Query 020197
Match_columns 329
No_of_seqs 337 out of 1732
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 07:49:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020197.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020197hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03212 Transcription repress 100.0 8.3E-34 1.8E-38 257.9 11.4 114 106-219 21-134 (249)
2 KOG0048 Transcription factor, 100.0 9.2E-33 2E-37 255.4 10.5 111 106-216 5-115 (238)
3 PLN03091 hypothetical protein; 100.0 1.3E-31 2.7E-36 259.8 11.2 112 106-217 10-121 (459)
4 KOG0049 Transcription factor, 99.9 5.4E-25 1.2E-29 219.7 4.4 164 30-221 252-419 (939)
5 KOG0049 Transcription factor, 99.9 3.3E-23 7.2E-28 206.9 5.0 147 33-207 307-460 (939)
6 PLN03212 Transcription repress 99.8 1.7E-20 3.6E-25 171.1 -0.6 104 29-161 23-127 (249)
7 PLN03091 hypothetical protein; 99.8 6.9E-20 1.5E-24 178.3 0.3 102 29-159 12-114 (459)
8 PF13921 Myb_DNA-bind_6: Myb-l 99.7 2.6E-17 5.7E-22 120.3 5.0 60 113-174 1-60 (60)
9 KOG0048 Transcription factor, 99.7 2.3E-17 5E-22 152.7 2.0 98 31-157 9-107 (238)
10 COG5147 REB1 Myb superfamily p 99.5 5.2E-15 1.1E-19 148.5 6.5 107 106-213 16-122 (512)
11 KOG0050 mRNA splicing protein 99.5 3.7E-15 8.1E-20 146.7 4.9 107 107-215 4-110 (617)
12 KOG0051 RNA polymerase I termi 99.5 6.9E-15 1.5E-19 148.9 6.3 131 53-213 353-512 (607)
13 PF00249 Myb_DNA-binding: Myb- 99.5 2.1E-14 4.6E-19 100.5 2.9 48 110-157 1-48 (48)
14 PF00249 Myb_DNA-binding: Myb- 99.3 8.9E-13 1.9E-17 92.2 3.9 46 163-208 1-48 (48)
15 COG5147 REB1 Myb superfamily p 99.2 8E-12 1.7E-16 125.7 4.5 158 22-209 11-168 (512)
16 smart00717 SANT SANT SWI3, AD 99.1 3.2E-11 6.9E-16 82.8 3.7 48 110-158 1-48 (49)
17 PF13921 Myb_DNA-bind_6: Myb-l 99.1 1.6E-11 3.4E-16 89.6 1.0 46 166-211 1-46 (60)
18 smart00717 SANT SANT SWI3, AD 99.1 8.6E-11 1.9E-15 80.6 4.0 47 163-209 1-48 (49)
19 KOG0050 mRNA splicing protein 99.0 3.2E-11 6.8E-16 119.3 0.2 101 27-157 3-103 (617)
20 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 1.9E-10 4.1E-15 77.7 3.4 45 112-157 1-45 (45)
21 KOG0051 RNA polymerase I termi 99.0 3.8E-10 8.3E-15 114.8 5.7 148 45-212 259-432 (607)
22 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 7.2E-10 1.6E-14 74.8 4.3 44 165-208 1-45 (45)
23 TIGR01557 myb_SHAQKYF myb-like 97.9 1E-05 2.2E-10 58.8 3.6 48 110-157 3-54 (57)
24 KOG0457 Histone acetyltransfer 97.9 9E-06 1.9E-10 80.0 3.1 52 106-158 68-119 (438)
25 TIGR01557 myb_SHAQKYF myb-like 97.4 0.00024 5.2E-09 51.5 4.5 47 163-209 3-55 (57)
26 COG5259 RSC8 RSC chromatin rem 97.3 0.00016 3.5E-09 71.8 3.2 46 109-156 278-323 (531)
27 KOG0457 Histone acetyltransfer 97.3 0.00028 6.2E-09 69.6 4.8 49 160-208 69-118 (438)
28 KOG1279 Chromatin remodeling f 97.2 0.00027 5.8E-09 72.0 3.5 48 107-156 250-297 (506)
29 PF13325 MCRS_N: N-terminal re 97.1 0.0015 3.3E-08 58.9 7.3 98 112-211 1-129 (199)
30 TIGR02894 DNA_bind_RsfA transc 97.0 0.00084 1.8E-08 58.3 3.9 51 162-213 3-60 (161)
31 PF08914 Myb_DNA-bind_2: Rap1 96.9 0.00067 1.4E-08 50.6 2.2 51 110-160 2-60 (65)
32 PF13837 Myb_DNA-bind_4: Myb/S 96.8 0.00095 2.1E-08 51.9 2.8 51 164-214 2-70 (90)
33 KOG1279 Chromatin remodeling f 96.7 0.0015 3.3E-08 66.6 4.3 46 162-207 252-297 (506)
34 PF13837 Myb_DNA-bind_4: Myb/S 96.7 0.00094 2E-08 51.9 2.0 47 111-157 2-64 (90)
35 PF08914 Myb_DNA-bind_2: Rap1 96.5 0.003 6.5E-08 47.0 3.6 51 163-213 2-62 (65)
36 COG5259 RSC8 RSC chromatin rem 96.4 0.0028 6.1E-08 63.2 3.4 45 163-207 279-323 (531)
37 TIGR02894 DNA_bind_RsfA transc 96.3 0.002 4.4E-08 55.9 1.7 49 108-158 2-56 (161)
38 PF13873 Myb_DNA-bind_5: Myb/S 96.1 0.014 3E-07 44.4 5.2 53 163-215 2-76 (78)
39 PRK13923 putative spore coat p 95.9 0.0073 1.6E-07 53.2 3.6 52 161-213 3-61 (170)
40 PF13873 Myb_DNA-bind_5: Myb/S 95.8 0.0046 1E-07 47.0 1.5 48 110-157 2-69 (78)
41 COG5114 Histone acetyltransfer 95.8 0.0054 1.2E-07 58.6 2.2 51 107-158 60-110 (432)
42 COG5114 Histone acetyltransfer 94.6 0.029 6.2E-07 53.7 3.2 47 163-209 63-110 (432)
43 PRK13923 putative spore coat p 94.5 0.013 2.9E-07 51.6 0.8 49 108-158 3-57 (170)
44 PLN03142 Probable chromatin-re 94.4 0.13 2.8E-06 57.2 8.2 101 113-214 827-990 (1033)
45 KOG2656 DNA methyltransferase 93.9 0.091 2E-06 51.6 5.1 52 164-215 131-188 (445)
46 PF12776 Myb_DNA-bind_3: Myb/S 92.3 0.25 5.5E-06 38.6 4.7 47 165-211 1-65 (96)
47 KOG1194 Predicted DNA-binding 90.5 0.54 1.2E-05 47.2 5.8 50 162-211 186-235 (534)
48 KOG4282 Transcription factor G 90.5 0.4 8.7E-06 46.7 4.9 54 163-216 54-121 (345)
49 PF09111 SLIDE: SLIDE; InterP 89.9 0.66 1.4E-05 38.6 5.0 78 117-212 21-114 (118)
50 PF09111 SLIDE: SLIDE; InterP 89.2 0.25 5.5E-06 41.1 2.0 48 107-154 46-107 (118)
51 COG5118 BDP1 Transcription ini 88.8 0.56 1.2E-05 46.1 4.4 46 164-209 366-411 (507)
52 COG5118 BDP1 Transcription ini 87.6 0.44 9.6E-06 46.8 2.9 44 110-155 365-408 (507)
53 KOG4167 Predicted DNA-binding 85.4 5.7 0.00012 42.4 9.7 47 163-209 619-665 (907)
54 PF12776 Myb_DNA-bind_3: Myb/S 84.2 0.96 2.1E-05 35.2 2.8 44 112-155 1-60 (96)
55 KOG4282 Transcription factor G 83.7 0.83 1.8E-05 44.5 2.7 47 111-157 55-113 (345)
56 PF08281 Sigma70_r4_2: Sigma-7 79.1 4 8.7E-05 28.3 4.2 42 168-210 12-53 (54)
57 PF11626 Rap1_C: TRF2-interact 76.7 2.3 5E-05 33.2 2.6 25 106-130 43-75 (87)
58 KOG2656 DNA methyltransferase 74.8 1.7 3.8E-05 42.9 1.8 103 49-156 71-180 (445)
59 PF13404 HTH_AsnC-type: AsnC-t 72.0 2.9 6.2E-05 28.2 1.8 38 116-155 3-40 (42)
60 KOG4468 Polycomb-group transcr 71.5 6.9 0.00015 40.9 5.1 53 163-215 88-150 (782)
61 KOG4167 Predicted DNA-binding 70.0 3.6 7.7E-05 43.9 2.8 43 111-155 620-662 (907)
62 PF11035 SnAPC_2_like: Small n 66.3 18 0.00038 35.2 6.4 52 163-214 21-76 (344)
63 KOG4329 DNA-binding protein [G 65.2 33 0.00072 34.0 8.1 47 163-209 277-324 (445)
64 PF13404 HTH_AsnC-type: AsnC-t 62.9 13 0.00029 24.9 3.6 38 169-207 3-41 (42)
65 PRK11179 DNA-binding transcrip 62.3 5.5 0.00012 34.1 2.1 45 115-161 8-52 (153)
66 PF13325 MCRS_N: N-terminal re 60.0 14 0.0003 33.6 4.3 44 165-209 1-47 (199)
67 PRK11169 leucine-responsive tr 59.7 5.3 0.00011 34.7 1.5 45 115-161 13-57 (164)
68 PRK11179 DNA-binding transcrip 59.6 14 0.00031 31.5 4.2 43 169-212 9-52 (153)
69 PF04504 DUF573: Protein of un 55.5 17 0.00038 29.0 3.8 53 164-216 5-70 (98)
70 PF04545 Sigma70_r4: Sigma-70, 54.8 30 0.00066 23.4 4.5 42 169-211 7-48 (50)
71 PF08281 Sigma70_r4_2: Sigma-7 54.7 9.5 0.00021 26.3 1.9 38 115-155 12-49 (54)
72 PLN03142 Probable chromatin-re 54.3 9.9 0.00021 42.7 2.9 48 107-154 923-981 (1033)
73 KOG2009 Transcription initiati 53.1 16 0.00035 38.2 4.0 46 162-207 408-453 (584)
74 smart00351 PAX Paired Box doma 52.9 92 0.002 25.7 7.9 76 106-183 11-93 (125)
75 PRK11169 leucine-responsive tr 52.7 18 0.00039 31.3 3.7 44 168-212 13-57 (164)
76 smart00595 MADF subfamily of S 52.5 14 0.0003 28.2 2.7 30 185-215 30-59 (89)
77 PF11626 Rap1_C: TRF2-interact 51.0 14 0.00031 28.7 2.5 17 159-175 43-59 (87)
78 PF01388 ARID: ARID/BRIGHT DNA 50.9 6.9 0.00015 30.3 0.8 40 119-158 39-89 (92)
79 KOG1194 Predicted DNA-binding 50.3 13 0.00028 37.7 2.7 46 108-155 185-230 (534)
80 PF01388 ARID: ARID/BRIGHT DNA 48.0 28 0.00061 26.8 3.8 40 172-211 39-91 (92)
81 smart00501 BRIGHT BRIGHT, ARID 47.2 10 0.00023 29.6 1.2 41 119-159 35-86 (93)
82 PF11035 SnAPC_2_like: Small n 45.9 50 0.0011 32.1 5.8 86 110-209 21-127 (344)
83 KOG3841 TEF-1 and related tran 45.3 2.9E+02 0.0064 27.7 11.0 73 108-216 74-150 (455)
84 smart00501 BRIGHT BRIGHT, ARID 42.4 43 0.00093 26.0 4.1 41 172-212 35-88 (93)
85 TIGR02985 Sig70_bacteroi1 RNA 42.4 50 0.0011 27.2 4.8 42 170-212 117-158 (161)
86 KOG0384 Chromodomain-helicase 42.0 33 0.00071 39.1 4.4 72 111-189 1134-1206(1373)
87 KOG4468 Polycomb-group transcr 41.2 36 0.00078 35.8 4.3 47 110-158 88-144 (782)
88 smart00595 MADF subfamily of S 41.0 8.7 0.00019 29.4 -0.1 23 132-156 29-51 (89)
89 PF07750 GcrA: GcrA cell cycle 40.2 23 0.00049 31.0 2.4 41 165-206 2-42 (162)
90 PF07750 GcrA: GcrA cell cycle 40.1 29 0.00062 30.4 3.0 40 112-154 2-41 (162)
91 smart00344 HTH_ASNC helix_turn 38.6 24 0.00053 27.8 2.2 44 116-161 3-46 (108)
92 KOG2009 Transcription initiati 36.9 28 0.0006 36.5 2.8 47 106-154 405-451 (584)
93 PF02954 HTH_8: Bacterial regu 36.3 24 0.00053 23.4 1.5 30 116-146 5-34 (42)
94 PF09905 DUF2132: Uncharacteri 36.2 41 0.00089 24.9 2.8 44 118-174 12-62 (64)
95 PRK09413 IS2 repressor TnpA; R 35.7 1E+02 0.0022 25.2 5.6 45 109-157 9-53 (121)
96 PF10545 MADF_DNA_bdg: Alcohol 34.7 35 0.00075 25.2 2.4 31 185-215 29-60 (85)
97 TIGR02937 sigma70-ECF RNA poly 33.7 72 0.0016 25.5 4.4 38 174-212 118-155 (158)
98 PF07638 Sigma70_ECF: ECF sigm 32.8 78 0.0017 27.7 4.7 43 170-213 139-181 (185)
99 PF09197 Rap1-DNA-bind: Rap1, 32.2 38 0.00081 27.7 2.3 17 112-128 1-17 (105)
100 PF09420 Nop16: Ribosome bioge 29.9 81 0.0018 27.4 4.2 47 162-208 113-163 (164)
101 COG1522 Lrp Transcriptional re 29.5 39 0.00084 28.2 2.1 46 115-162 7-52 (154)
102 PF09420 Nop16: Ribosome bioge 29.1 72 0.0016 27.7 3.7 48 108-156 112-162 (164)
103 KOG4329 DNA-binding protein [G 28.4 55 0.0012 32.5 3.1 41 112-154 279-320 (445)
104 cd08319 Death_RAIDD Death doma 28.3 55 0.0012 25.4 2.6 29 171-200 2-30 (83)
105 COG2963 Transposase and inacti 28.0 1.2E+02 0.0025 24.3 4.6 46 163-209 5-51 (116)
106 smart00344 HTH_ASNC helix_turn 27.3 1.1E+02 0.0024 23.9 4.3 42 169-211 3-45 (108)
107 cd06171 Sigma70_r4 Sigma70, re 27.0 1.2E+02 0.0026 19.5 3.9 40 166-207 11-50 (55)
108 PRK09652 RNA polymerase sigma 26.9 1.1E+02 0.0024 25.7 4.5 41 172-213 134-174 (182)
109 PRK04217 hypothetical protein; 26.7 1.3E+02 0.0028 24.7 4.6 50 164-215 41-90 (110)
110 cd00131 PAX Paired Box domain 25.1 4E+02 0.0086 22.1 7.8 73 109-183 14-93 (128)
111 cd08319 Death_RAIDD Death doma 22.9 52 0.0011 25.5 1.5 28 118-146 2-29 (83)
112 cd08803 Death_ank3 Death domai 22.7 91 0.002 24.2 2.9 29 171-200 4-32 (84)
113 PF09862 DUF2089: Protein of u 22.4 1.4E+02 0.0031 24.6 4.0 44 169-213 36-79 (113)
114 PF08870 DUF1832: Domain of un 21.9 3.4E+02 0.0074 22.2 6.3 98 113-220 4-105 (113)
115 PRK11924 RNA polymerase sigma 21.4 1.6E+02 0.0034 24.7 4.4 39 174-213 133-171 (179)
116 PRK09643 RNA polymerase sigma 20.9 1.7E+02 0.0037 25.5 4.7 44 169-213 137-180 (192)
117 KOG3650 Predicted coiled-coil 20.5 1.4E+02 0.0031 24.1 3.5 52 138-189 25-76 (120)
118 cd08803 Death_ank3 Death domai 20.2 71 0.0015 24.8 1.8 34 118-152 4-38 (84)
No 1
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=8.3e-34 Score=257.93 Aligned_cols=114 Identities=57% Similarity=1.040 Sum_probs=108.4
Q ss_pred cCCccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCCccccCcccHHHHHHHHHHHHhhCCcc
Q 020197 106 LDMRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRPDVRLGKITLEEQLLILELHSRWGNRW 185 (329)
Q Consensus 106 ~~~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~k~g~WT~eEd~~Ll~~v~~~G~~W 185 (329)
+++++++||+|||++|+++|++||..+|..||+.++++|+++|||+||.|+|+|.+++++||+|||++|++++.+||++|
T Consensus 21 ~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~GnKW 100 (249)
T PLN03212 21 MGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRW 100 (249)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhccccH
Confidence 78999999999999999999999988999999999669999999999999999999999999999999999999999999
Q ss_pred hhhcccCCCCCHHHHHHHHHHHHHHHHHhccccc
Q 020197 186 SKLAQHLPGRTDNEIKNYWRTRVQKQAKQLKCDV 219 (329)
Q Consensus 186 ~~Ia~~lpgRt~~~~k~rw~~~l~~~~kk~~~~~ 219 (329)
..||..|+|||+++||+||+.++++.+.+.....
