Q Consensus 83 rg~WT~EED~~Ll~lv~~~-G~~---W~~IAk~lpgRT~~qcrnRW~~~lr~~~ 132 (334)
-..||.-|.+.|+++.+.. |.. -..|++.++||+..+|++.-..+..+.+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rva 74 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRVA 74 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHHH
Confidence 3479999999999998765 443 5688999999999999986665544443
No 71
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=60.66 E-value=7.1 Score=41.43 Aligned_cols=50 Identities=18% Similarity=0.295 Sum_probs=44.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 82 RRGNITLEEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 82 krg~WT~EED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
..+.|+.+|-.+......++|...+.|+..+|+|..++||.++..--++.
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE~r~ 457 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEEKRN 457 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhhhcc
Confidence 45689999999999999999999999999999999999999997654443
No 72
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=60.15 E-value=16 Score=33.75 Aligned_cols=44 Identities=16% Similarity=0.238 Sum_probs=35.5
Q ss_pred CCCHHHHHHHHHHHHHhCCChhHHhh--hC-CCCCHHHHHHHHHHhhh
Q 019911 85 NITLEEQLMILELHSRWGNRWSKIAQ--HL-PGRTDNEIKNYWRTRVQ 129 (334)
Q Consensus 85 ~WT~EED~~Ll~lv~~~G~~W~~IAk--~l-pgRT~~qcrnRW~~~lr 129 (334)
.|++++|.+|+.+|.. |+.-..|++ +| -.-|-..+..||..+|-
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~lly 47 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLY 47 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHc
Confidence 4999999999999865 666677766 34 55788999999998875
No 73
>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=59.81 E-value=8.7 Score=30.43 Aligned_cols=17 Identities=35% Similarity=0.374 Sum_probs=10.1
Q ss_pred CCCCCCCCCHHHHHHHH
Q 019911 79 PDVRRGNITLEEQLMIL 95 (334)
Q Consensus 79 p~lkrg~WT~EED~~Ll 95 (334)
|....|-||+|+|..|.
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 55668999999999983
No 74
>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=57.16 E-value=36 Score=23.52 Aligned_cols=41 Identities=17% Similarity=0.286 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhH
Q 019911 89 EEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 130 (334)
Q Consensus 89 EED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~ 130 (334)
+++..++.+.--.|-.+..||+.+ |-+...|+.+-...+++
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 455666666666677899999998 78888888877666654
No 75
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=56.15 E-value=14 Score=42.47 Aligned_cols=76 Identities=22% Similarity=0.272 Sum_probs=50.0
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccCCCCCCCCCCHHHHHHHHHHHHHh-CCChhH
Q 019911 29 RRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSRW-GNRWSK 107 (334)
Q Consensus 29 kKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkrg~WT~EED~~Ll~lv~~~-G~~W~~ 107 (334)
.-.-|..+||..|+-.|-+||.++|..|-.-=-++=+.+ ..+...+-.+.|=..+-..|+.++..+ +.+|.+
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~l~dK-------i~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~ 1204 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLGLTDK-------IFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPK 1204 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccCccccchhh-------hcccccCCchHHHHHHHHHHHHHHhhcccCCCch
Confidence 345699999999999999999999999942111111111 112222445667777778888888777 566766
Q ss_pred Hhhh
Q 019911 108 IAQH 111 (334)
Q Consensus 108 IAk~ 111 (334)
..+.
T Consensus 1205 ~~~~ 1208 (1373)
T KOG0384|consen 1205 KLKR 1208 (1373)
T ss_pred hhhc
Confidence 5543
No 76
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=55.72 E-value=11 Score=29.95 Aligned_cols=41 Identities=27% Similarity=0.628 Sum_probs=27.6
Q ss_pred HHHHHHHHHhC-------CCChHHHHhhhCCcc----ChhhhhhhhhcccCC
Q 019911 39 FKLINYISNHG-------EGRWNCLARCAGLKR----TGKSCRLRWLNYLRP 79 (334)
Q Consensus 39 e~L~~lV~~~g-------~~~W~~IA~~l~~~R----t~~qCr~Rw~~~L~p 79 (334)
-+|..+|.+.| ...|..||+.++..- ...+.+..|.++|.|
T Consensus 35 ~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 35 YRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 46788888776 237999999998542 234556666666643
No 77
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=55.10 E-value=21 Score=31.24 Aligned_cols=44 Identities=11% Similarity=-0.010 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhhhHHh
Q 019911 88 LEEQLMILELHSRWG-NRWSKIAQHLPGRTDNEIKNYWRTRVQKHA 132 (334)
Q Consensus 88 ~EED~~Ll~lv~~~G-~~W~~IAk~lpgRT~~qcrnRW~~~lr~~~ 132 (334)
.+-|.+|+.+.++-| -.|+.||+.+ |=+...|+.|++.+.+..+
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 467888999988888 5799999998 9999999999998887664
No 78
>smart00351 PAX Paired Box domain.
Probab=51.50 E-value=95 Score=26.05 Aligned_cols=73 Identities=15% Similarity=0.132 Sum_probs=48.0
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccC-hhhhhhhhhc--ccCCCC----CCCCCCHHHHHHHHHHHHH
Q 019911 28 LRRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRT-GKSCRLRWLN--YLRPDV----RRGNITLEEQLMILELHSR 100 (334)
Q Consensus 28 lkKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt-~~qCr~Rw~~--~L~p~l----krg~WT~EED~~Ll~lv~~ 100 (334)
....+.+.++-++++.++. -|. .-..||+.++..|. ...+..||.. .+.|.- +...-+++++..|++++.+
T Consensus 13 ~~~~~~s~~~R~riv~~~~-~G~-s~~~iA~~~gvs~~tV~kwi~r~~~~G~~~pk~~gg~rp~~~~~~~~~~I~~~~~~ 90 (125)
T smart00351 13 VNGRPLPDEERQRIVELAQ-NGV-RPCDISRQLCVSHGCVSKILGRYYETGSIRPGAIGGSKPKVATPKVVKKIADYKQE 90 (125)
T ss_pred cCCCCCCHHHHHHHHHHHH-cCC-CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCcCCCCCCCCccCHHHHHHHHHHHHH
Confidence 4456799999999998886 454 68999999985543 4455666654 344421 2223556666677777766
Q ss_pred hC
Q 019911 101 WG 102 (334)
Q Consensus 101 ~G 102 (334)
++
T Consensus 91 ~p 92 (125)
T smart00351 91 NP 92 (125)
T ss_pred CC
Confidence 54
No 79
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=50.49 E-value=19 Score=32.03 Aligned_cols=38 Identities=26% Similarity=0.230 Sum_probs=32.4
Q ss_pred CCCHHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHH
Q 019911 85 NITLEEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNY 123 (334)
Q Consensus 85 ~WT~EED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnR 123 (334)
.||+|+.++|.+|..+ |..=++||+.|.+.|.+.|--+
T Consensus 2 ~Wtde~~~~L~~lw~~-G~SasqIA~~lg~vsRnAViGk 39 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GLSASQIARQLGGVSRNAVIGK 39 (162)
T ss_pred CCCHHHHHHHHHHHHc-CCCHHHHHHHhCCcchhhhhhh
Confidence 5999999999999754 8888999999987898888543
No 80
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=50.21 E-value=20 Score=40.87 Aligned_cols=34 Identities=18% Similarity=0.281 Sum_probs=29.4
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCChHHHHhhh
Q 019911 27 DLRRGPWTVEEDFKLINYISNHGEGRWNCLARCA 60 (334)
Q Consensus 27 ~lkKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l 60 (334)
..++..+|.|||..|+-++.+||.++|.+|-..+
T Consensus 923 ~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i 956 (1033)
T PLN03142 923 QNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAF 956 (1033)
T ss_pred CCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHH
Confidence 3455669999999999999999999999997655
No 81
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=50.07 E-value=3.6 Score=41.54 Aligned_cols=60 Identities=22% Similarity=0.220 Sum_probs=48.4
Q ss_pred CCCCccccCCCCCcCCCCHHHHHHHHHHHHHhCCCChHHHHhh-----hCCccChhhhhhhhhccc
Q 019911 17 SSTTISEEDLDLRRGPWTVEEDFKLINYISNHGEGRWNCLARC-----AGLKRTGKSCRLRWLNYL 77 (334)
Q Consensus 17 ~~~~~s~~~p~lkKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~-----l~~~Rt~~qCr~Rw~~~L 77 (334)
++....+-+..++-..||.+|-+-|.+++++|-- +|-.||.. .+..||-....+||..+.