T Consensus 101 s~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p 134 (249)
T PLN03212 101 SLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDP 134 (249)
T ss_pred HHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCC
Confidence 9999999999999999999999999887765443
No 2
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.98 E-value=9.2e-33 Score=255.38 Aligned_cols=111 Identities=50% Similarity=0.904 Sum_probs=107.2
Q ss_pred cCCccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCCccccCcccHHHHHHHHHHHHhhCCcc
Q 020197 106 LDMRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRPDVRLGKITLEEQLLILELHSRWGNRW 185 (329)
Q Consensus 106 ~~~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~k~g~WT~eEd~~Ll~~v~~~G~~W 185 (329)
+.+.||+||+|||++|+++|++||.++|..||+.+|++|++++||.||.|||+|++++|.||+|||++|++++..+|++|
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 hhhcccCCCCCHHHHHHHHHHHHHHHHHhcc
Q 020197 186 SKLAQHLPGRTDNEIKNYWRTRVQKQAKQLK 216 (329)
Q Consensus 186 ~~Ia~~lpgRt~~~~k~rw~~~l~~~~kk~~ 216 (329)
+.||++|||||++.|||+|+..+++++.+..
T Consensus 85 s~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 9999999999999999999999999988775
No 3
>PLN03091 hypothetical protein; Provisional
Probab=99.97 E-value=1.3e-31 Score=259.78 Aligned_cols=112 Identities=52% Similarity=0.969 Sum_probs=107.2
Q ss_pred cCCccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCCccccCcccHHHHHHHHHHHHhhCCcc
Q 020197 106 LDMRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRPDVRLGKITLEEQLLILELHSRWGNRW 185 (329)
Q Consensus 106 ~~~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~k~g~WT~eEd~~Ll~~v~~~G~~W 185 (329)
..++||+||+|||++|+++|.+||.++|..||+.++++|+++|||+||.++|+|.+++++||+|||++|++++++||++|
T Consensus 10 qklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnKW 89 (459)
T PLN03091 10 QKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRW 89 (459)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcch
Confidence 67899999999999999999999998999999999779999999999999999999999999999999999999999999
Q ss_pred hhhcccCCCCCHHHHHHHHHHHHHHHHHhccc
Q 020197 186 SKLAQHLPGRTDNEIKNYWRTRVQKQAKQLKC 217 (329)
Q Consensus 186 ~~Ia~~lpgRt~~~~k~rw~~~l~~~~kk~~~ 217 (329)
.+||+.|+|||+++||+||+.+++++++....
T Consensus 90 skIAk~LPGRTDnqIKNRWnslLKKklr~~~I 121 (459)
T PLN03091 90 SQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGI 121 (459)
T ss_pred HHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCC
Confidence 99999999999999999999999998876543
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.90 E-value=5.4e-25 Score=219.67 Aligned_cols=164 Identities=20% Similarity=0.298 Sum_probs=150.6
Q ss_pred hcccccccccccccccccccCCCCchhHhhhCCCCCCccceeeeeeccccchhhccccccccccCCCCCccccccCcCCc
Q 020197 30 TAAANSNVGTGRLGSSICCSHGYLPNPLLEFYPRRTRVTQFVHLRQPKLKKTEVKGRACRANRNFKSSSTTISEEDLDMR 109 (329)
Q Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~~~W~~Ia~~~~~r~~~~qc~~r~~~~lk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 109 (329)
....||.+++++|...+.+.+-.+|..||+.++..++.+||..+++..++ .+.
T Consensus 252 nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~---------------------------~L~ 304 (939)
T KOG0049|consen 252 NKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVS---------------------------QLS 304 (939)
T ss_pred chhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHH---------------------------HHH
Confidence 45789999999999999999999999999999996666699999988887 344
Q ss_pred cCCCCHHHHHHHHHHHHHcCC---CchhhhccccCCccCchhhhhhhccccCCccccCcccHHHHHHHHHHHHhhCCc-c
Q 020197 110 KGPWTVEEDFKLINYIVTHGE---GRWNRLARCAGLKRTGKSCRLRWLNYLRPDVRLGKITLEEQLLILELHSRWGNR-W 185 (329)
Q Consensus 110 kg~WT~eED~~L~~~v~~~g~---~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~k~g~WT~eEd~~Ll~~v~~~G~~-W 185 (329)
...||+|||.+|+++|+.... .+|.+|-.+|+ ||+..|...||...|+|++++|+||.+||.+|+.+|.+||.+ |
T Consensus 305 ekeWsEEed~kL~alV~~~~~nShI~w~kVV~Ymp-gr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw 383 (939)
T KOG0049|consen 305 EKEWSEEEDTKLIALVKITSINSHIQWDKVVQYMP-GRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDW 383 (939)
T ss_pred hhhcchhhhHHHHHHHHHhhccCccchHHHHHhcC-CcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccch
Confidence 567999999999999998854 37999999999 999999999999999999999999999999999999999976 9
Q ss_pred hhhcccCCCCCHHHHHHHHHHHHHHHHHhcccccCc
Q 020197 186 SKLAQHLPGRTDNEIKNYWRTRVQKQAKQLKCDVNS 221 (329)
Q Consensus 186 ~~Ia~~lpgRt~~~~k~rw~~~l~~~~kk~~~~~~~ 221 (329)
.+|-..||||++.|||.||.+.|...+|+..+....
T Consensus 384 ~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~l~e 419 (939)
T KOG0049|consen 384 AKVRQAVPNRSDSQCRERYTNVLNRSAKVERWTLVE 419 (939)
T ss_pred hhHHHhcCCccHHHHHHHHHHHHHHhhccCceeecc
Confidence 999999999999999999999999999998877554
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.87 E-value=3.3e-23 Score=206.94 Aligned_cols=147 Identities=22% Similarity=0.380 Sum_probs=130.7
Q ss_pred ccccccccccccccccc---CCCCchhHhhhCCCCCCccceeeeeeccccchhhccccccccccCCCCCccccccCcCCc
Q 020197 33 ANSNVGTGRLGSSICCS---HGYLPNPLLEFYPRRTRVTQFVHLRQPKLKKTEVKGRACRANRNFKSSSTTISEEDLDMR 109 (329)
Q Consensus 33 ~~~~~~~~~~~~~~~~~---~~~~W~~Ia~~~~~r~~~~qc~~r~~~~lk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 109 (329)
-|+-++++.|+.+|... --.+|.+|-++||+|+.. |...||.+.|. |.++
T Consensus 307 eWsEEed~kL~alV~~~~~nShI~w~kVV~Ympgr~~~-qLI~R~~~~Ld--------------------------Psik 359 (939)
T KOG0049|consen 307 EWSEEEDTKLIALVKITSINSHIQWDKVVQYMPGRTRQ-QLITRFSHTLD--------------------------PSVK 359 (939)
T ss_pred hcchhhhHHHHHHHHHhhccCccchHHHHHhcCCcchh-hhhhhheeccC--------------------------cccc
Confidence 35555566666666543 446899999999999988 99999999999 9999
Q ss_pred cCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCCccccCcccHHHHHHHHHHHHhhC-Ccchhh
Q 020197 110 KGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRPDVRLGKITLEEQLLILELHSRWG-NRWSKL 188 (329)
Q Consensus 110 kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~k~g~WT~eEd~~Ll~~v~~~G-~~W~~I 188 (329)
+|+||++||.+|+.+|.+||.++|.+|-+.+| ||+..|||+||.|.|+...|++.|+-.||+.|+.+|++|| ++|.+|
T Consensus 360 hg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~YG~g~Wakc 438 (939)
T KOG0049|consen 360 HGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKVYGKGNWAKC 438 (939)
T ss_pred CCCCCCHHHHHHHHHHHHhCccchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCceeecchHHHHHHHHHHccchHHHH
Confidence 99999999999999999999999999999999 9999999999999999999999999999999999999999 679999
Q ss_pred cccCCCCCHHHH---HHHHHHH
Q 020197 189 AQHLPGRTDNEI---KNYWRTR 207 (329)
Q Consensus 189 a~~lpgRt~~~~---k~rw~~~ 207 (329)
|..||.||..|. |.|+-.+
T Consensus 439 A~~Lp~~t~~q~~rrR~R~~~~ 460 (939)
T KOG0049|consen 439 AMLLPKKTSRQLRRRRLRLIAA 460 (939)
T ss_pred HHHccccchhHHHHHHHHHHHH
Confidence 999999999554 5554443
No 6
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.78 E-value=1.7e-20 Score=171.14 Aligned_cols=104 Identities=17% Similarity=0.079 Sum_probs=96.0
Q ss_pred hhcccccccccccccccccccCCCCchhHhhhC-CCCCCccceeeeeeccccchhhccccccccccCCCCCccccccCcC
Q 020197 29 TTAAANSNVGTGRLGSSICCSHGYLPNPLLEFY-PRRTRVTQFVHLRQPKLKKTEVKGRACRANRNFKSSSTTISEEDLD 107 (329)
Q Consensus 29 ~~~~~~~~~~~~~~~~~~~~~~~~~W~~Ia~~~-~~r~~~~qc~~r~~~~lk~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 107 (329)
+..+.|+-.+|+.|+.+|..++..+|..||..+ ++|+.. ||+.||..+|+ |.
T Consensus 23 lKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~K-QCReRW~N~L~--------------------------P~ 75 (249)
T PLN03212 23 MKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGK-SCRLRWMNYLR--------------------------PS 75 (249)
T ss_pred CcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcc-hHHHHHHHhhc--------------------------hh
Confidence 446778889999999999999999999999988 578877 99999999999 99
Q ss_pred CccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCCcc
Q 020197 108 MRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRPDV 161 (329)
Q Consensus 108 ~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~ 161 (329)
+++|+||+|||++|++++.+||. +|..||+.|+ |||+.+|+.||+.+|+..+
T Consensus 76 I~kgpWT~EED~lLlel~~~~Gn-KWs~IAk~Lp-GRTDnqIKNRWns~LrK~l 127 (249)
T PLN03212 76 VKRGGITSDEEDLILRLHRLLGN-RWSLIAGRIP-GRTDNEIKNYWNTHLRKKL 127 (249)
T ss_pred cccCCCChHHHHHHHHHHHhccc-cHHHHHhhcC-CCCHHHHHHHHHHHHhHHH
Confidence 99999999999999999999997 9999999999 9999999999998887543
No 7
>PLN03091 hypothetical protein; Provisional
Probab=99.76 E-value=6.9e-20 Score=178.35 Aligned_cols=102 Identities=17% Similarity=0.159 Sum_probs=94.8
Q ss_pred hhcccccccccccccccccccCCCCchhHhhhCC-CCCCccceeeeeeccccchhhccccccccccCCCCCccccccCcC
Q 020197 29 TTAAANSNVGTGRLGSSICCSHGYLPNPLLEFYP-RRTRVTQFVHLRQPKLKKTEVKGRACRANRNFKSSSTTISEEDLD 107 (329)
Q Consensus 29 ~~~~~~~~~~~~~~~~~~~~~~~~~W~~Ia~~~~-~r~~~~qc~~r~~~~lk~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 107 (329)
...+.|+..+|+.|+.+|..++..+|..||..++ +|+.. ||+.||.++|+ |.