T Consensus 117 psYt~eEYe~~l~dn~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 117 PSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred cccchHHHHHhhccccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 4444445556777789999999999999999997 88888876 664599999999998754
No 82
>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=49.75 E-value=19 Score=24.43 Aligned_cols=30 Identities=20% Similarity=0.159 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHhCCCChHHHHhhhCCccCh
Q 019911 36 EEDFKLINYISNHGEGRWNCLARCAGLKRTG 66 (334)
Q Consensus 36 EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~ 66 (334)
-|.+.|.+++.+++. +..+.|+.+|..|+.
T Consensus 5 ~E~~~i~~aL~~~~g-n~~~aA~~Lgisr~t 34 (42)
T PF02954_consen 5 FEKQLIRQALERCGG-NVSKAARLLGISRRT 34 (42)
T ss_dssp HHHHHHHHHHHHTTT--HHHHHHHHTS-HHH
T ss_pred HHHHHHHHHHHHhCC-CHHHHHHHHCCCHHH
Confidence 477889999999985 899999999966654
No 83
>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=49.20 E-value=17 Score=27.28 Aligned_cols=28 Identities=21% Similarity=0.488 Sum_probs=22.0
Q ss_pred ChhHHhhhCC-CCCHHHHHHHHHHhhhHH
Q 019911 104 RWSKIAQHLP-GRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 104 ~W~~IAk~lp-gRT~~qcrnRW~~~lr~~ 131 (334)
-|..|+..|. .-+...|+.||.++....
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~y 56 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDRY 56 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHHH
Confidence 4999999994 367889999999865543
No 84
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=49.15 E-value=28 Score=27.50 Aligned_cols=40 Identities=18% Similarity=0.459 Sum_probs=29.3
Q ss_pred HHHHHHHHHhCC--------ChhHHhhhC--CC---CCHHHHHHHHHHhhhHH
Q 019911 92 LMILELHSRWGN--------RWSKIAQHL--PG---RTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 92 ~~Ll~lv~~~G~--------~W~~IAk~l--pg---RT~~qcrnRW~~~lr~~ 131 (334)
-+|..+|.+.|+ .|..|++.| +. .....+|..|..+|.+-
T Consensus 35 ~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~y 87 (93)
T smart00501 35 YRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPF 87 (93)
T ss_pred HHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHH
Confidence 347788888775 699999988 21 23567888888887764
No 85
>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=48.81 E-value=43 Score=27.78 Aligned_cols=39 Identities=18% Similarity=0.217 Sum_probs=28.3
Q ss_pred HHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 92 LMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 92 ~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
..++.+.-..|-.+..||+.+ |.+...|+.+....+++.
T Consensus 119 r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~L 157 (161)
T TIGR02985 119 RKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKEL 157 (161)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 334444334577899999987 889999999988765543
No 86
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=48.67 E-value=41 Score=26.28 Aligned_cols=38 Identities=16% Similarity=0.461 Sum_probs=27.3
Q ss_pred HHHHHHHHhCC--------ChhHHhhhC--CC-CC--HHHHHHHHHHhhhH
Q 019911 93 MILELHSRWGN--------RWSKIAQHL--PG-RT--DNEIKNYWRTRVQK 130 (334)
Q Consensus 93 ~Ll~lv~~~G~--------~W~~IAk~l--pg-RT--~~qcrnRW~~~lr~ 130 (334)
+|..+|.+.|+ .|..|++.| +. -+ ..++|..|..+|.+
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 48888888875 599999988 22 12 35788888887754
No 87
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=48.37 E-value=77 Score=26.33 Aligned_cols=45 Identities=18% Similarity=0.266 Sum_probs=33.1
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhccc
Q 019911 29 RRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYL 77 (334)
Q Consensus 29 kKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L 77 (334)
++..||.|+-..++..+...|. .-..||+.+|. +.. -..+|.+.+
T Consensus 9 ~rr~ys~EfK~~aV~~~~~~g~-sv~evA~e~gI--s~~-tl~~W~r~y 53 (121)
T PRK09413 9 KRRRRTTQEKIAIVQQSFEPGM-TVSLVARQHGV--AAS-QLFLWRKQY 53 (121)
T ss_pred CCCCCCHHHHHHHHHHHHcCCC-CHHHHHHHHCc--CHH-HHHHHHHHH
Confidence 4678999998878777777775 78899999984 433 344577654
No 88
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=47.26 E-value=24 Score=36.56 Aligned_cols=45 Identities=13% Similarity=0.163 Sum_probs=39.7
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhc
Q 019911 29 RRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLN 75 (334)
Q Consensus 29 kKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~ 75 (334)
.+..||.||--+|.++...||. ++.+|-+.|+ .|+-.++++-|..