T Consensus 12 lrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~K-QCRERW~NyLd--------------------------P~ 64 (459)
T PLN03091 12 LRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGK-SCRLRWINYLR--------------------------PD 64 (459)
T ss_pred CcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcc-hHhHHHHhccC--------------------------Cc
Confidence 3457799999999999999999999999999885 78777 99999999999 99
Q ss_pred CccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCC
Q 020197 108 MRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRP 159 (329)
Q Consensus 108 ~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p 159 (329)
+++|+||+|||++|++++++||. +|.+||++|+ ||++.+|+.||+.+|+.
T Consensus 65 IkKgpWT~EED~lLLeL~k~~Gn-KWskIAk~LP-GRTDnqIKNRWnslLKK 114 (459)
T PLN03091 65 LKRGTFSQQEENLIIELHAVLGN-RWSQIAAQLP-GRTDNEIKNLWNSCLKK 114 (459)
T ss_pred ccCCCCCHHHHHHHHHHHHHhCc-chHHHHHhcC-CCCHHHHHHHHHHHHHH
Confidence 99999999999999999999997 9999999999 99999999999987654
No 8
>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=99.69 E-value=2.6e-17 Score=120.29 Aligned_cols=60 Identities=42% Similarity=0.739 Sum_probs=55.4
Q ss_pred CCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCCccccCcccHHHHHHH
Q 020197 113 WTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRPDVRLGKITLEEQLLI 174 (329)
Q Consensus 113 WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~k~g~WT~eEd~~L 174 (329)
||+|||++|+++|.+||. +|..||+.|| .|+..||+.||.++|.+.+++++||++||++|
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 999999999999999996 9999999998 89999999999999999999999999999987
No 9
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.66 E-value=2.3e-17 Score=152.70 Aligned_cols=98 Identities=19% Similarity=0.171 Sum_probs=93.1
Q ss_pred cccccccccccccccccccCCCCchhHhhhCC-CCCCccceeeeeeccccchhhccccccccccCCCCCccccccCcCCc
Q 020197 31 AAANSNVGTGRLGSSICCSHGYLPNPLLEFYP-RRTRVTQFVHLRQPKLKKTEVKGRACRANRNFKSSSTTISEEDLDMR 109 (329)
Q Consensus 31 ~~~~~~~~~~~~~~~~~~~~~~~W~~Ia~~~~-~r~~~~qc~~r~~~~lk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 109 (329)
.+.|+.++|+.|+..|..++..+|..|+..++ +|... +|+.||..+|+ |+++
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GK-SCRlRW~NyLr--------------------------P~ik 61 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGK-SCRLRWTNYLR--------------------------PDLK 61 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccch-HHHHHhhcccC--------------------------CCcc
Confidence 58999999999999999999999999999999 77777 99999999999 9999
Q ss_pred cCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhcccc
Q 020197 110 KGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYL 157 (329)
Q Consensus 110 kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L 157 (329)
+|.||+|||.+|++++..+|+ +|.+||++|| |||+..++..|+-.|
T Consensus 62 rg~fT~eEe~~Ii~lH~~~GN-rWs~IA~~LP-GRTDNeIKN~Wnt~l 107 (238)
T KOG0048|consen 62 RGNFSDEEEDLIIKLHALLGN-RWSLIAGRLP-GRTDNEVKNHWNTHL 107 (238)
T ss_pred CCCCCHHHHHHHHHHHHHHCc-HHHHHHhhCC-CcCHHHHHHHHHHHH
Confidence 999999999999999999998 8999999999 999999988886555
No 10
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.55 E-value=5.2e-15 Score=148.49 Aligned_cols=107 Identities=23% Similarity=0.429 Sum_probs=103.2
Q ss_pred cCCccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCCccccCcccHHHHHHHHHHHHhhCCcc
Q 020197 106 LDMRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRPDVRLGKITLEEQLLILELHSRWGNRW 185 (329)
Q Consensus 106 ~~~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~k~g~WT~eEd~~Ll~~v~~~G~~W 185 (329)
...+.|.|+..||+.|..+|++||+.+|..||..|. .|+++||+.||+++++|.+++..|+.|||+.|+.+..++|.+|
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 577889999999999999999999999999999999 7999999999999999999999999999999999999999999
Q ss_pred hhhcccCCCCCHHHHHHHHHHHHHHHHH
Q 020197 186 SKLAQHLPGRTDNEIKNYWRTRVQKQAK 213 (329)
Q Consensus 186 ~~Ia~~lpgRt~~~~k~rw~~~l~~~~k 213 (329)
..||..++||+..+|.+||...++...+
T Consensus 95 stia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 95 STIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhccccCccchHHHHHHHHHHhhhhhc
Confidence 9999999999999999999999987766
No 11
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.54 E-value=3.7e-15 Score=146.73 Aligned_cols=107 Identities=22% Similarity=0.491 Sum_probs=101.1
Q ss_pred CCccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCCccccCcccHHHHHHHHHHHHhhCCcch
Q 020197 107 DMRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRPDVRLGKITLEEQLLILELHSRWGNRWS 186 (329)
Q Consensus 107 ~~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~k~g~WT~eEd~~Ll~~v~~~G~~W~ 186 (329)
-++.|.|+.-||+.|..+|.+||...|.+|+..++ ..+++||+.||..+|||.+++..|+.|||++||.+.+.+...|.
T Consensus 4 ~~kggvwrntEdeilkaav~kyg~nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwr 82 (617)
T KOG0050|consen 4 EIKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWR 82 (617)
T ss_pred EEecceecccHHHHHHHHHHHcchHHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccc
Confidence 45778999999999999999999989999999999 89999999999999999999999999999999999999999999
Q ss_pred hhcccCCCCCHHHHHHHHHHHHHHHHHhc
Q 020197 187 KLAQHLPGRTDNEIKNYWRTRVQKQAKQL 215 (329)
Q Consensus 187 ~Ia~~lpgRt~~~~k~rw~~~l~~~~kk~ 215 (329)
-|+..| ||+.+||..||++++.......
T Consensus 83 tIa~i~-gr~~~qc~eRy~~ll~~~~s~~ 110 (617)
T KOG0050|consen 83 TIADIM-GRTSQQCLERYNNLLDVYVSYH 110 (617)
T ss_pred hHHHHh-hhhHHHHHHHHHHHHHHHHhhh
Confidence 999999 9999999999999998766543
No 12
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.53 E-value=6.9e-15 Score=148.87 Aligned_cols=131 Identities=26% Similarity=0.495 Sum_probs=111.8
Q ss_pred CchhHhhhCCCCCCccceeeeeeccccchhhccccccccccCCCCCccccccCcCC-ccCCCCHHHHHHHHHHHHHcCCC
Q 020197 53 LPNPLLEFYPRRTRVTQFVHLRQPKLKKTEVKGRACRANRNFKSSSTTISEEDLDM-RKGPWTVEEDFKLINYIVTHGEG 131 (329)
Q Consensus 53 ~W~~Ia~~~~~r~~~~qc~~r~~~~lk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~kg~WT~eED~~L~~~v~~~g~~ 131 (329)
.|+.|...||-|+...+|++.+ +... +-- .+|.||+||++.|..+|.++|.
T Consensus 353 l~n~~~~~Lp~R~~~siy~~~r-R~y~--------------------------~FE~~rg~wt~ee~eeL~~l~~~~g~- 404 (607)
T KOG0051|consen 353 LYNNLYKLLPYRDRKSIYHHLR-RAYT--------------------------PFENKRGKWTPEEEEELKKLVVEHGN- 404 (607)
T ss_pred HHHhhhhhcCcccchhHHHHHH-hcCC--------------------------ccccccCCCCcchHHHHHHHHHHhcc-
Confidence 5788888888888777777655 2222 222 8999999999999999999997
Q ss_pred chhhhccccCCccCchhhhhhhccccCCcc--ccCcccHHHHHHHHHHHH-------hh-------------------CC
Q 020197 132 RWNRLARCAGLKRTGKSCRLRWLNYLRPDV--RLGKITLEEQLLILELHS-------RW-------------------GN 183 (329)
Q Consensus 132 ~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~--k~g~WT~eEd~~Ll~~v~-------~~-------------------G~ 183 (329)
.|.+|+..|+ |.+..|++||+++..++- +++.||-||+++|+.+|. ++ +.
T Consensus 405 ~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I 482 (607)
T KOG0051|consen 405 DWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDI 482 (607)
T ss_pred cHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCc
Confidence 9999999997 999999999999999985 899999999999999995 33 12
Q ss_pred cchhhcccCCCCCHHHHHHHHHHHHHHHHH
Q 020197 184 RWSKLAQHLPGRTDNEIKNYWRTRVQKQAK 213 (329)
Q Consensus 184 ~W~~Ia~~lpgRt~~~~k~rw~~~l~~~~k 213 (329)
+|..|++.+..|+..||+.+|..++.....
T Consensus 483 ~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~ 512 (607)
T KOG0051|consen 483 NWTLVSEMLGTRSRIQCRYKWYKLTTSPSF 512 (607)
T ss_pred chhhhhHhhcCCCcchHHHHHHHHHhhHHh
Confidence 599999988899999999999999876543
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=99.47 E-value=2.1e-14 Score=100.47 Aligned_cols=48 Identities=42% Similarity=0.776 Sum_probs=43.3
Q ss_pred cCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhcccc
Q 020197 110 KGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYL 157 (329)
Q Consensus 110 kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L 157 (329)
|++||+|||++|+++|.+||.++|..||..||.+||..||+.||+++|
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 578999999999999999998669999999998999999999999875
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=99.34 E-value=8.9e-13 Score=92.22 Aligned_cols=46 Identities=30% Similarity=0.607 Sum_probs=41.9
Q ss_pred cCcccHHHHHHHHHHHHhhCCc-chhhcccCC-CCCHHHHHHHHHHHH
Q 020197 163 LGKITLEEQLLILELHSRWGNR-WSKLAQHLP-GRTDNEIKNYWRTRV 208 (329)
Q Consensus 163 ~g~WT~eEd~~Ll~~v~~~G~~-W~~Ia~~lp-gRt~~~~k~rw~~~l 208 (329)
+++||+|||++|++++.+||.. |..||..|+ |||..||++||.+++
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 5799999999999999999988 999999999 999999999999874
No 15
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.21 E-value=8e-12 Score=125.69 Aligned_cols=158 Identities=13% Similarity=0.088 Sum_probs=136.6
Q ss_pred cCCCccchhcccccccccccccccccccCCCCchhHhhhCCCCCCccceeeeeeccccchhhccccccccccCCCCCccc
Q 020197 22 TYPSNLETTAAANSNVGTGRLGSSICCSHGYLPNPLLEFYPRRTRVTQFVHLRQPKLKKTEVKGRACRANRNFKSSSTTI 101 (329)
Q Consensus 22 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~Ia~~~~~r~~~~qc~~r~~~~lk~~~~~~~~~~~~~~~~~~~~~~ 101 (329)
-..+...-.+++|...+|.++..+|...+..+|..||..|..++.. ||..||-..+.
T Consensus 11 ~~~~~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~k-q~~~rw~~~ln---------------------- 67 (512)
T COG5147 11 IKLMQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGK-QSSNRWNNHLN---------------------- 67 (512)
T ss_pred cccccceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccc-cccchhhhhhc----------------------
Confidence 3447777888999999999999999999999999999999998777 99999988888
Q ss_pred cccCcCCccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCCccccCcccHHHHHHHHHHHHhh
Q 020197 102 SEEDLDMRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRPDVRLGKITLEEQLLILELHSRW 181 (329)
Q Consensus 102 ~~~~~~~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~k~g~WT~eEd~~Ll~~v~~~ 181 (329)
|.++++.|+.|||+.|+.+..++|+ .|..||..++ +|++.+|.+||.+.|.+... ..|+..++...+.-+..|
T Consensus 68 ----p~lk~~~~~~eed~~li~l~~~~~~-~wstia~~~d-~rt~~~~~ery~~~~~~~~s-~~~s~~~~~~~f~k~d~f 140 (512)
T COG5147 68 ----PQLKKKNWSEEEDEQLIDLDKELGT-QWSTIADYKD-RRTAQQCVERYVNTLEDLSS-THDSKLQRRNEFDKIDPF 140 (512)
T ss_pred ----hhcccccccHHHHHHHHHHHHhcCc-hhhhhccccC-ccchHHHHHHHHHHhhhhhc-cccccccchhhccccCch
Confidence 9999999999999999999999998 8999999999 99999999999999988765 788888888877777788
Q ss_pred CCcchhhcccCCCCCHHHHHHHHHHHHH
Q 020197 182 GNRWSKLAQHLPGRTDNEIKNYWRTRVQ 209 (329)
Q Consensus 182 G~~W~~Ia~~lpgRt~~~~k~rw~~~l~ 209 (329)
+..|..+....-.+-...+.+++..+..
T Consensus 141 ~~~~~~~~~~~~~~~~~~~~N~~~~~~~ 168 (512)
T COG5147 141 NENSARRPDIYEDELLEREVNREASYRL 168 (512)
T ss_pred hhhhhhhhhhhhcccchhhhhHHHHHHH
Confidence 8777777766555666666666655543
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.15 E-value=3.2e-11 Score=82.79 Aligned_cols=48 Identities=42% Similarity=0.794 Sum_probs=44.2
Q ss_pred cCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccC
Q 020197 110 KGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLR 158 (329)
Q Consensus 110 kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~ 158 (329)
+++||++||++|+.++.+||..+|..||..|+ +|++.+|+.||.+++.
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 36799999999999999999559999999999 9999999999998764
No 17
>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=99.11 E-value=1.6e-11 Score=89.57 Aligned_cols=46 Identities=41% Similarity=0.778 Sum_probs=39.6
Q ss_pred ccHHHHHHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHHHHHH
Q 020197 166 ITLEEQLLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTRVQKQ 211 (329)
Q Consensus 166 WT~eEd~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~l~~~ 211 (329)
||+|||++|+++|.+||++|.+||+.|+.||..+|++||...|++.