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK-~F~kIrq~LP-~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGK-DFHKIRQALP-HRSLASLVQYYYS 230 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcc-cHHHHHHHcc-CccHHHHHHHHHH
Confidence 4677999999999999999998 9999999998 9999988875544
No 89
>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=46.50 E-value=23 Score=24.74 Aligned_cols=38 Identities=13% Similarity=0.119 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhc
Q 019911 35 VEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLN 75 (334)
Q Consensus 35 ~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~ 75 (334)
++++..++.++...|. .|.+||..+| .+...++.+..+
T Consensus 12 ~~~~r~i~~l~~~~g~-s~~eIa~~l~--~s~~~v~~~l~r 49 (54)
T PF08281_consen 12 PERQREIFLLRYFQGM-SYAEIAEILG--ISESTVKRRLRR 49 (54)
T ss_dssp -HHHHHHHHHHHTS----HHHHHHHCT--S-HHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCc-CHHHHHHHHC--cCHHHHHHHHHH
Confidence 4567777777777787 8999999986 888888876654
No 90
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=46.45 E-value=28 Score=27.77 Aligned_cols=44 Identities=18% Similarity=0.128 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccCCCC
Q 019911 36 EEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLRPDV 81 (334)
Q Consensus 36 EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~l 81 (334)
+.|.+++.++.+.+.-.+..||+.++ -+...|+.|..+..+.++
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 56888999999988778999999987 888889988877666543
No 91
>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=45.69 E-value=34 Score=30.25 Aligned_cols=47 Identities=19% Similarity=0.191 Sum_probs=35.0
Q ss_pred CCcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCC---ccChhhhhhhhhc
Q 019911 28 LRRGPWTVEEDFKLINYISNHGEGRWNCLARCAGL---KRTGKSCRLRWLN 75 (334)
Q Consensus 28 lkKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~---~Rt~~qCr~Rw~~ 75 (334)
.+..+-|..|.+-|..||++||. ++...|.-..+ ..|..||+.+...
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGd-Dy~aMarD~KLN~~Q~T~~qlrrki~~ 161 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGD-DYKAMARDRKLNYMQHTPGQLRRKIRK 161 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCc-cHHHHhccCCCCcccCCHHHHHHHHHH
Confidence 56778899999999999999997 88888864431 2566666655443
No 92
>smart00595 MADF subfamily of SANT domain.
Probab=44.45 E-value=12 Score=28.87 Aligned_cols=23 Identities=30% Similarity=0.719 Sum_probs=20.3
Q ss_pred ChHHHHhhhCCccChhhhhhhhhcc
Q 019911 52 RWNCLARCAGLKRTGKSCRLRWLNY 76 (334)
Q Consensus 52 ~W~~IA~~l~~~Rt~~qCr~Rw~~~ 76 (334)
-|..||..|+ -+...|+.+|.++
T Consensus 29 aW~~Ia~~l~--~~~~~~~~kw~~L 51 (89)
T smart00595 29 AWEEIAEELG--LSVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHHC--cCHHHHHHHHHHH
Confidence 4999999998 4999999999875
No 93
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=43.03 E-value=31 Score=30.71 Aligned_cols=33 Identities=21% Similarity=0.171 Sum_probs=26.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChh
Q 019911 32 PWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGK 67 (334)
Q Consensus 32 ~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~ 67 (334)
.||.|+.++|.+|..+.- .=.+||+.|| +.+..
T Consensus 2 ~Wtde~~~~L~~lw~~G~--SasqIA~~lg-~vsRn 34 (162)
T PF07750_consen 2 SWTDERVERLRKLWAEGL--SASQIARQLG-GVSRN 34 (162)
T ss_pred CCCHHHHHHHHHHHHcCC--CHHHHHHHhC-Ccchh
Confidence 599999999999996543 4689999999 44443
No 94
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=42.53 E-value=26 Score=29.59 Aligned_cols=45 Identities=13% Similarity=0.070 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccCCCCC
Q 019911 36 EEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLRPDVR 82 (334)
Q Consensus 36 EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lk 82 (334)
+-|.+++++.++.+...+..||+.+| -+...|+.|-.+..+.++-
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 56889999999999889999999997 8888899888777665543
No 95
>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=41.81 E-value=14 Score=27.75 Aligned_cols=26 Identities=31% Similarity=0.631 Sum_probs=21.3
Q ss_pred ChHHHHhhhCCccChhhhhhhhhccc
Q 019911 52 RWNCLARCAGLKRTGKSCRLRWLNYL 77 (334)
Q Consensus 52 ~W~~IA~~l~~~Rt~~qCr~Rw~~~L 77 (334)
-|..||..++..-+...|+.||.++-
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr 53 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLR 53 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHH
Confidence 49999999985567888999998753
No 96
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=39.81 E-value=63 Score=28.64 Aligned_cols=40 Identities=23% Similarity=0.229 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhH
Q 019911 90 EQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 130 (334)
Q Consensus 90 ED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~ 130 (334)
+..+++++..-.|-.+..||+.+ |-+...|+.+|...-..
T Consensus 139 ~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR~~ 178 (185)
T PF07638_consen 139 RQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRARAW 178 (185)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 44455555555678999999998 99999999999875543
No 97
>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=39.12 E-value=67 Score=25.78 Aligned_cols=37 Identities=24% Similarity=0.272 Sum_probs=25.9
Q ss_pred HHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 94 ILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 94 Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
++.++...|..+..||+.+ |=+...|+.+....+++.
T Consensus 118 ii~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~kl 154 (158)
T TIGR02937 118 VLVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKKL 154 (158)
T ss_pred HHhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3334434577899999998 568888888877755543
No 98
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=36.34 E-value=77 Score=26.88 Aligned_cols=36 Identities=14% Similarity=0.149 Sum_probs=25.8
Q ss_pred HHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 95 LELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 95 l~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
+.+....|-.+..||+.| |.+...|+.+....+++.
T Consensus 137 l~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~L 172 (182)
T PRK09652 137 ITLREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREAL 172 (182)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 333334567899999998 889999988877655443
No 99
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=36.04 E-value=74 Score=25.24 Aligned_cols=42 Identities=17% Similarity=0.161 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHhC-CChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 89 EEQLMILELHSRWG-NRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 89 EED~~Ll~lv~~~G-~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
+.|.+|+.+..+.| -.+..|++.+ |-+...|+.|...+....
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g 45 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEG 45 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCC
Confidence 56888999998888 5799999998 999999999998877654
No 100
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=35.56 E-value=93 Score=27.47 Aligned_cols=36 Identities=17% Similarity=0.144 Sum_probs=25.9
Q ss_pred HHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhH
Q 019911 94 ILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 130 (334)
Q Consensus 94 Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~ 130 (334)
++.+....|-....||..+ |-+...|+.|+...+++
T Consensus 142 i~~l~~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~~ 177 (192)
T PRK09643 142 ALVAVDMQGYSVADAARML-GVAEGTVKSRCARGRAR 177 (192)
T ss_pred HHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3333344567899999998 88899999998654443
No 101
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=34.74 E-value=1.2e+02 Score=24.64 Aligned_cols=48 Identities=17% Similarity=0.184 Sum_probs=30.8
Q ss_pred CCCCHHHHHHHHHHHHHh----CC----ChhH----HhhhC-CCCCHHHHHHHHHHhhhHH
Q 019911 84 GNITLEEQLMILELHSRW----GN----RWSK----IAQHL-PGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 84 g~WT~EED~~Ll~lv~~~----G~----~W~~----IAk~l-pgRT~~qcrnRW~~~lr~~ 131 (334)
..||+|++..||+.+..| |. .|.. |...+ ..=+..|+..+-+.+-++.
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky 65 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKY 65 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHH
Confidence 369999999999998766 62 3433 33344 2236677776666655553
No 102
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=34.18 E-value=4.1e+02 Score=27.22 Aligned_cols=53 Identities=13% Similarity=0.149 Sum_probs=37.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC----------------ChhHHhhhC-----CCCCHHHHHHHHHHhhhHHhhh
Q 019911 82 RRGNITLEEQLMILELHSRWGN----------------RWSKIAQHL-----PGRTDNEIKNYWRTRVQKHAKQ 134 (334)
Q Consensus 82 krg~WT~EED~~Ll~lv~~~G~----------------~W~~IAk~l-----pgRT~~qcrnRW~~~lr~~~kk 134 (334)
--|.|+++=|.-+.++...|.. +=.-||+.+ ..||.+||-.|=.-+.|++.++
T Consensus 75 aegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~re 148 (455)
T KOG3841|consen 75 AEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLRE 148 (455)
T ss_pred cccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHH
Confidence 4578999999999999887642 235566643 3478888887776666666554
No 103
>cd00131 PAX Paired Box domain
Probab=32.96 E-value=2.6e+02 Score=23.57 Aligned_cols=71 Identities=15% Similarity=0.071 Sum_probs=46.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccC-hhhhhhhhhcc--cCCCCCCC----CCCHHHHHHHHHHHHHhC
Q 019911 30 RGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRT-GKSCRLRWLNY--LRPDVRRG----NITLEEQLMILELHSRWG 102 (334)
Q Consensus 30 Kg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt-~~qCr~Rw~~~--L~p~lkrg----~WT~EED~~Ll~lv~~~G 102 (334)
..+.+.++-++++.+++ .|. .-..||+.++..+. ...+..||... +.|.-..| .-+++.+..|+.++.+.+
T Consensus 15 ~~~lS~d~R~rIv~~~~-~G~-s~~~iA~~~~Vs~~tV~r~i~r~~e~G~v~pk~~gg~rpr~~~~~~~~~i~~~v~~~p 92 (128)
T cd00131 15 GRPLPDSIRQRIVELAQ-SGI-RPCDISRQLRVSHGCVSKILNRYYETGSIRPGAIGGSKPRVATPEVVKKIEIYKQENP 92 (128)
T ss_pred CCcCCHHHHHHHHHHHH-cCC-CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCCCCCCCCCCcCCHHHHHHHHHHHHHCC
Confidence 46788888889998885 565 78999999985443 44455566542 44432212 246666777777776654
No 104
>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=32.31 E-value=69 Score=25.37 Aligned_cols=29 Identities=21% Similarity=0.449 Sum_probs=23.2
Q ss_pred HHHHHHHHHHhCCChhHHhhhCCCCCHHHH
Q 019911 91 QLMILELHSRWGNRWSKIAQHLPGRTDNEI 120 (334)
Q Consensus 91 D~~Ll~lv~~~G~~W~~IAk~lpgRT~~qc 120 (334)
|.+|..+....|..|..+|+.| |=+...|
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI 32 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEI 32 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHH
Confidence 6678888899999999999998 5455443
No 105
>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=32.16 E-value=63 Score=25.60 Aligned_cols=29 Identities=24% Similarity=0.533 Sum_probs=22.8
Q ss_pred HHHHHHHHHHhCCChhHHhhhCCCCCHHHH
Q 019911 91 QLMILELHSRWGNRWSKIAQHLPGRTDNEI 120 (334)
Q Consensus 91 D~~Ll~lv~~~G~~W~~IAk~lpgRT~~qc 120 (334)
|..|..+....|..|..+|++| |=+..+|
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I 30 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDI 30 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 4668888999999999999998 5444443
No 106
>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=30.87 E-value=2.6e+02 Score=21.88 Aligned_cols=32 Identities=31% Similarity=0.578 Sum_probs=21.3
Q ss_pred CCCHHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHH
Q 019911 85 NITLEEQLMILELHSRWGNRWSKIAQHLPGRTDNEI 120 (334)
Q Consensus 85 ~WT~EED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qc 120 (334)
+-|+++-.. +....|..|.++|+.| |=+..+|
T Consensus 4 ~~t~~~l~~---ia~~iG~~Wk~Lar~L-Gls~~dI 35 (86)
T cd08318 4 PVTGEQITV---FANKLGEDWKTLAPHL-EMKDKEI 35 (86)
T ss_pred CCCHHHHHH---HHHHHhhhHHHHHHHc-CCCHHHH
Confidence 334444333 5567799999999998 5555554
No 107
>PRK04217 hypothetical protein; Provisional
Probab=30.67 E-value=1.5e+02 Score=24.86 Aligned_cols=45 Identities=18% Similarity=0.153 Sum_probs=35.8
Q ss_pred CCCHHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 85 NITLEEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 85 ~WT~EED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
.-|++| ..++.+....|-....||+.+ |-+...|+.++....++.
T Consensus 42 ~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkkL 86 (110)
T PRK04217 42 FMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKKV 86 (110)
T ss_pred cCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 456666 577788877888999999998 999999999988755544
No 108
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=30.56 E-value=1e+02 Score=25.95 Aligned_cols=32 Identities=25% Similarity=0.185 Sum_probs=23.7
Q ss_pred HHhCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 99 SRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 99 ~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
...|-....||+.| |-+...|+.++...+++.
T Consensus 138 ~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~l 169 (179)
T PRK11924 138 YVEGLSYREIAEIL-GVPVGTVKSRLRRARQLL 169 (179)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 34466899999998 888888988877644443
No 109
>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=28.34 E-value=52 Score=26.07 Aligned_cols=28 Identities=25% Similarity=0.363 Sum_probs=22.7
Q ss_pred HHHHHHHHHHhCCCChHHHHhhhCCccCh
Q 019911 38 DFKLINYISNHGEGRWNCLARCAGLKRTG 66 (334)
Q Consensus 38 De~L~~lV~~~g~~~W~~IA~~l~~~Rt~ 66 (334)
|+.|..+..+-|. +|..+|.++|+.-+.
T Consensus 2 ~~~L~~la~~LG~-~W~~Lar~Lgls~~~ 29 (83)
T cd08319 2 DRELNQLAQRLGP-EWEQVLLDLGLSQTD 29 (83)
T ss_pred HHHHHHHHHHHhh-hHHHHHHHcCCCHHH
Confidence 5678888889997 999999999854444
No 110
>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=28.08 E-value=1.5e+02 Score=19.17 Aligned_cols=36 Identities=17% Similarity=0.251 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHH
Q 019911 90 EQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRT 126 (334)
Q Consensus 90 ED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~ 126 (334)
++..++.+....|-.+..||+.+ |=+...|+.+...