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~ 46 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPK 46 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTT
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCccc
Confidence 9999999999999999999999999996699999999999966543
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.10 E-value=8.6e-11 Score=80.60 Aligned_cols=47 Identities=38% Similarity=0.786 Sum_probs=44.2
Q ss_pred cCcccHHHHHHHHHHHHhhC-CcchhhcccCCCCCHHHHHHHHHHHHH
Q 020197 163 LGKITLEEQLLILELHSRWG-NRWSKLAQHLPGRTDNEIKNYWRTRVQ 209 (329)
Q Consensus 163 ~g~WT~eEd~~Ll~~v~~~G-~~W~~Ia~~lpgRt~~~~k~rw~~~l~ 209 (329)
+++||++||.+|+.++.+|| .+|..||..|++||+.+|++||..+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 36899999999999999999 999999999999999999999998764
No 19
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.05 E-value=3.2e-11 Score=119.32 Aligned_cols=101 Identities=22% Similarity=0.298 Sum_probs=94.7
Q ss_pred cchhcccccccccccccccccccCCCCchhHhhhCCCCCCccceeeeeeccccchhhccccccccccCCCCCccccccCc
Q 020197 27 LETTAAANSNVGTGRLGSSICCSHGYLPNPLLEFYPRRTRVTQFVHLRQPKLKKTEVKGRACRANRNFKSSSTTISEEDL 106 (329)
Q Consensus 27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~Ia~~~~~r~~~~qc~~r~~~~lk~~~~~~~~~~~~~~~~~~~~~~~~~~~ 106 (329)
+...++.|.+.+++-|+.+|..++...|.+|+..++..+.. ||..||.+.+. |
T Consensus 3 i~~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~r-qC~~rw~e~ld--------------------------p 55 (617)
T KOG0050|consen 3 IEIKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTAR-QCKARWEEWLD--------------------------P 55 (617)
T ss_pred eEEecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchh-HHHHHHHHHhC--------------------------H
Confidence 45568899999999999999999999999999999998888 99999999999 9
Q ss_pred CCccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhcccc
Q 020197 107 DMRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYL 157 (329)
Q Consensus 107 ~~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L 157 (329)
.+++--|+.|||++|+.+.....+ .|..||..|+ |++.||.+||.+.|
T Consensus 56 ~i~~tews~eederlLhlakl~p~-qwrtIa~i~g--r~~~qc~eRy~~ll 103 (617)
T KOG0050|consen 56 AIKKTEWSREEDERLLHLAKLEPT-QWRTIADIMG--RTSQQCLERYNNLL 103 (617)
T ss_pred HHhhhhhhhhHHHHHHHHHHhcCC-ccchHHHHhh--hhHHHHHHHHHHHH
Confidence 999999999999999999999987 9999999997 99999999999876
No 20
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.03 E-value=1.9e-10 Score=77.68 Aligned_cols=45 Identities=42% Similarity=0.795 Sum_probs=41.8
Q ss_pred CCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhcccc
Q 020197 112 PWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYL 157 (329)
Q Consensus 112 ~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L 157 (329)
+||+|||++|+.++.+||..+|..||+.|+ +|++.+|+.||.+++
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 599999999999999999669999999999 899999999998753
No 21
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.00 E-value=3.8e-10 Score=114.75 Aligned_cols=148 Identities=20% Similarity=0.206 Sum_probs=115.1
Q ss_pred cccccCCCCchhHhhhCCCCCCccceeeeeeccccchhhccccccccccCCCCCccccccCcCCccCCCCHHHHHHHHHH
Q 020197 45 SICCSHGYLPNPLLEFYPRRTRVTQFVHLRQPKLKKTEVKGRACRANRNFKSSSTTISEEDLDMRKGPWTVEEDFKLINY 124 (329)
Q Consensus 45 ~~~~~~~~~W~~Ia~~~~~r~~~~qc~~r~~~~lk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kg~WT~eED~~L~~~ 124 (329)
......+..|..|++++..+... +|. .|..+++-.... .........++-+.|+++||+.|...
T Consensus 259 ~d~~~~~~~~~~~~~~l~a~~~k-a~~-~~~~y~k~~~t~--------------s~~~~~~~e~~~~~F~~eed~ale~~ 322 (607)
T KOG0051|consen 259 GDIETPNVSEDSVLRYLRADSNK-AGD-EWLNYEKDDATG--------------STGRTKEDEINLKKFSKEEDAALENF 322 (607)
T ss_pred hhhhccCccHHHHHHHHHhhhcc-cch-hhhccccccccC--------------ccccchhhhhhhhhccHHHHHHHHHH
Confidence 44566788999999999998888 555 444455511100 00111124566789999999999999
Q ss_pred HHHcCC-----------------------CchhhhccccCCccCchhhhh---hhccccCCccccCcccHHHHHHHHHHH
Q 020197 125 IVTHGE-----------------------GRWNRLARCAGLKRTGKSCRL---RWLNYLRPDVRLGKITLEEQLLILELH 178 (329)
Q Consensus 125 v~~~g~-----------------------~~W~~IA~~~~~~Rt~~qcr~---Rw~n~L~p~~k~g~WT~eEd~~Ll~~v 178 (329)
|..|-. +-|+.|...|| -|+...++. |-++.+.+ .+|.||+||++.|..+|
T Consensus 323 V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~--~rg~wt~ee~eeL~~l~ 399 (607)
T KOG0051|consen 323 VNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFEN--KRGKWTPEEEEELKKLV 399 (607)
T ss_pred HHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCcccc--ccCCCCcchHHHHHHHH
Confidence 998810 13788888999 599999988 55555665 89999999999999999
Q ss_pred HhhCCcchhhcccCCCCCHHHHHHHHHHHHHHHH
Q 020197 179 SRWGNRWSKLAQHLPGRTDNEIKNYWRTRVQKQA 212 (329)
Q Consensus 179 ~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~l~~~~ 212 (329)
.++|+.|..|++.| ||.+..|+.||..+.+..-
T Consensus 400 ~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~ 432 (607)
T KOG0051|consen 400 VEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGS 432 (607)
T ss_pred HHhcccHHHHHHHH-ccCcHHHHHHHHHhhcccc
Confidence 99999999999999 9999999999999988664
No 22
>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=7.2e-10 Score=74.80 Aligned_cols=44 Identities=41% Similarity=0.780 Sum_probs=41.7
Q ss_pred cccHHHHHHHHHHHHhhC-CcchhhcccCCCCCHHHHHHHHHHHH
Q 020197 165 KITLEEQLLILELHSRWG-NRWSKLAQHLPGRTDNEIKNYWRTRV 208 (329)
Q Consensus 165 ~WT~eEd~~Ll~~v~~~G-~~W~~Ia~~lpgRt~~~~k~rw~~~l 208 (329)
+||++||.+|+.++.++| .+|..||..+++|+..+|++||..++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999998763
No 23
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.92 E-value=1e-05 Score=58.79 Aligned_cols=48 Identities=15% Similarity=0.277 Sum_probs=42.5
Q ss_pred cCCCCHHHHHHHHHHHHHcCCCch---hhhccccCCcc-Cchhhhhhhcccc
Q 020197 110 KGPWTVEEDFKLINYIVTHGEGRW---NRLARCAGLKR-TGKSCRLRWLNYL 157 (329)
Q Consensus 110 kg~WT~eED~~L~~~v~~~g~~~W---~~IA~~~~~~R-t~~qcr~Rw~n~L 157 (329)
+-.||+||..+++++|+.+|.++| ..|++.|+..| |..||+.+++.|.
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 346999999999999999998899 99999987556 9999999988764
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.85 E-value=9e-06 Score=79.98 Aligned_cols=52 Identities=25% Similarity=0.556 Sum_probs=48.0
Q ss_pred cCCccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccC
Q 020197 106 LDMRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLR 158 (329)
Q Consensus 106 ~~~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~ 158 (329)
-.+-...||.+|+-+|++++..||.|||..||.++| .|+..+|+++|.+++.
T Consensus 68 ~~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 68 FPILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHHh
Confidence 456677899999999999999999999999999999 9999999999998764
No 25
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.42 E-value=0.00024 Score=51.54 Aligned_cols=47 Identities=11% Similarity=0.140 Sum_probs=40.3
Q ss_pred cCcccHHHHHHHHHHHHhhCC-cc---hhhcccCC-CC-CHHHHHHHHHHHHH
Q 020197 163 LGKITLEEQLLILELHSRWGN-RW---SKLAQHLP-GR-TDNEIKNYWRTRVQ 209 (329)
Q Consensus 163 ~g~WT~eEd~~Ll~~v~~~G~-~W---~~Ia~~lp-gR-t~~~~k~rw~~~l~ 209 (329)
+-.||+||..+++++++.+|. .| ..|++.|. .| |..||+.++..+.-
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 457999999999999999996 89 99998873 35 99999998876653
No 26
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.30 E-value=0.00016 Score=71.79 Aligned_cols=46 Identities=30% Similarity=0.660 Sum_probs=43.4
Q ss_pred ccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccc
Q 020197 109 RKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNY 156 (329)
Q Consensus 109 ~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~ 156 (329)
....||.+|..+|++.|+.||. +|.+||.++| .++..||..||.++
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 6679999999999999999997 9999999999 99999999999865
No 27
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.29 E-value=0.00028 Score=69.61 Aligned_cols=49 Identities=24% Similarity=0.474 Sum_probs=43.8
Q ss_pred ccccCcccHHHHHHHHHHHHhhC-CcchhhcccCCCCCHHHHHHHHHHHH
Q 020197 160 DVRLGKITLEEQLLILELHSRWG-NRWSKLAQHLPGRTDNEIKNYWRTRV 208 (329)
Q Consensus 160 ~~k~g~WT~eEd~~Ll~~v~~~G-~~W~~Ia~~lpgRt~~~~k~rw~~~l 208 (329)
.+-...||.+|+.+||+++..|| ++|..||.++..|+..+|+.+|.+++
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 89999999998899999999996654
No 28
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.18 E-value=0.00027 Score=71.96 Aligned_cols=48 Identities=27% Similarity=0.647 Sum_probs=43.9
Q ss_pred CCccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccc
Q 020197 107 DMRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNY 156 (329)
Q Consensus 107 ~~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~ 156 (329)
...++.||.+|+-+|+++|..||. +|.+||.+++ .|+..||..++.+.
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 345678999999999999999997 9999999999 99999999999764
No 29
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.12 E-value=0.0015 Score=58.90 Aligned_cols=98 Identities=23% Similarity=0.341 Sum_probs=73.6
Q ss_pred CCCHHHHHHHHHHHHHcCCCchhhhccccC--CccCchhhhhhhccccC----------------Cc-----cccCcccH
Q 020197 112 PWTVEEDFKLINYIVTHGEGRWNRLARCAG--LKRTGKSCRLRWLNYLR----------------PD-----VRLGKITL 168 (329)
Q Consensus 112 ~WT~eED~~L~~~v~~~g~~~W~~IA~~~~--~~Rt~~qcr~Rw~n~L~----------------p~-----~k~g~WT~ 168 (329)
+|++++|-+|+.+|..-. +-..|+..+. ..-|...+.+||+..|. |. ..+.+||.
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 599999999999998654 6777776554 35677888999998763 21 24668999
Q ss_pred HHHHHHHHHHHhhCC---cchhhcc-----cCCCCCHHHHHHHHHHHHHHH
Q 020197 169 EEQLLILELHSRWGN---RWSKLAQ-----HLPGRTDNEIKNYWRTRVQKQ 211 (329)
Q Consensus 169 eEd~~Ll~~v~~~G~---~W~~Ia~-----~lpgRt~~~~k~rw~~~l~~~ 211 (329)
+||++|........+ .+.+|-. +-++||+.++.++|..+.+-.
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 999999997766543 3666632 338899999999999765544
No 30
>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=96.95 E-value=0.00084 Score=58.28 Aligned_cols=51 Identities=29% Similarity=0.343 Sum_probs=43.8
Q ss_pred ccCcccHHHHHHHHHHHHhhC---C----cchhhcccCCCCCHHHHHHHHHHHHHHHHH
Q 020197 162 RLGKITLEEQLLILELHSRWG---N----RWSKLAQHLPGRTDNEIKNYWRTRVQKQAK 213 (329)
Q Consensus 162 k~g~WT~eEd~~Ll~~v~~~G---~----~W~~Ia~~lpgRt~~~~k~rw~~~l~~~~k 213 (329)
+.+.||+|||.+|.+.|-.|= . -+..++..| +||...|.=||+.+++++-.