T Consensus 14 ~~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~ 49 (55)
T cd06171 14 REREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHR 49 (55)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHH
Confidence 34555566556678899999997 6666667555443
No 111
>PF09105 SelB-wing_1: Elongation factor SelB, winged helix ; InterPro: IPR015189 This entry represents a domain with a winged helix-type fold, which consists of a closed 3-helical bundle with a right-handed twist, and a small beta-sheet wing []. Different winged helix domains share a common structure, but can differ in sequence. This entry is designated "type 1". The winged helix motif is involved in both DNA and RNA binding. In the elongation factor SelB, the winged helix domains recognise RNA, allowing the complex to wrap around the small ribosomal subunit. In bacteria, the incorporation of the amino acid selenocysteine into proteins requires elongation factor SelB, which binds both transfer RNA (tRNA) and mRNA. SelB binds to an mRNA hairpin formed by the selenocysteine insertion sequence (SECIS) with extremely high specificity []. ; PDB: 2V9V_A 1LVA_A 2PLY_A.
Probab=27.19 E-value=1.6e+02 Score=21.48 Aligned_cols=41 Identities=32% Similarity=0.448 Sum_probs=28.1
Q ss_pred HHHHHHHHHHhCCC-ChHHHHhhhCCccChhhhhhhhhcccCCCCCCCCCCHHHHHHHHHHHHHhC
Q 019911 38 DFKLINYISNHGEG-RWNCLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSRWG 102 (334)
Q Consensus 38 De~L~~lV~~~g~~-~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkrg~WT~EED~~Ll~lv~~~G 102 (334)
+++|.+++.+|..+ +|.+-|... ..+.||.++|++-+..-|
T Consensus 4 ekilaqiiqehregldwqeaatra------------------------slsleetrkllqsmaaag 45 (61)
T PF09105_consen 4 EKILAQIIQEHREGLDWQEAATRA------------------------SLSLEETRKLLQSMAAAG 45 (61)
T ss_dssp HHHHHHHHHC-TT-EEHHHHHHHH------------------------T--HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHccCcHHHHHHHh------------------------hccHHHHHHHHHHHHhcC
Confidence 56888888888655 798887543 346788888888877655
No 112
>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=27.18 E-value=1.7e+02 Score=22.72 Aligned_cols=27 Identities=19% Similarity=0.625 Sum_probs=21.2
Q ss_pred HHHHHHHHHHhCCChhHHhhhCCCCCHH
Q 019911 91 QLMILELHSRWGNRWSKIAQHLPGRTDN 118 (334)
Q Consensus 91 D~~Ll~lv~~~G~~W~~IAk~lpgRT~~ 118 (334)
|..|..+.+..|..|.++|+.| |=+..
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~ 30 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSET 30 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHH
Confidence 4567888888999999999998 44443
No 113
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=27.02 E-value=1.2e+02 Score=26.02 Aligned_cols=30 Identities=10% Similarity=-0.028 Sum_probs=22.5
Q ss_pred hCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 101 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 101 ~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
.|..+..||..+ |-+...|+++.....++.
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar~~L 180 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREAL 180 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 456789999988 888888888876655443
No 114
>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.
Probab=26.46 E-value=87 Score=26.12 Aligned_cols=17 Identities=24% Similarity=0.550 Sum_probs=12.8
Q ss_pred CCCHHHHHHHHHHHHHh
Q 019911 32 PWTVEEDFKLINYISNH 48 (334)
Q Consensus 32 ~WT~EEDe~L~~lV~~~ 48 (334)
++|++||..|-..|.+|
T Consensus 1 kfTA~dDY~Lc~~i~~~ 17 (105)
T PF09197_consen 1 KFTADDDYALCKAIKKQ 17 (105)
T ss_dssp ---HHHHHHHHHHHHHH
T ss_pred CCChHHHHHHHHHHHHH
Confidence 58999999999999776
No 115
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=26.40 E-value=1.9e+02 Score=23.50 Aligned_cols=70 Identities=11% Similarity=0.321 Sum_probs=41.9
Q ss_pred cCCCCHHHHHHHHHHHHHh----CC---CChHHHHhhh----CCccChhhh-------hhhhhcccCCCCCCC---CCCH
Q 019911 30 RGPWTVEEDFKLINYISNH----GE---GRWNCLARCA----GLKRTGKSC-------RLRWLNYLRPDVRRG---NITL 88 (334)
Q Consensus 30 Kg~WT~EEDe~L~~lV~~~----g~---~~W~~IA~~l----~~~Rt~~qC-------r~Rw~~~L~p~lkrg---~WT~ 88 (334)
...||+|++-.|++++..| |. .+|..+...+ ...=+..|. +.||.+.+.. .++| .++.
T Consensus 4 qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~~k-~~~g~~~~~~~ 82 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAVKK-SKNGKDPSFSK 82 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhhh-cccCcCCCCCC
Confidence 4579999999998888766 52 2555544443 211233333 3455555544 2333 5777
Q ss_pred HHHHHHHHHHHH
Q 019911 89 EEQLMILELHSR 100 (334)
Q Consensus 89 EED~~Ll~lv~~ 100 (334)
.-|..+.+|.++
T Consensus 83 ~hd~~~f~Lsk~ 94 (98)
T PF04504_consen 83 PHDRRLFELSKK 94 (98)
T ss_pred HhHHHHHHHHHH
Confidence 888888887664
No 116
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=26.08 E-value=1.2e+02 Score=27.59 Aligned_cols=45 Identities=20% Similarity=0.171 Sum_probs=36.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 84 GNITLEEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 84 g~WT~EED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
...|+.|-+.|.-+.+ |-.=..||..| +.+.+.||.|..++++|.
T Consensus 147 ~~LT~RE~eVL~lla~--G~snkeIA~~L-~iS~~TVk~h~~~i~~KL 191 (211)
T COG2197 147 ELLTPRELEVLRLLAE--GLSNKEIAEEL-NLSEKTVKTHVSNILRKL 191 (211)
T ss_pred CCCCHHHHHHHHHHHC--CCCHHHHHHHH-CCCHhHHHHHHHHHHHHc
Confidence 3688888777655543 65668999998 999999999999998875
No 117
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=25.82 E-value=1.3e+02 Score=25.96 Aligned_cols=29 Identities=10% Similarity=0.020 Sum_probs=21.7
Q ss_pred CCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 102 GNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 102 G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
|..-..||+.| |-+...|+.+....+++.