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~ 60 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYE 60 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHH
Confidence 578999999999999998773 2 288888888 99999999999999997643
No 31
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.86 E-value=0.00067 Score=50.57 Aligned_cols=51 Identities=31% Similarity=0.535 Sum_probs=34.4
Q ss_pred cCCCCHHHHHHHHHHHHHc--------CCCchhhhccccCCccCchhhhhhhccccCCc
Q 020197 110 KGPWTVEEDFKLINYIVTH--------GEGRWNRLARCAGLKRTGKSCRLRWLNYLRPD 160 (329)
Q Consensus 110 kg~WT~eED~~L~~~v~~~--------g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~ 160 (329)
+-+||.|||+.|+.+|.++ |+.=|.++++..++.+|-.+-|+||.+.|.+.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~ 60 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGR 60 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT---
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcc
Confidence 3479999999999999766 22239999998877899999999999988764
No 32
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.80 E-value=0.00095 Score=51.88 Aligned_cols=51 Identities=29% Similarity=0.488 Sum_probs=36.9
Q ss_pred CcccHHHHHHHHHHHHh------hC--C------cchhhcccC----CCCCHHHHHHHHHHHHHHHHHh
Q 020197 164 GKITLEEQLLILELHSR------WG--N------RWSKLAQHL----PGRTDNEIKNYWRTRVQKQAKQ 214 (329)
Q Consensus 164 g~WT~eEd~~Ll~~v~~------~G--~------~W~~Ia~~l----pgRt~~~~k~rw~~~l~~~~kk 214 (329)
..||.+|...||+++.+ ++ . -|..||..| ..||..||+.||+++.+...+-
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~ 70 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKI 70 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCS
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 57999999999999877 21 1 299999877 4699999999999988776543
No 33
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.72 E-value=0.0015 Score=66.55 Aligned_cols=46 Identities=24% Similarity=0.382 Sum_probs=42.0
Q ss_pred ccCcccHHHHHHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHH
Q 020197 162 RLGKITLEEQLLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTR 207 (329)
Q Consensus 162 k~g~WT~eEd~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~ 207 (329)
-++.||++|..+|++++..||..|.+||.++.+||..||-.||..+
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhc
Confidence 3568999999999999999999999999999999999998888443
No 34
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.68 E-value=0.00094 Score=51.90 Aligned_cols=47 Identities=32% Similarity=0.545 Sum_probs=33.5
Q ss_pred CCCCHHHHHHHHHHHHH--c----C---C----Cchhhhcccc---CCccCchhhhhhhcccc
Q 020197 111 GPWTVEEDFKLINYIVT--H----G---E----GRWNRLARCA---GLKRTGKSCRLRWLNYL 157 (329)
Q Consensus 111 g~WT~eED~~L~~~v~~--~----g---~----~~W~~IA~~~---~~~Rt~~qcr~Rw~n~L 157 (329)
-.||.+|...|+.++.. + + . .-|..||..| |..|++.||+.+|.++.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 46999999999999988 2 1 1 1499999987 56899999999998754
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=96.51 E-value=0.003 Score=47.04 Aligned_cols=51 Identities=16% Similarity=0.313 Sum_probs=32.3
Q ss_pred cCcccHHHHHHHHHHHHhhC--------Cc-chhhcccCC-CCCHHHHHHHHHHHHHHHHH
Q 020197 163 LGKITLEEQLLILELHSRWG--------NR-WSKLAQHLP-GRTDNEIKNYWRTRVQKQAK 213 (329)
Q Consensus 163 ~g~WT~eEd~~Ll~~v~~~G--------~~-W~~Ia~~lp-gRt~~~~k~rw~~~l~~~~k 213 (329)
+.++|+|||..|++.|+++. ++ |.++++.-+ .+|-...|+||...|+....
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 35799999999999997652 22 999998876 89999999999887776543
No 36
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.36 E-value=0.0028 Score=63.18 Aligned_cols=45 Identities=24% Similarity=0.354 Sum_probs=41.7
Q ss_pred cCcccHHHHHHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHH
Q 020197 163 LGKITLEEQLLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTR 207 (329)
Q Consensus 163 ~g~WT~eEd~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~ 207 (329)
...||.+|..+|++.+..||..|.+||.++..||..||--||-++
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 458999999999999999999999999999999999999998553
No 37
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=96.27 E-value=0.002 Score=55.93 Aligned_cols=49 Identities=35% Similarity=0.778 Sum_probs=41.0
Q ss_pred CccCCCCHHHHHHHHHHHHHc---CC---CchhhhccccCCccCchhhhhhhccccC
Q 020197 108 MRKGPWTVEEDFKLINYIVTH---GE---GRWNRLARCAGLKRTGKSCRLRWLNYLR 158 (329)
Q Consensus 108 ~~kg~WT~eED~~L~~~v~~~---g~---~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~ 158 (329)
.+...||.|||.+|.+.|-+| |. .-..+|+..++ ||+..|.-||+.++.
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VR 56 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVR 56 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHH
Confidence 356679999999999999998 32 14788888876 999999999998875
No 38
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.07 E-value=0.014 Score=44.40 Aligned_cols=53 Identities=26% Similarity=0.487 Sum_probs=42.9
Q ss_pred cCcccHHHHHHHHHHHHhhC----C-------------cchhhcccC-----CCCCHHHHHHHHHHHHHHHHHhc
Q 020197 163 LGKITLEEQLLILELHSRWG----N-------------RWSKLAQHL-----PGRTDNEIKNYWRTRVQKQAKQL 215 (329)
Q Consensus 163 ~g~WT~eEd~~Ll~~v~~~G----~-------------~W~~Ia~~l-----pgRt~~~~k~rw~~~l~~~~kk~ 215 (329)
...||.+|.+.|++++.+|. + -|..|+..| +.|+..+++.+|.+++..-.++.
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk~~ 76 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKKKL 76 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 45799999999999998862 1 299998866 35999999999999987665543
No 39
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.94 E-value=0.0073 Score=53.16 Aligned_cols=52 Identities=25% Similarity=0.279 Sum_probs=42.3
Q ss_pred cccCcccHHHHHHHHHHHHhhCCc-------chhhcccCCCCCHHHHHHHHHHHHHHHHH
Q 020197 161 VRLGKITLEEQLLILELHSRWGNR-------WSKLAQHLPGRTDNEIKNYWRTRVQKQAK 213 (329)
Q Consensus 161 ~k~g~WT~eEd~~Ll~~v~~~G~~-------W~~Ia~~lpgRt~~~~k~rw~~~l~~~~k 213 (329)
.+.+.||.|||.+|-+.|..|+.. ...++..| +||..+|.-||+.+++++-.
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Ye 61 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQ 61 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHH
Confidence 367899999999999988888742 55555666 89999999999999997643
No 40
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.78 E-value=0.0046 Score=47.04 Aligned_cols=48 Identities=25% Similarity=0.405 Sum_probs=39.9
Q ss_pred cCCCCHHHHHHHHHHHHHcCC----------------CchhhhccccC----CccCchhhhhhhcccc
Q 020197 110 KGPWTVEEDFKLINYIVTHGE----------------GRWNRLARCAG----LKRTGKSCRLRWLNYL 157 (329)
Q Consensus 110 kg~WT~eED~~L~~~v~~~g~----------------~~W~~IA~~~~----~~Rt~~qcr~Rw~n~L 157 (329)
+..||.+|.+.|+++|.+|.. .-|..|+..|. ..|+..|++.+|.++.
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 467999999999999999821 15999999872 3799999999998764
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.77 E-value=0.0054 Score=58.58 Aligned_cols=51 Identities=24% Similarity=0.527 Sum_probs=46.8
Q ss_pred CCccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccC
Q 020197 107 DMRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLR 158 (329)
Q Consensus 107 ~~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~ 158 (329)
.+---.|+.+|+-+|++...-.|-|+|..||.++| .|+...|+++|..+++
T Consensus 60 pI~~e~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 60 PIGEEGWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred cccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 45555799999999999999999999999999999 9999999999998876
No 42
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=94.58 E-value=0.029 Score=53.73 Aligned_cols=47 Identities=23% Similarity=0.403 Sum_probs=42.1
Q ss_pred cCcccHHHHHHHHHHHHhhC-CcchhhcccCCCCCHHHHHHHHHHHHH
Q 020197 163 LGKITLEEQLLILELHSRWG-NRWSKLAQHLPGRTDNEIKNYWRTRVQ 209 (329)
Q Consensus 163 ~g~WT~eEd~~Ll~~v~~~G-~~W~~Ia~~lpgRt~~~~k~rw~~~l~ 209 (329)
-..|+.+|+.+|++.....| ++|..||.++..|+...||.+|..+.-
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 34699999999999999999 789999999988999999999866554
No 43
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=94.54 E-value=0.013 Score=51.57 Aligned_cols=49 Identities=27% Similarity=0.538 Sum_probs=38.5
Q ss_pred CccCCCCHHHHHHHHHHHHHcCCC------chhhhccccCCccCchhhhhhhccccC
Q 020197 108 MRKGPWTVEEDFKLINYIVTHGEG------RWNRLARCAGLKRTGKSCRLRWLNYLR 158 (329)
Q Consensus 108 ~~kg~WT~eED~~L~~~v~~~g~~------~W~~IA~~~~~~Rt~~qcr~Rw~n~L~ 158 (329)
.++..||.|||.+|.+.|-+|+.. -...++..+. ||..+|..||+.++.
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 466789999999999999888542 2455556654 999999999977665
No 44
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.43 E-value=0.13 Score=57.19 Aligned_cols=101 Identities=16% Similarity=0.203 Sum_probs=73.1
Q ss_pred CCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhh-------hhcccc----------------------------
Q 020197 113 WTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRL-------RWLNYL---------------------------- 157 (329)
Q Consensus 113 WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~-------Rw~n~L---------------------------- 157 (329)
|+.-+=..++.+..+||-.+-..||..|. +.|...++. ||..+-
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 44444456666777778777889999998 888887762 322210
Q ss_pred ---------------CCccccCcccHHHHHHHHHHHHhhC-Ccchhhcc------------cCCCCCHHHHHHHHHHHHH
Q 020197 158 ---------------RPDVRLGKITLEEQLLILELHSRWG-NRWSKLAQ------------HLPGRTDNEIKNYWRTRVQ 209 (329)
Q Consensus 158 ---------------~p~~k~g~WT~eEd~~Ll~~v~~~G-~~W~~Ia~------------~lpgRt~~~~k~rw~~~l~ 209 (329)
.+.-++..+|+|||..|+-.+.+|| .+|..|-. .+..||+..+..|-..+++
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 0122344699999999999999999 67999832 2368999999999999988
Q ss_pred HHHHh
Q 020197 210 KQAKQ 214 (329)
Q Consensus 210 ~~~kk 214 (329)
-..+.
T Consensus 986 ~~~~e 990 (1033)
T PLN03142 986 LIEKE 990 (1033)
T ss_pred HHHHH
Confidence 76443
No 45
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=93.90 E-value=0.091 Score=51.61 Aligned_cols=52 Identities=21% Similarity=0.279 Sum_probs=46.7
Q ss_pred CcccHHHHHHHHHHHHhhCCcchhhccc-----CCC-CCHHHHHHHHHHHHHHHHHhc
Q 020197 164 GKITLEEQLLILELHSRWGNRWSKLAQH-----LPG-RTDNEIKNYWRTRVQKQAKQL 215 (329)
Q Consensus 164 g~WT~eEd~~Ll~~v~~~G~~W~~Ia~~-----lpg-Rt~~~~k~rw~~~l~~~~kk~ 215 (329)
..||.||-+-|+++++.|.-+|-.|+.. ++. ||-.++++||+.+.++.++-.
T Consensus 131 n~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr 188 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKAR 188 (445)
T ss_pred ccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHcc
Confidence 5799999999999999999999999976 555 999999999999998877654
No 46
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=92.35 E-value=0.25 Score=38.58 Aligned_cols=47 Identities=30% Similarity=0.539 Sum_probs=36.4
Q ss_pred cccHHHHHHHHHHHHhh---CC----------cchhhcccC---CC--CCHHHHHHHHHHHHHHH
Q 020197 165 KITLEEQLLILELHSRW---GN----------RWSKLAQHL---PG--RTDNEIKNYWRTRVQKQ 211 (329)
Q Consensus 165 ~WT~eEd~~Ll~~v~~~---G~----------~W~~Ia~~l---pg--Rt~~~~k~rw~~~l~~~ 211 (329)
.||+++++.|++++.+. |+ -|..|+..| +| .+..||++||..+.+..
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~y 65 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKDY 65 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHH
Confidence 59999999999998553 21 188898876 33 67889999998888765
No 47
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=90.47 E-value=0.54 Score=47.22 Aligned_cols=50 Identities=20% Similarity=0.321 Sum_probs=45.2
Q ss_pred ccCcccHHHHHHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHHHHHH
Q 020197 162 RLGKITLEEQLLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTRVQKQ 211 (329)
Q Consensus 162 k~g~WT~eEd~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~l~~~ 211 (329)
....||.||..++-.++..||..+.+|-+.||.|+-..+...|....+..
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~~ 235 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKTR 235 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHHh
Confidence 46789999999999999999999999999999999999999888776643
No 48
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=90.46 E-value=0.4 Score=46.70 Aligned_cols=54 Identities=19% Similarity=0.263 Sum_probs=43.2
Q ss_pred cCcccHHHHHHHHHHHHhhC----------CcchhhcccC----CCCCHHHHHHHHHHHHHHHHHhcc
Q 020197 163 LGKITLEEQLLILELHSRWG----------NRWSKLAQHL----PGRTDNEIKNYWRTRVQKQAKQLK 216 (329)
Q Consensus 163 ~g~WT~eEd~~Ll~~v~~~G----------~~W~~Ia~~l----pgRt~~~~k~rw~~~l~~~~kk~~ 216 (329)
...|+.+|=..||++..+.. .-|..||..+ .-||+.+|+.||+++.++..+...
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~k~ 121 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKEKA 121 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhc
Confidence 36899999999999886532 2399999855 349999999999999998765443
No 49
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=89.88 E-value=0.66 Score=38.60 Aligned_cols=78 Identities=19% Similarity=0.311 Sum_probs=51.0
Q ss_pred HHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCCccccCcccHHHHHHHHHHHHhhCC----cchhhccc-
Q 020197 117 EDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRPDVRLGKITLEEQLLILELHSRWGN----RWSKLAQH- 191 (329)
Q Consensus 117 ED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~k~g~WT~eEd~~Ll~~v~~~G~----~W~~Ia~~- 191 (329)
..+.|.+-|..|.. -|....-..| |.-++..+|++||..|+-.+.+||- .|..|-..
T Consensus 21 ~~~~l~~Kv~~~~~-P~~~L~i~y~-----------------~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 21 QQEALRKKVEQYKN-PWQELKINYP-----------------PNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp HHHHHHHHHCC-SS-HHHH---SST-----------------STSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred HHHHHHHHHHHccC-CHHHCeeccC-----------------CCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 34455555666664 6666543333 1225678999999999999999996 69888432
Q ss_pred -----------CCCCCHHHHHHHHHHHHHHHH
Q 020197 192 -----------LPGRTDNEIKNYWRTRVQKQA 212 (329)
Q Consensus 192 -----------lpgRt~~~~k~rw~~~l~~~~ 212 (329)
+..||+..+..|-+.+++-..
T Consensus 83 r~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~ 114 (118)
T PF09111_consen 83 RESPLFRFDWFFKSRTPQELQRRCNTLIKLIE 114 (118)
T ss_dssp HH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHH
T ss_pred HhCCCcccchhcccCCHHHHHHHHHHHHHHHH
Confidence 256999999999998887544
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=89.18 E-value=0.25 Score=41.09 Aligned_cols=48 Identities=23% Similarity=0.335 Sum_probs=35.7
Q ss_pred CCccCCCCHHHHHHHHHHHHHcCC---CchhhhccccC-----------CccCchhhhhhhc
Q 020197 107 DMRKGPWTVEEDFKLINYIVTHGE---GRWNRLARCAG-----------LKRTGKSCRLRWL 154 (329)
Q Consensus 107 ~~~kg~WT~eED~~L~~~v~~~g~---~~W~~IA~~~~-----------~~Rt~~qcr~Rw~ 154 (329)
..++..||.|||.-|+-++.+||. +.|..|-..+- -.||+..+..|-.
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~ 107 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCN 107 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHH
Confidence 666788999999999999999998 89999987552 1467766666654
No 51
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=88.80 E-value=0.56 Score=46.09 Aligned_cols=46 Identities=20% Similarity=0.310 Sum_probs=42.1
Q ss_pred CcccHHHHHHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHHHH
Q 020197 164 GKITLEEQLLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTRVQ 209 (329)
Q Consensus 164 g~WT~eEd~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~l~ 209 (329)
.+|+.+|-+++..+....|..+..|+..+|.|...||+-+|.+--+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek 411 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEK 411 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhh
Confidence 3799999999999999999999999999999999999999965433
No 52
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=87.61 E-value=0.44 Score=46.79 Aligned_cols=44 Identities=14% Similarity=0.258 Sum_probs=40.8
Q ss_pred cCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhcc
Q 020197 110 KGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLN 155 (329)
Q Consensus 110 kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n 155 (329)
--+|+.+|-+++.++....|. ++..|+..+| .|..+|++..|.+
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 347999999999999999998 9999999999 9999999998865
No 53
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=85.44 E-value=5.7 Score=42.39 Aligned_cols=47 Identities=15% Similarity=0.125 Sum_probs=42.1
Q ss_pred cCcccHHHHHHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHHHH
Q 020197 163 LGKITLEEQLLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTRVQ 209 (329)
Q Consensus 163 ~g~WT~eEd~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~l~ 209 (329)
...||+.|..++-+++..|.+.+..|++.++++|-.+|-..|+.-++
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtWKK 665 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTWKK 665 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHHHH
Confidence 45899999999999999999999999999999999999887765543
No 54
>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=84.23 E-value=0.96 Score=35.24 Aligned_cols=44 Identities=27% Similarity=0.548 Sum_probs=33.5
Q ss_pred CCCHHHHHHHHHHHHHc---CCC---------chhhhccccC----CccCchhhhhhhcc
Q 020197 112 PWTVEEDFKLINYIVTH---GEG---------RWNRLARCAG----LKRTGKSCRLRWLN 155 (329)
Q Consensus 112 ~WT~eED~~L~~~v~~~---g~~---------~W~~IA~~~~----~~Rt~~qcr~Rw~n 155 (329)
.||+++++.|++++.+. |.. .|..|+..|. ...+..||+.||..
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 49999999999998655 222 3999998774 44577888988864
No 55
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=83.71 E-value=0.83 Score=44.49 Aligned_cols=47 Identities=30% Similarity=0.520 Sum_probs=37.6
Q ss_pred CCCCHHHHHHHHHHHHHc----CCC-----chhhhcccc---CCccCchhhhhhhcccc
Q 020197 111 GPWTVEEDFKLINYIVTH----GEG-----RWNRLARCA---GLKRTGKSCRLRWLNYL 157 (329)
Q Consensus 111 g~WT~eED~~L~~~v~~~----g~~-----~W~~IA~~~---~~~Rt~~qcr~Rw~n~L 157 (329)
..|+.+|=..|+++..+. ..+ -|..||..+ |..|++.||+.+|.|+.
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 679999999999988754 111 499999844 46799999999998754
No 56
>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=79.08 E-value=4 Score=28.25 Aligned_cols=42 Identities=26% Similarity=0.308 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHHHHH
Q 020197 168 LEEQLLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTRVQK 210 (329)
Q Consensus 168 ~eEd~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~l~~ 210 (329)
++++..++.++...|-.|.+||+.+ |.+...++.+...-+++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~~ 53 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARKK 53 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHhh
Confidence 4667788888888899999999999 99999999887766543
No 57
>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=76.73 E-value=2.3 Score=33.19 Aligned_cols=25 Identities=44% Similarity=0.570 Sum_probs=14.4
Q ss_pred cCCccCCCCHHHHHHH--------HHHHHHcCC
Q 020197 106 LDMRKGPWTVEEDFKL--------INYIVTHGE 130 (329)
Q Consensus 106 ~~~~kg~WT~eED~~L--------~~~v~~~g~ 130 (329)
|....|-||+|+|+.| .+++++||.
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG~ 75 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHGE 75 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH-H
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhCH
Confidence 6678899999999998 455566663
No 58
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=74.84 E-value=1.7 Score=42.91 Aligned_cols=103 Identities=15% Similarity=0.035 Sum_probs=66.1
Q ss_pred cCCCCchhHhhhCCCCCCccceeeeeeccccchhhcc--ccccccccCCCCCccccccCcCCccCCCCHHHHHHHHHHHH
Q 020197 49 SHGYLPNPLLEFYPRRTRVTQFVHLRQPKLKKTEVKG--RACRANRNFKSSSTTISEEDLDMRKGPWTVEEDFKLINYIV 126 (329)
Q Consensus 49 ~~~~~W~~Ia~~~~~r~~~~qc~~r~~~~lk~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~kg~WT~eED~~L~~~v~ 126 (329)
..-..|.-+.=-.+-|... -..+.|.+.-. ..+ .=.+=+.....-+-.-.+.+..++...||.||-+-|..+.+
T Consensus 71 ~K~~~W~w~pFtn~aRkD~-~~l~HWvr~~d---~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck 146 (445)
T KOG2656|consen 71 KKVRPWKWVPFTNSARKDD-ATLHHWVRVGD---TPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCK 146 (445)
T ss_pred ccCCCceeeccCCccccCC-ceEEeeeeccC---CCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHH
Confidence 3445676666556656555 44555765511 111 00011112222222233444567778999999999999999
Q ss_pred HcCCCchhhhccc-----cCCccCchhhhhhhccc
Q 020197 127 THGEGRWNRLARC-----AGLKRTGKSCRLRWLNY 156 (329)
Q Consensus 127 ~~g~~~W~~IA~~-----~~~~Rt~~qcr~Rw~n~ 156 (329)
+|.- .|-.||.. ++..||....++||+.+
T Consensus 147 ~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 147 RFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred hcCe-eEEEEeeccchhhccccccHHHHHHHHHHH
Confidence 9997 99999988 67569999999999854
No 59
>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=72.04 E-value=2.9 Score=28.19 Aligned_cols=38 Identities=24% Similarity=0.316 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhcc
Q 020197 116 EEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLN 155 (329)
Q Consensus 116 eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n 155 (329)
+=|.+|+.+...-|...|.+||+.+| =+...|..|+.+
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 45889999999999889999999998 588889988754
No 60
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=71.52 E-value=6.9 Score=40.90 Aligned_cols=53 Identities=17% Similarity=0.342 Sum_probs=44.0
Q ss_pred cCcccHHHHHHHHHHHHhhCCcchhh----------cccCCCCCHHHHHHHHHHHHHHHHHhc
Q 020197 163 LGKITLEEQLLILELHSRWGNRWSKL----------AQHLPGRTDNEIKNYWRTRVQKQAKQL 215 (329)
Q Consensus 163 ~g~WT~eEd~~Ll~~v~~~G~~W~~I----------a~~lpgRt~~~~k~rw~~~l~~~~kk~ 215 (329)
+..||-+|++-+..+++++|+.+.+| -..+.-+|..|++.+|+..+++..+-.
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 66899999999999999999999988 223445788899999999988776544
No 61
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=69.98 E-value=3.6 Score=43.87 Aligned_cols=43 Identities=14% Similarity=0.172 Sum_probs=39.3
Q ss_pred CCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhcc
Q 020197 111 GPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLN 155 (329)
Q Consensus 111 g~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n 155 (329)
..||+.|-.++.+++..|.. ++..|+++++ ++|..||-+-|+.
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 36999999999999999986 9999999999 9999999998753
No 62
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=66.32 E-value=18 Score=35.15 Aligned_cols=52 Identities=25% Similarity=0.431 Sum_probs=40.3
Q ss_pred cCcccHHHHHHHHHHHHhh-CCc---chhhcccCCCCCHHHHHHHHHHHHHHHHHh
Q 020197 163 LGKITLEEQLLILELHSRW-GNR---WSKLAQHLPGRTDNEIKNYWRTRVQKQAKQ 214 (329)
Q Consensus 163 ~g~WT~eEd~~Ll~~v~~~-G~~---W~~Ia~~lpgRt~~~~k~rw~~~l~~~~kk 214 (329)
-..|+.-|...|+++.+-. |.. -..|++.++||+..+|++.-..++.+-+++
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rvare 76 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRVARE 76 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHHHHH
Confidence 3479999999999988655 444 457788999999999999777666665543
No 63
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=65.20 E-value=33 Score=33.98 Aligned_cols=47 Identities=17% Similarity=0.182 Sum_probs=40.5
Q ss_pred cCcccHHHHHHHHHHHHhhCCcchhhc-ccCCCCCHHHHHHHHHHHHH
Q 020197 163 LGKITLEEQLLILELHSRWGNRWSKLA-QHLPGRTDNEIKNYWRTRVQ 209 (329)
Q Consensus 163 ~g~WT~eEd~~Ll~~v~~~G~~W~~Ia-~~lpgRt~~~~k~rw~~~l~ 209 (329)
...|+++|=..+-+-++.||+.+..|- ..|+.|+--.|-..|+.-++
T Consensus 277 l~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWKk 324 (445)
T KOG4329|consen 277 LSGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWKK 324 (445)
T ss_pred cccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhhc
Confidence 347999999999999999999999995 57999999999887755443
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=62.86 E-value=13 Score=24.93 Aligned_cols=38 Identities=26% Similarity=0.379 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHhhCC-cchhhcccCCCCCHHHHHHHHHHH
Q 020197 169 EEQLLILELHSRWGN-RWSKLAQHLPGRTDNEIKNYWRTR 207 (329)
Q Consensus 169 eEd~~Ll~~v~~~G~-~W~~Ia~~lpgRt~~~~k~rw~~~ 207 (329)
+-|.+|+.+..+-|. .|..||+.+ |=+...|..|+..+
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 568889998888885 599999999 99999999998764
No 65
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=62.25 E-value=5.5 Score=34.10 Aligned_cols=45 Identities=11% Similarity=0.164 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCCcc
Q 020197 115 VEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRPDV 161 (329)
Q Consensus 115 ~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~ 161 (329)
.+-|.+|+.+..+.|...|.+||+.+| -+...|+.|+.+..+.++
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 357999999999999889999999997 799999999998876654
No 66
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=59.98 E-value=14 Score=33.56 Aligned_cols=44 Identities=18% Similarity=0.209 Sum_probs=34.4
Q ss_pred cccHHHHHHHHHHHHhhCCcchhhcccC---CCCCHHHHHHHHHHHHH
Q 020197 165 KITLEEQLLILELHSRWGNRWSKLAQHL---PGRTDNEIKNYWRTRVQ 209 (329)
Q Consensus 165 ~WT~eEd~~Ll~~v~~~G~~W~~Ia~~l---pgRt~~~~k~rw~~~l~ 209 (329)
.|++++|.+|+.+| +.|+.-..|+..+ -.-|-..+..||..+|-
T Consensus 1 rW~~~DDl~Li~av-~~~~~L~~v~~gvkFS~~fT~~Ei~~RW~~lly 47 (199)
T PF13325_consen 1 RWKPEDDLLLINAV-EQTNDLESVHLGVKFSCKFTLQEIEERWYALLY 47 (199)
T ss_pred CCCchhhHHHHHHH-HHhcCHHHHHccCCcCCcCcHHHHHHHHHHHHc
Confidence 49999999999998 4566666665433 44688999999999985
No 67
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=59.65 E-value=5.3 Score=34.67 Aligned_cols=45 Identities=18% Similarity=0.162 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCCcc
Q 020197 115 VEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRPDV 161 (329)
Q Consensus 115 ~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~ 161 (329)
.+-|.+|+.+.++.|.-.|.+||+.+| =+...|+.|+.+..+.++
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 567999999999999889999999998 688899999998877665
No 68
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=59.65 E-value=14 Score=31.50 Aligned_cols=43 Identities=19% Similarity=0.119 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHhhCC-cchhhcccCCCCCHHHHHHHHHHHHHHHH
Q 020197 169 EEQLLILELHSRWGN-RWSKLAQHLPGRTDNEIKNYWRTRVQKQA 212 (329)
Q Consensus 169 eEd~~Ll~~v~~~G~-~W~~Ia~~lpgRt~~~~k~rw~~~l~~~~ 212 (329)
+.|.+|+++.++-|. .|.+||+.+ |-+...|+.|++.+.+..+
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 578899999888884 699999999 9999999999999887654
No 69
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=55.53 E-value=17 Score=29.01 Aligned_cols=53 Identities=17% Similarity=0.202 Sum_probs=35.6
Q ss_pred CcccHHHHHHHHHHHHhh----CC----cchhhcc----cC-CCCCHHHHHHHHHHHHHHHHHhcc
Q 020197 164 GKITLEEQLLILELHSRW----GN----RWSKLAQ----HL-PGRTDNEIKNYWRTRVQKQAKQLK 216 (329)
Q Consensus 164 g~WT~eEd~~Ll~~v~~~----G~----~W~~Ia~----~l-pgRt~~~~k~rw~~~l~~~~kk~~ 216 (329)
.-||+|+|..||+.+..| |. .|..+-. .+ ..=+..|+.++.+.+.++......