T Consensus 152 g~s~~eIA~~l-gis~~~v~~~l~Rar~~L 180 (187)
T TIGR02948 152 DLSLKEISEIL-DLPVGTVKTRIHRGREAL 180 (187)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 55788888887 778888888876655543
No 118
>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=25.73 E-value=1.4e+02 Score=26.31 Aligned_cols=47 Identities=17% Similarity=0.225 Sum_probs=37.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCChhHHhhh--C--CCCCHHHHHHHHHHhh
Q 019911 82 RRGNITLEEQLMILELHSRWGNRWSKIAQH--L--PGRTDNEIKNYWRTRV 128 (334)
Q Consensus 82 krg~WT~EED~~Ll~lv~~~G~~W~~IAk~--l--pgRT~~qcrnRW~~~l 128 (334)
....-|+.|..-|..|+.+||..+...+.- | --.|..+|+.+...+.
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 344678999999999999999999998873 3 3589999988776553
No 119
>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=25.71 E-value=1.1e+02 Score=26.47 Aligned_cols=30 Identities=10% Similarity=0.047 Sum_probs=22.2
Q ss_pred hCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 101 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 101 ~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
.|-....||..+ |=+...||.+....+++.
T Consensus 153 ~~~s~~EIA~~l-gis~~tv~~~l~rar~~L 182 (190)
T TIGR02939 153 EGLSYEDIARIM-DCPVGTVRSRIFRAREAI 182 (190)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 355788999987 777888888877655544
No 120
>PF01710 HTH_Tnp_IS630: Transposase; InterPro: IPR002622 Transposase proteins are necessary for efficient DNA transposition. This entry includes insertion sequences from Synechocystis sp. (strain PCC 6803) three of which are characterised as homologous to bacterial IS5- and IS4- and to several members of the IS630-Tc1-mariner superfamily []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=25.12 E-value=1.9e+02 Score=23.94 Aligned_cols=57 Identities=16% Similarity=0.102 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccCCCCCCCCCCHHHHHHH
Q 019911 35 VEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMI 94 (334)
Q Consensus 35 ~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkrg~WT~EED~~L 94 (334)
.-+.+.|.++|+.++.---.+||+.++. ..+...|..+.|.-..++..|..++|..-
T Consensus 56 Kid~~~L~~~v~~~pd~tl~Ela~~l~V---s~~ti~~~Lkrlg~t~KK~~~~~~~~~~~ 112 (119)
T PF01710_consen 56 KIDRDELKALVEENPDATLRELAERLGV---SPSTIWRALKRLGITRKKKTLHSEKDREK 112 (119)
T ss_pred cccHHHHHHHHHHCCCcCHHHHHHHcCC---CHHHHHHHHHHcCchhccCcccchhHHHH
Confidence 3356679999999998777899999873 45555667777777778888877665553
No 121
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=24.89 E-value=1.5e+02 Score=25.16 Aligned_cols=30 Identities=17% Similarity=0.324 Sum_probs=22.3
Q ss_pred hCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 101 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 101 ~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
.|-....||..+ |-+...|+.++...+++.
T Consensus 134 ~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~L 163 (169)
T TIGR02954 134 HDLTIKEIAEVM-NKPEGTVKTYLHRALKKL 163 (169)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 456788888887 678888888887665544
No 122
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=24.73 E-value=52 Score=35.13 Aligned_cols=48 Identities=15% Similarity=0.275 Sum_probs=42.3
Q ss_pred CCCCcCCCCHHHHHHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhc
Q 019911 26 LDLRRGPWTVEEDFKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLN 75 (334)
Q Consensus 26 p~lkKg~WT~EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~ 75 (334)
.....++|+.+|-++...+....|. +...|+...+ .|..+|++..+..
T Consensus 405 k~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p-~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 405 KKLETDKWDASETELFYKALSERGS-DFSLISNLFP-LRDRKQIKAKFKK 452 (584)
T ss_pred CccccCcccchhhHHhhhHHhhhcc-cccccccccc-cccHHHHHHHHhh
Confidence 3456789999999999999999998 9999999887 9999999987643
No 123
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=24.28 E-value=2e+02 Score=24.58 Aligned_cols=40 Identities=15% Similarity=0.207 Sum_probs=28.2
Q ss_pred HHHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhHHhh
Q 019911 93 MILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKHAK 133 (334)
Q Consensus 93 ~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~~k 133 (334)
.++.+..-.|-....||+.+ |-+...|+.|-..-+++-..
T Consensus 126 ~v~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~~~ 165 (172)
T PRK12523 126 AAFLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQCYI 165 (172)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 34444444567889999998 88889998887766665433
No 124
>PF13340 DUF4096: Putative transposase of IS4/5 family (DUF4096)
Probab=24.00 E-value=84 Score=23.83 Aligned_cols=59 Identities=14% Similarity=0.243 Sum_probs=34.9
Q ss_pred ChHHHHhhhCCccChhhhhhhhhcccCCCCCCCCCCHHHHHHHHHHH---HHhCCChhHHhhhCCCCCHHHHHHHHHHhh
Q 019911 52 RWNCLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELH---SRWGNRWSKIAQHLPGRTDNEIKNYWRTRV 128 (334)
Q Consensus 52 ~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkrg~WT~EED~~Ll~lv---~~~G~~W~~IAk~lpgRT~~qcrnRW~~~l 128 (334)
.|..|+.+|+ .+...- .+.. -.++.++++| .+.|-.|..++..++ ....|..|++...
T Consensus 5 ~W~~i~p~lp-~~~~~~-------------~~~~---~~~R~v~~ail~~lrtG~~Wr~LP~~fg--~~~tv~~~f~rW~ 65 (75)
T PF13340_consen 5 EWALIEPLLP-PRKPRG-------------GRPR---IDLREVLNAILYVLRTGCPWRDLPEDFG--PWSTVYRRFRRWS 65 (75)
T ss_pred HHHHHHhhCC-CCCCCC-------------CCCc---cchHHHHhcccccceecceecccchhcc--CcCcHHHHHHHHH
Confidence 5999999998 322211 1111 2334445543 566889999999995 3335666665544
Q ss_pred h
Q 019911 129 Q 129 (334)
Q Consensus 129 r 129 (334)
+
T Consensus 66 ~ 66 (75)
T PF13340_consen 66 R 66 (75)
T ss_pred H
Confidence 4
No 125
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=23.73 E-value=2.1e+02 Score=24.83 Aligned_cols=39 Identities=18% Similarity=0.109 Sum_probs=28.7
Q ss_pred HHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhHHhhh
Q 019911 95 LELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKHAKQ 134 (334)
Q Consensus 95 l~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~~kk 134 (334)
+.+....|-....||..| |-+...||.|....+++-..+
T Consensus 136 ~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~~ 174 (178)
T PRK12529 136 FLMATLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLSL 174 (178)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHh
Confidence 333344567889999998 889999999888777665443
No 126
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=23.36 E-value=1.8e+02 Score=25.15 Aligned_cols=31 Identities=10% Similarity=0.091 Sum_probs=22.8
Q ss_pred HhCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 100 RWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 100 ~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
-.|.....||..| |-+...|+.+....+++.
T Consensus 145 ~~g~s~~eIA~~l-~is~~tV~~~l~ra~~~L 175 (184)
T PRK12512 145 VEGASIKETAAKL-SMSEGAVRVALHRGLAAL 175 (184)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 3466788888887 888888888877655544
No 127
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=23.25 E-value=1.6e+02 Score=25.60 Aligned_cols=31 Identities=10% Similarity=0.086 Sum_probs=23.8
Q ss_pred HhCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 100 RWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 100 ~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
..|-....||..| |-+...|+.++...+++.
T Consensus 145 ~~~~s~~eIA~~l-gis~~tV~~~l~Rar~~L 175 (189)
T PRK12515 145 YHEKSVEEVGEIV-GIPESTVKTRMFYARKKL 175 (189)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 3466789999998 779999999887655544
No 128
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=23.22 E-value=1.8e+02 Score=24.77 Aligned_cols=31 Identities=19% Similarity=0.219 Sum_probs=23.4
Q ss_pred HhCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 100 RWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 100 ~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
-.|-.-..||+.| |.+...|+.|....+++.
T Consensus 132 ~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~L 162 (173)
T PRK09645 132 YRGWSTAQIAADL-GIPEGTVKSRLHYALRAL 162 (173)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 3466788999988 888899988887655544
No 129
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=23.20 E-value=1.8e+02 Score=24.36 Aligned_cols=32 Identities=6% Similarity=-0.155 Sum_probs=23.8
Q ss_pred HHhCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 99 SRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 99 ~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
...|-.-..||+.+ |-+...|+.|....+++.
T Consensus 119 ~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~L 150 (160)
T PRK09642 119 YLEEKSYQEIALQE-KIEVKTVEMKLYRARKWI 150 (160)
T ss_pred HHhCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 34466788999988 889999988877655443
No 130
>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=22.97 E-value=82 Score=24.94 Aligned_cols=25 Identities=24% Similarity=0.404 Sum_probs=20.6
Q ss_pred HHHHHHHHHHhCCCChHHHHhhhCCc
Q 019911 38 DFKLINYISNHGEGRWNCLARCAGLK 63 (334)
Q Consensus 38 De~L~~lV~~~g~~~W~~IA~~l~~~ 63 (334)
|.+|..+..+-|. +|.++|+.||..
T Consensus 4 d~~l~~ia~~LG~-dW~~LA~eLg~s 28 (84)
T cd08803 4 DIRMAIVADHLGL-SWTELARELNFS 28 (84)
T ss_pred HHHHHHHHHHhhc-cHHHHHHHcCCC
Confidence 5677778888897 999999999843
No 131
>PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=22.55 E-value=77 Score=27.37 Aligned_cols=26 Identities=31% Similarity=0.451 Sum_probs=16.0
Q ss_pred CCHHHHHHHHHHHHH-h-CCChhHHhhhC
Q 019911 86 ITLEEQLMILELHSR-W-GNRWSKIAQHL 112 (334)
Q Consensus 86 WT~EED~~Ll~lv~~-~-G~~W~~IAk~l 112 (334)
++++ ++.++.+.-. + |..|..||..+
T Consensus 82 l~de-~k~Ii~lry~~r~~~TW~~IA~~l 109 (130)
T PF05263_consen 82 LIDE-EKRIIKLRYDRRSRRTWYQIAQKL 109 (130)
T ss_pred hCHH-HHHHHHHHHcccccchHHHHHHHh
Confidence 3344 4445555433 3 36799999987
No 132
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=22.42 E-value=2e+02 Score=25.07 Aligned_cols=31 Identities=13% Similarity=0.116 Sum_probs=23.0
Q ss_pred HhCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 100 RWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 100 ~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
-.|.....||..| |-+...|+.+....+++.
T Consensus 153 ~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~L 183 (189)
T PRK09648 153 VVGLSAEETAEAV-GSTPGAVRVAQHRALARL 183 (189)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3466789999988 777888888876655543
No 133
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=22.35 E-value=1.7e+02 Score=30.79 Aligned_cols=61 Identities=18% Similarity=0.278 Sum_probs=46.9
Q ss_pred HHHHhhhCCccChhhhhhhhhcccCCCCCCCCCCHHHHHHHHHHHHHhCCChhHHhhh-CCCCCHHHHHHHHH
Q 019911 54 NCLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELHSRWGNRWSKIAQH-LPGRTDNEIKNYWR 125 (334)
Q Consensus 54 ~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkrg~WT~EED~~Ll~lv~~~G~~W~~IAk~-lpgRT~~qcrnRW~ 125 (334)
..|.-.++ ---+.-||+.. ..|+.-|-.++-++..+||.....|-+. ||-++-.+|-.+|.
T Consensus 267 ~Ais~LVP-lGGPvLCRDem----------EEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 267 KAISYLVP-LGGPVLCRDEM----------EEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred HHHHHhhc-CCCceeehhhh----------hhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 45555666 34455666632 3799999999999999999999999885 59888888877654
No 134
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=22.22 E-value=1.9e+02 Score=24.15 Aligned_cols=31 Identities=10% Similarity=0.064 Sum_probs=23.3
Q ss_pred HhCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 100 RWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 100 ~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
-.|-.-..||..| |-+...|+.|....+++.
T Consensus 120 ~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~L 150 (161)
T PRK09047 120 WEDMDVAETAAAM-GCSEGSVKTHCSRATHAL 150 (161)
T ss_pred HhcCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3466789999998 888999988877655443
No 135
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=22.17 E-value=1.8e+02 Score=25.38 Aligned_cols=31 Identities=23% Similarity=0.102 Sum_probs=23.3
Q ss_pred HHhCCChhHHhhhCCCCCHHHHHHHHHHhhhH
Q 019911 99 SRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 130 (334)
Q Consensus 99 ~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~ 130 (334)
.-.|-....||..| |-+...|+.|....+++
T Consensus 119 ~~~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 119 ELEGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred HhcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 34467899999998 88888998887655443
No 136
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=21.95 E-value=2.4e+02 Score=27.20 Aligned_cols=32 Identities=13% Similarity=0.112 Sum_probs=24.4
Q ss_pred hCCChhHHhhhCCCCCHHHHHHHHHHhhhHHhh
Q 019911 101 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQKHAK 133 (334)
Q Consensus 101 ~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~~k 133 (334)
.|-.-..||..| |.+...||.|-...+++..+
T Consensus 168 ~g~s~~EIA~~l-gis~~tVk~~l~RAr~~Lr~ 199 (339)
T PRK08241 168 LGWSAAEVAELL-DTSVAAVNSALQRARATLAE 199 (339)
T ss_pred hCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHhh
Confidence 355789999998 99999999988766555443
No 137
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=21.93 E-value=1.5e+02 Score=25.77 Aligned_cols=29 Identities=10% Similarity=0.072 Sum_probs=21.7
Q ss_pred CCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 102 GNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 102 G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
|-....||..+ |-+...|+.|....+++.