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~~ 70 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAVK 70 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhh
Confidence 369999999999998776 52 2433322 22 223778888888888777665543
No 70
>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=54.77 E-value=30 Score=23.44 Aligned_cols=42 Identities=14% Similarity=0.251 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHHHHHH
Q 020197 169 EEQLLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTRVQKQ 211 (329)
Q Consensus 169 eEd~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~l~~~ 211 (329)
+++..++.+.-..|..+.+||..+ |-+...++.+....+++-
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~kL 48 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKKL 48 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHHh
Confidence 345555555555566799999999 889999988877776653
No 71
>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=54.69 E-value=9.5 Score=26.30 Aligned_cols=38 Identities=13% Similarity=0.163 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhcc
Q 020197 115 VEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLN 155 (329)
Q Consensus 115 ~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n 155 (329)
++++..++.+....|. .|.+||+.++ .+...++.+..+
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 4667777777777786 9999999987 888888877654
No 72
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=54.26 E-value=9.9 Score=42.67 Aligned_cols=48 Identities=19% Similarity=0.209 Sum_probs=36.4
Q ss_pred CCccCCCCHHHHHHHHHHHHHcCCCchhhhccccC-----------CccCchhhhhhhc
Q 020197 107 DMRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAG-----------LKRTGKSCRLRWL 154 (329)
Q Consensus 107 ~~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~-----------~~Rt~~qcr~Rw~ 154 (329)
..++..||.|||..|+-.+.+||.++|.+|-..+- ..||+..+..|-.
T Consensus 923 ~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~ 981 (1033)
T PLN03142 923 QNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCD 981 (1033)
T ss_pred CCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHH
Confidence 44556699999999999999999999999965442 1466666666653
No 73
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=53.05 E-value=16 Score=38.25 Aligned_cols=46 Identities=22% Similarity=0.304 Sum_probs=41.9
Q ss_pred ccCcccHHHHHHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHH
Q 020197 162 RLGKITLEEQLLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTR 207 (329)
Q Consensus 162 k~g~WT~eEd~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~ 207 (329)
..++|+.+|-++...+....|...+.|+..+|+|...|+|.+|..-
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~e 453 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKE 453 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhh
Confidence 3568999999999999999999999999999999999999988543
No 74
>smart00351 PAX Paired Box domain.
Probab=52.91 E-value=92 Score=25.72 Aligned_cols=76 Identities=14% Similarity=0.116 Sum_probs=49.4
Q ss_pred cCCccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCcc-Cchhhhhhhcc--ccCCcc----ccCcccHHHHHHHHHHH
Q 020197 106 LDMRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKR-TGKSCRLRWLN--YLRPDV----RLGKITLEEQLLILELH 178 (329)
Q Consensus 106 ~~~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~R-t~~qcr~Rw~n--~L~p~~----k~g~WT~eEd~~Ll~~v 178 (329)
.-+...+.+.|+-++++.++. -|. .-.+||+.|+..| |...+..||.. .+.|.. +...-+++++..|++++
T Consensus 11 ~~~~~~~~s~~~R~riv~~~~-~G~-s~~~iA~~~gvs~~tV~kwi~r~~~~G~~~pk~~gg~rp~~~~~~~~~~I~~~~ 88 (125)
T smart00351 11 VFVNGRPLPDEERQRIVELAQ-NGV-RPCDISRQLCVSHGCVSKILGRYYETGSIRPGAIGGSKPKVATPKVVKKIADYK 88 (125)
T ss_pred eecCCCCCCHHHHHHHHHHHH-cCC-CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCcCCCCCCCCccCHHHHHHHHHHH
Confidence 344556799999999998886 564 7899999998444 35556666653 344421 22235556666677777
Q ss_pred HhhCC
Q 020197 179 SRWGN 183 (329)
Q Consensus 179 ~~~G~ 183 (329)
.+++.
T Consensus 89 ~~~p~ 93 (125)
T smart00351 89 QENPG 93 (125)
T ss_pred HHCCC
Confidence 66553
No 75
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=52.69 E-value=18 Score=31.31 Aligned_cols=44 Identities=14% Similarity=0.019 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHhhCC-cchhhcccCCCCCHHHHHHHHHHHHHHHH
Q 020197 168 LEEQLLILELHSRWGN-RWSKLAQHLPGRTDNEIKNYWRTRVQKQA 212 (329)
Q Consensus 168 ~eEd~~Ll~~v~~~G~-~W~~Ia~~lpgRt~~~~k~rw~~~l~~~~ 212 (329)
.+-|.+||.+.++-|. .|.+||+.+ |=+...|+.|++.+.+..+
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 4678889988888875 699999999 9999999999999988765
No 76
>smart00595 MADF subfamily of SANT domain.
Probab=52.48 E-value=14 Score=28.25 Aligned_cols=30 Identities=27% Similarity=0.649 Sum_probs=24.8
Q ss_pred chhhcccCCCCCHHHHHHHHHHHHHHHHHhc
Q 020197 185 WSKLAQHLPGRTDNEIKNYWRTRVQKQAKQL 215 (329)
Q Consensus 185 W~~Ia~~lpgRt~~~~k~rw~~~l~~~~kk~ 215 (329)
|..||..| |-+..+|+.+|.++.....+..
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~~y~~e~ 59 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRDRYRREL 59 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHHHHHHHH
Confidence 99999999 4499999999999987665543
No 77
>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=51.01 E-value=14 Score=28.69 Aligned_cols=17 Identities=29% Similarity=0.331 Sum_probs=9.7
Q ss_pred CccccCcccHHHHHHHH
Q 020197 159 PDVRLGKITLEEQLLIL 175 (329)
Q Consensus 159 p~~k~g~WT~eEd~~Ll 175 (329)
|.-..|-||+|+|+.|.
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 44567899999999983
No 78
>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=50.89 E-value=6.9 Score=30.31 Aligned_cols=40 Identities=25% Similarity=0.563 Sum_probs=28.0
Q ss_pred HHHHHHHHHcCC-------CchhhhccccCCccC----chhhhhhhccccC
Q 020197 119 FKLINYIVTHGE-------GRWNRLARCAGLKRT----GKSCRLRWLNYLR 158 (329)
Q Consensus 119 ~~L~~~v~~~g~-------~~W~~IA~~~~~~Rt----~~qcr~Rw~n~L~ 158 (329)
-.|..+|.+.|. +.|..||+.++.... +.+++..|.++|.
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 468888888873 369999999984432 3567777777664
No 79
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=50.33 E-value=13 Score=37.70 Aligned_cols=46 Identities=13% Similarity=0.182 Sum_probs=40.3
Q ss_pred CccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhcc
Q 020197 108 MRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLN 155 (329)
Q Consensus 108 ~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n 155 (329)
-....||.||--++.++...||. +..+|-+.|| .|+-.++..-|..
T Consensus 185 ~~~d~WT~Ed~vlFe~aF~~~GK-~F~kIrq~LP-~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 185 EFPDEWTAEDIVLFEQAFQFFGK-DFHKIRQALP-HRSLASLVQYYYS 230 (534)
T ss_pred CCcccchHHHHHHHHHHHHHhcc-cHHHHHHHcc-CccHHHHHHHHHH
Confidence 34457999999999999999997 9999999999 9999998877754
No 80
>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=48.04 E-value=28 Score=26.83 Aligned_cols=40 Identities=15% Similarity=0.400 Sum_probs=28.1
Q ss_pred HHHHHHHHhhCC--------cchhhcccC--CC-CC--HHHHHHHHHHHHHHH
Q 020197 172 LLILELHSRWGN--------RWSKLAQHL--PG-RT--DNEIKNYWRTRVQKQ 211 (329)
Q Consensus 172 ~~Ll~~v~~~G~--------~W~~Ia~~l--pg-Rt--~~~~k~rw~~~l~~~ 211 (329)
-.|..+|.+.|+ .|..|+..+ +. -+ ..+++..|..+|..+
T Consensus 39 ~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~f 91 (92)
T PF01388_consen 39 YKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLPF 91 (92)
T ss_dssp HHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHHH
T ss_pred HHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHhh
Confidence 347777777774 599999987 22 22 367899998887653
No 81
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=47.19 E-value=10 Score=29.57 Aligned_cols=41 Identities=27% Similarity=0.605 Sum_probs=28.1
Q ss_pred HHHHHHHHHcCC-------CchhhhccccCCcc----CchhhhhhhccccCC
Q 020197 119 FKLINYIVTHGE-------GRWNRLARCAGLKR----TGKSCRLRWLNYLRP 159 (329)
Q Consensus 119 ~~L~~~v~~~g~-------~~W~~IA~~~~~~R----t~~qcr~Rw~n~L~p 159 (329)
-.|..+|.+.|. ..|.+||..|+..- ...+.+..|.++|.|
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 467788888763 37999999998432 245566677666654
No 82
>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=45.88 E-value=50 Score=32.13 Aligned_cols=86 Identities=19% Similarity=0.345 Sum_probs=58.1
Q ss_pred cCCCCHHHHHHHHHHHHHc-CC--CchhhhccccCCccCchhhhhhhccccCCccccCcccHHHHHHHHHHHHh-h----
Q 020197 110 KGPWTVEEDFKLINYIVTH-GE--GRWNRLARCAGLKRTGKSCRLRWLNYLRPDVRLGKITLEEQLLILELHSR-W---- 181 (329)
Q Consensus 110 kg~WT~eED~~L~~~v~~~-g~--~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~k~g~WT~eEd~~Ll~~v~~-~---- 181 (329)
-..||.-|...|+.+.+.. |. -+-.+|++.++ +|+..++++ |.+.|+ +..+.+++++ |
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 3479999999888888755 42 14568888999 999988876 333333 2233344433 2
Q ss_pred -CC------------cchhhcccCCCCCHHHHHHHHHHHHH
Q 020197 182 -GN------------RWSKLAQHLPGRTDNEIKNYWRTRVQ 209 (329)
Q Consensus 182 -G~------------~W~~Ia~~lpgRt~~~~k~rw~~~l~ 209 (329)
|. -|..+|+.+.|.-...+---|-.+|-
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 11 19999999988888887777766654
No 83
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=45.30 E-value=2.9e+02 Score=27.68 Aligned_cols=73 Identities=8% Similarity=0.204 Sum_probs=45.5
Q ss_pred CccCCCCHHHHHHHHHHHHHcCCCchhhh-ccccC--CccCchhhhhhhccccCCccccCcccHHHHHHHHHHHHhhC-C
Q 020197 108 MRKGPWTVEEDFKLINYIVTHGEGRWNRL-ARCAG--LKRTGKSCRLRWLNYLRPDVRLGKITLEEQLLILELHSRWG-N 183 (329)
Q Consensus 108 ~~kg~WT~eED~~L~~~v~~~g~~~W~~I-A~~~~--~~Rt~~qcr~Rw~n~L~p~~k~g~WT~eEd~~Ll~~v~~~G-~ 183 (329)
.--|.|+++=|+-..++...|.+.-=.+| -.--| .||+. ||..+.++. +
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNE---------------------------LIarYIKlrtg 126 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNE---------------------------LIARYIKLRTG 126 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHH---------------------------HHHHHHHHhcC
Confidence 56789999999999999998865222222 11111 13433 222222221 2
Q ss_pred cchhhcccCCCCCHHHHHHHHHHHHHHHHHhcc
Q 020197 184 RWSKLAQHLPGRTDNEIKNYWRTRVQKQAKQLK 216 (329)
Q Consensus 184 ~W~~Ia~~lpgRt~~~~k~rw~~~l~~~~kk~~ 216 (329)
+ .||.+|+-.+-..+.|++.++..
T Consensus 127 k---------tRTrKQVSSHIQVlarrk~reiq 150 (455)
T KOG3841|consen 127 K---------TRTRKQVSSHIQVLARRKLREIQ 150 (455)
T ss_pred C---------chhHHHHHHHHHHHHHHHHHHHH
Confidence 1 59999999998888888877653
No 84
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=42.44 E-value=43 Score=26.02 Aligned_cols=41 Identities=12% Similarity=0.302 Sum_probs=29.9
Q ss_pred HHHHHHHHhhCC--------cchhhcccCCC-----CCHHHHHHHHHHHHHHHH
Q 020197 172 LLILELHSRWGN--------RWSKLAQHLPG-----RTDNEIKNYWRTRVQKQA 212 (329)
Q Consensus 172 ~~Ll~~v~~~G~--------~W~~Ia~~lpg-----Rt~~~~k~rw~~~l~~~~ 212 (329)
-.|..+|.+.|+ .|..|+..+.- .....++..|..+|.+.-
T Consensus 35 ~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~yE 88 (93)
T smart00501 35 YRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPFE 88 (93)
T ss_pred HHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHHH
Confidence 357777777774 59999998722 235678999998887664
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=42.37 E-value=50 Score=27.20 Aligned_cols=42 Identities=14% Similarity=0.179 Sum_probs=32.5
Q ss_pred HHHHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHHHHHHH
Q 020197 170 EQLLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTRVQKQA 212 (329)
Q Consensus 170 Ed~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~l~~~~ 212 (329)
++..++.+.-..|-.+.+||+.+ |.+...++.+....+++..
T Consensus 117 ~~r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~Lr 158 (161)
T TIGR02985 117 QCRKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKELR 158 (161)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 45556666555688899999988 9999999999988766543
No 86
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=42.01 E-value=33 Score=39.09 Aligned_cols=72 Identities=25% Similarity=0.289 Sum_probs=47.1
Q ss_pred CCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCCccccCcccHHHHHHHHHHHHhh-CCcchhhc
Q 020197 111 GPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRPDVRLGKITLEEQLLILELHSRW-GNRWSKLA 189 (329)
Q Consensus 111 g~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~k~g~WT~eEd~~Ll~~v~~~-G~~W~~Ia 189 (329)
--|..+||..|+-.|-+||.|+|..|-.-=.++=+.+ ..++..+-.+.|=...-..|+.+...+ +.+|....