T Consensus 154 g~s~~eIA~~l-gis~~tv~~~l~Rar~~L 182 (193)
T PRK11923 154 GLSYEDIASVM-QCPVGTVRSRIFRAREAI 182 (193)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 55688899987 778888888877655543
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=21.92 E-value=1e+02 Score=23.99 Aligned_cols=33 Identities=36% Similarity=0.517 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHhCCChhHHhhhCCCCCHHHHHH
Q 019911 88 LEEQLMILELHSRWGNRWSKIAQHLPGRTDNEIKN 122 (334)
Q Consensus 88 ~EED~~Ll~lv~~~G~~W~~IAk~lpgRT~~qcrn 122 (334)
.||-++|+..- ..|..|..+|.+| |=+...|++
T Consensus 2 ~~~v~~ll~~~-nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLESG-RPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhCC-CCccCHHHHHHHc-CCCHHHHHH
Confidence 57888888432 4678999999998 666666644
No 139
>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=21.92 E-value=2.7e+02 Score=26.46 Aligned_cols=33 Identities=15% Similarity=0.175 Sum_probs=24.9
Q ss_pred hCCChhHHhhhCCCCCHHHHHHHHHHhhhHHhhh
Q 019911 101 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQKHAKQ 134 (334)
Q Consensus 101 ~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~~kk 134 (334)
.|-.-..||+.| |.+...||.|....+++..+.
T Consensus 157 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~Lr~~ 189 (324)
T TIGR02960 157 LGWRAAETAELL-GTSTASVNSALQRARATLDEV 189 (324)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHh
Confidence 456789999998 999999999877655544333
No 140
>PHA01083 hypothetical protein
Probab=21.87 E-value=84 Score=27.83 Aligned_cols=52 Identities=17% Similarity=0.117 Sum_probs=29.6
Q ss_pred HHHHHHHHHhCCCChHHHHhhhCCccChhhhhhhhhcccCCCCCCCCCCHHHHHHHHHHH
Q 019911 39 FKLINYISNHGEGRWNCLARCAGLKRTGKSCRLRWLNYLRPDVRRGNITLEEQLMILELH 98 (334)
Q Consensus 39 e~L~~lV~~~g~~~W~~IA~~l~~~Rt~~qCr~Rw~~~L~p~lkrg~WT~EED~~Ll~lv 98 (334)
++|-.+.+......-..||+.+|..|... -+|++-. +.+.++|+-..|.++.
T Consensus 5 kLLda~K~a~~~~sdkqLA~~LGVs~q~I---S~~R~G~-----r~~i~de~A~~LAe~a 56 (149)
T PHA01083 5 KLLDAYKKAKNYVQYKQIAHDLGVSPQKI---SKMRTGV-----RTYISDEEAIFLAESA 56 (149)
T ss_pred HHHHHHHHHHhhccHHHHHHHhCCCHHHH---HHHHcCC-----CCCCCHHHHHHHHHHh
Confidence 44444555555557899999998555443 2343210 1266777655555554
No 141
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=21.73 E-value=2e+02 Score=21.85 Aligned_cols=23 Identities=22% Similarity=0.447 Sum_probs=17.7
Q ss_pred HHHHHHHHHH-hCCChhHHhhhCC
Q 019911 91 QLMILELHSR-WGNRWSKIAQHLP 113 (334)
Q Consensus 91 D~~Ll~lv~~-~G~~W~~IAk~lp 113 (334)
+..|..++.. .|..|..+|++|.
T Consensus 5 ~~~~~~l~~~~~g~~W~~la~~Lg 28 (88)
T smart00005 5 REKLAKLLDHPLGLDWRELARKLG 28 (88)
T ss_pred HHHHHHHHcCccchHHHHHHHHcC
Confidence 4556666666 7899999999983
No 142
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=21.60 E-value=2.5e+02 Score=22.70 Aligned_cols=46 Identities=28% Similarity=0.441 Sum_probs=35.6
Q ss_pred CCCCCHHHHHHHHHHHHHhCCChhHHhhhCCCC-CHHHHHHHHHHhhhH
Q 019911 83 RGNITLEEQLMILELHSRWGNRWSKIAQHLPGR-TDNEIKNYWRTRVQK 130 (334)
Q Consensus 83 rg~WT~EED~~Ll~lv~~~G~~W~~IAk~lpgR-T~~qcrnRW~~~lr~ 130 (334)
+..||+|+-..+++++.+-|..=+.||+.+ |- ...++ .+|...++.
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l-~~W~~~~~~ 51 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQL-YKWRIQLQK 51 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHH-HHHHHHHHH
Confidence 568999999999999999998889999998 65 55555 445554443
No 143
>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=20.56 E-value=2.2e+02 Score=24.98 Aligned_cols=37 Identities=11% Similarity=0.062 Sum_probs=25.8
Q ss_pred HHHHHHHhCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 94 ILELHSRWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 94 Ll~lv~~~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
++.+..-.|..-..||..| |-+...||.|....+++.
T Consensus 139 v~~l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~L 175 (188)
T TIGR02943 139 VFMMREVLGFESDEICQEL-EISTSNCHVLLYRARLSL 175 (188)
T ss_pred HHHHHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 3333334466789999988 888888988876655543
No 144
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=20.27 E-value=2.2e+02 Score=25.03 Aligned_cols=30 Identities=17% Similarity=0.089 Sum_probs=22.1
Q ss_pred hCCChhHHhhhCCCCCHHHHHHHHHHhhhHH
Q 019911 101 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQKH 131 (334)
Q Consensus 101 ~G~~W~~IAk~lpgRT~~qcrnRW~~~lr~~ 131 (334)
.|-....||..| |-+...||.|....+++.
T Consensus 156 eg~s~~EIA~~l-gis~~tVk~rl~ra~~~L 185 (194)
T PRK12531 156 EELPHQQVAEMF-DIPLGTVKSRLRLAVEKL 185 (194)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHHH
Confidence 466788888887 888888888876555443
No 145
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=20.16 E-value=1.1e+02 Score=24.80 Aligned_cols=30 Identities=17% Similarity=-0.030 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHhCCCChHHHHhhhCCccCh
Q 019911 36 EEDFKLINYISNHGEGRWNCLARCAGLKRTG 66 (334)
Q Consensus 36 EEDe~L~~lV~~~g~~~W~~IA~~l~~~Rt~ 66 (334)
-|...|..++..++. ++.+.|+.+|..|+.
T Consensus 55 ~Er~~i~~aL~~~~g-n~s~AAr~LGIsRsT 84 (95)
T PRK00430 55 VEAPLLDMVMQYTRG-NQTRAALMLGINRGT 84 (95)
T ss_pred HHHHHHHHHHHHcCC-CHHHHHHHhCCCHHH
Confidence 467778888888875 899999999966654
Done!