T Consensus 1134 ~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~l~dK-------i~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~~~ 1206 (1373)
T KOG0384|consen 1134 CDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLGLTDK-------IFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPKKL 1206 (1373)
T ss_pred cCCCchhhhhHhhhhhhcccccHHHhccCccccchhh-------hcccccCCchHHHHHHHHHHHHHHhhcccCCCchhh
Confidence 4599999999999999999999999943211222332 122222345566677777777777766 44455443
No 87
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=41.24 E-value=36 Score=35.83 Aligned_cols=47 Identities=17% Similarity=0.391 Sum_probs=36.0
Q ss_pred cCCCCHHHHHHHHHHHHHcCCCchhhhcccc----------CCccCchhhhhhhccccC
Q 020197 110 KGPWTVEEDFKLINYIVTHGEGRWNRLARCA----------GLKRTGKSCRLRWLNYLR 158 (329)
Q Consensus 110 kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~----------~~~Rt~~qcr~Rw~n~L~ 158 (329)
|..||-.|.+-...+++++|. +...|-..+ . -.|-.|+|+.|++.+.
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~-~Ktkdqvr~~yY~~~~ 144 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQ-SKTKDQVRHYYYRLVR 144 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchh-hhhhHHHHHHHHHHHH
Confidence 567999999999999999996 998883322 2 3456788888876554
No 88
>smart00595 MADF subfamily of SANT domain.
Probab=41.00 E-value=8.7 Score=29.35 Aligned_cols=23 Identities=30% Similarity=0.768 Sum_probs=20.3
Q ss_pred chhhhccccCCccCchhhhhhhccc
Q 020197 132 RWNRLARCAGLKRTGKSCRLRWLNY 156 (329)
Q Consensus 132 ~W~~IA~~~~~~Rt~~qcr~Rw~n~ 156 (329)
-|..||..|+ -+...|+.+|.++
T Consensus 29 aW~~Ia~~l~--~~~~~~~~kw~~L 51 (89)
T smart00595 29 AWEEIAEELG--LSVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHHC--cCHHHHHHHHHHH
Confidence 5999999998 3999999999865
No 89
>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=40.18 E-value=23 Score=31.03 Aligned_cols=41 Identities=22% Similarity=0.115 Sum_probs=34.4
Q ss_pred cccHHHHHHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHH
Q 020197 165 KITLEEQLLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRT 206 (329)
Q Consensus 165 ~WT~eEd~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~ 206 (329)
.||+|+.+.|.++- .-|..=.+||..|.|.|.+.|..+-+.
T Consensus 2 ~Wtde~~~~L~~lw-~~G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHhCCcchhhhhhhhhc
Confidence 59999999988887 558889999999977999998776654
No 90
>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=40.10 E-value=29 Score=30.40 Aligned_cols=40 Identities=20% Similarity=0.170 Sum_probs=30.9
Q ss_pred CCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhc
Q 020197 112 PWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWL 154 (329)
Q Consensus 112 ~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~ 154 (329)
.||+|+.++|.+|-. -|. .=.+||..|| +.+.+.+.-+-+
T Consensus 2 ~Wtde~~~~L~~lw~-~G~-SasqIA~~lg-~vsRnAViGk~h 41 (162)
T PF07750_consen 2 SWTDERVERLRKLWA-EGL-SASQIARQLG-GVSRNAVIGKAH 41 (162)
T ss_pred CCCHHHHHHHHHHHH-cCC-CHHHHHHHhC-Ccchhhhhhhhh
Confidence 499999999999875 454 7899999999 666665555443
No 91
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=38.64 E-value=24 Score=27.78 Aligned_cols=44 Identities=18% Similarity=0.135 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCCcc
Q 020197 116 EEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRPDV 161 (329)
Q Consensus 116 eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~ 161 (329)
+.|..|+.++.+.+...+.+||+.++ -+...|+.|..+..+.++
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 57889999999988779999999997 788889988887766543
No 92
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=36.86 E-value=28 Score=36.54 Aligned_cols=47 Identities=11% Similarity=0.234 Sum_probs=42.9
Q ss_pred cCCccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhc
Q 020197 106 LDMRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWL 154 (329)
Q Consensus 106 ~~~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~ 154 (329)
.....++|+.+|-++........|. +...|+..++ +|+.+|++..|.
T Consensus 405 k~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p-~R~rk~iK~K~~ 451 (584)
T KOG2009|consen 405 KKLETDKWDASETELFYKALSERGS-DFSLISNLFP-LRDRKQIKAKFK 451 (584)
T ss_pred CccccCcccchhhHHhhhHHhhhcc-cccccccccc-cccHHHHHHHHh
Confidence 4567789999999999999999998 9999999999 999999998775
No 93
>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=36.28 E-value=24 Score=23.37 Aligned_cols=30 Identities=23% Similarity=0.273 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHcCCCchhhhccccCCccCc
Q 020197 116 EEDFKLINYIVTHGEGRWNRLARCAGLKRTG 146 (329)
Q Consensus 116 eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~ 146 (329)
-|.+.|.+++.+++ ++..+.|+.+|..|+.
T Consensus 5 ~E~~~i~~aL~~~~-gn~~~aA~~Lgisr~t 34 (42)
T PF02954_consen 5 FEKQLIRQALERCG-GNVSKAARLLGISRRT 34 (42)
T ss_dssp HHHHHHHHHHHHTT-T-HHHHHHHHTS-HHH
T ss_pred HHHHHHHHHHHHhC-CCHHHHHHHHCCCHHH
Confidence 47788999999998 4999999999965543
No 94
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=36.21 E-value=41 Score=24.90 Aligned_cols=44 Identities=16% Similarity=0.187 Sum_probs=28.6
Q ss_pred HHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCCcc-------ccCcccHHHHHHH
Q 020197 118 DFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRPDV-------RLGKITLEEQLLI 174 (329)
Q Consensus 118 D~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~-------k~g~WT~eEd~~L 174 (329)
+.+|.++|..|| |...++.++ =|. .. -+|++ ++.+|-.+.-+.|
T Consensus 12 e~il~~Lv~~yG---W~~L~~~i~-i~C----F~-----~~PsikSSLkFLRkTpWAR~KVE~l 62 (64)
T PF09905_consen 12 ETILTELVEHYG---WEELGERIN-INC----FK-----NNPSIKSSLKFLRKTPWAREKVENL 62 (64)
T ss_dssp HHHHHHHHHHT----HHHHHHHTT-SSS----TT-----SS--HHHHHHHHHHSHHHHHHHHHH
T ss_pred HHHHHHHHHHhC---HHHHHhhcc-ccc----CC-----CCCchHHHHHHHhcCHhHHHHHHHh
Confidence 568999999998 999998887 222 11 23433 5778887766554
No 95
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=35.68 E-value=1e+02 Score=25.19 Aligned_cols=45 Identities=18% Similarity=0.268 Sum_probs=33.5
Q ss_pred ccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhcccc
Q 020197 109 RKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYL 157 (329)
Q Consensus 109 ~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L 157 (329)
++..||.|+-..++..+...|. .=..||+.++. ..+-..+|.+.+
T Consensus 9 ~rr~ys~EfK~~aV~~~~~~g~-sv~evA~e~gI---s~~tl~~W~r~y 53 (121)
T PRK09413 9 KRRRRTTQEKIAIVQQSFEPGM-TVSLVARQHGV---AASQLFLWRKQY 53 (121)
T ss_pred CCCCCCHHHHHHHHHHHHcCCC-CHHHHHHHHCc---CHHHHHHHHHHH
Confidence 3567999998888887777775 78899999984 444556676654
No 96
>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=34.69 E-value=35 Score=25.20 Aligned_cols=31 Identities=19% Similarity=0.520 Sum_probs=23.9
Q ss_pred chhhcccCCC-CCHHHHHHHHHHHHHHHHHhc
Q 020197 185 WSKLAQHLPG-RTDNEIKNYWRTRVQKQAKQL 215 (329)
Q Consensus 185 W~~Ia~~lpg-Rt~~~~k~rw~~~l~~~~kk~ 215 (329)
|..|+..+.. -+...|+.||.++.....+..
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~~y~~~~ 60 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRDRYRREL 60 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHHHHHHHH
Confidence 8999988843 577889999999887665443
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=33.69 E-value=72 Score=25.46 Aligned_cols=38 Identities=21% Similarity=0.252 Sum_probs=28.0
Q ss_pred HHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHHHHHHH
Q 020197 174 ILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTRVQKQA 212 (329)
Q Consensus 174 Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~l~~~~ 212 (329)
++.+.-..|..+.+||+.+ |-+...++.+....+++..
T Consensus 118 ii~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~kl~ 155 (158)
T TIGR02937 118 VLVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKKLR 155 (158)
T ss_pred HHhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 3344434578899999998 7789999888887766543
No 98
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=32.79 E-value=78 Score=27.70 Aligned_cols=43 Identities=19% Similarity=0.204 Sum_probs=33.0
Q ss_pred HHHHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHHHHHHHH
Q 020197 170 EQLLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTRVQKQAK 213 (329)
Q Consensus 170 Ed~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~l~~~~k 213 (329)
++..++++..-.|-.+.+||+.+ |-+...++.+|..+.....+
T Consensus 139 ~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR~~l~~ 181 (185)
T PF07638_consen 139 RQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRARAWLRR 181 (185)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHH
Confidence 44555556556678899999999 99999999999887654443
No 99
>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=32.18 E-value=38 Score=27.67 Aligned_cols=17 Identities=24% Similarity=0.501 Sum_probs=13.0
Q ss_pred CCCHHHHHHHHHHHHHc
Q 020197 112 PWTVEEDFKLINYIVTH 128 (329)
Q Consensus 112 ~WT~eED~~L~~~v~~~ 128 (329)
++|++||-.|...|.+|
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 48999999999999877
No 100
>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=29.86 E-value=81 Score=27.39 Aligned_cols=47 Identities=15% Similarity=0.192 Sum_probs=37.6
Q ss_pred ccCcccHHHHHHHHHHHHhhCCcchhhcccC----CCCCHHHHHHHHHHHH
Q 020197 162 RLGKITLEEQLLILELHSRWGNRWSKLAQHL----PGRTDNEIKNYWRTRV 208 (329)
Q Consensus 162 k~g~WT~eEd~~Ll~~v~~~G~~W~~Ia~~l----pgRt~~~~k~rw~~~l 208 (329)
....-++.|..-|..++.+||..+..++... --.|..||+.+...+.
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 3456789999999999999999999998644 2389999988776553
No 101
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=29.50 E-value=39 Score=28.24 Aligned_cols=46 Identities=13% Similarity=0.053 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHcCCCchhhhccccCCccCchhhhhhhccccCCccc
Q 020197 115 VEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCRLRWLNYLRPDVR 162 (329)
Q Consensus 115 ~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr~Rw~n~L~p~~k 162 (329)
.+-|.+++++.++.+...+.+||+.+| -+...|+.|-.+..+.++-
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~lg--lS~~~v~~Ri~~L~~~GiI 52 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERVG--LSPSTVLRRIKRLEEEGVI 52 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCce
Confidence 356889999999998889999999998 7888899988877766543
No 102
>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=29.07 E-value=72 Score=27.74 Aligned_cols=48 Identities=19% Similarity=0.212 Sum_probs=36.0
Q ss_pred CccCCCCHHHHHHHHHHHHHcCCCchhhhccccC---CccCchhhhhhhccc
Q 020197 108 MRKGPWTVEEDFKLINYIVTHGEGRWNRLARCAG---LKRTGKSCRLRWLNY 156 (329)
Q Consensus 108 ~~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~---~~Rt~~qcr~Rw~n~ 156 (329)
.....-+..|..-|..||.+||. ++..+|.-.- ...|..||+.+...+
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGd-Dy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGD-DYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCc-cHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 34556899999999999999997 9888876432 246777777766544
No 103
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=28.36 E-value=55 Score=32.53 Aligned_cols=41 Identities=12% Similarity=0.119 Sum_probs=35.2
Q ss_pred CCCHHHHHHHHHHHHHcCCCchhhhc-cccCCccCchhhhhhhc
Q 020197 112 PWTVEEDFKLINYIVTHGEGRWNRLA-RCAGLKRTGKSCRLRWL 154 (329)
Q Consensus 112 ~WT~eED~~L~~~v~~~g~~~W~~IA-~~~~~~Rt~~qcr~Rw~ 154 (329)
.|+++|-..+.+.++.||. +...|- ..++ .|+...|.+-|+
T Consensus 279 ~wsEeEcr~FEegl~~yGK-DF~lIr~nkvr-tRsvgElVeyYY 320 (445)
T KOG4329|consen 279 GWSEEECRNFEEGLELYGK-DFHLIRANKVR-TRSVGELVEYYY 320 (445)
T ss_pred cCCHHHHHHHHHHHHHhcc-cHHHHHhcccc-cchHHHHHHHHH
Confidence 5999999999999999996 888884 4577 799988888775
No 104
>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=55 Score=25.40 Aligned_cols=29 Identities=24% Similarity=0.509 Sum_probs=23.5
Q ss_pred HHHHHHHHHhhCCcchhhcccCCCCCHHHH
Q 020197 171 QLLILELHSRWGNRWSKLAQHLPGRTDNEI 200 (329)
Q Consensus 171 d~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~ 200 (329)
|+.|..+....|..|..+|.+| |=+..+|
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 5668888999999999999988 6555554
No 105
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=28.02 E-value=1.2e+02 Score=24.34 Aligned_cols=46 Identities=20% Similarity=0.195 Sum_probs=35.5
Q ss_pred cCcccHHHHHHHHHHHHhhCCcchhhcccCCCC-CHHHHHHHHHHHHH
Q 020197 163 LGKITLEEQLLILELHSRWGNRWSKLAQHLPGR-TDNEIKNYWRTRVQ 209 (329)
Q Consensus 163 ~g~WT~eEd~~Ll~~v~~~G~~W~~Ia~~lpgR-t~~~~k~rw~~~l~ 209 (329)
+..||+|+...+++++.+-|..=..||..+ |- ..++++.++..+.+
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l~~W~~~~~~ 51 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQLYKWRIQLQK 51 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHHHHHHHHHHH
Confidence 568999999999999999888888899998 65 66666554444433
No 106
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=27.25 E-value=1.1e+02 Score=23.93 Aligned_cols=42 Identities=19% Similarity=0.192 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHhhCC-cchhhcccCCCCCHHHHHHHHHHHHHHH
Q 020197 169 EEQLLILELHSRWGN-RWSKLAQHLPGRTDNEIKNYWRTRVQKQ 211 (329)
Q Consensus 169 eEd~~Ll~~v~~~G~-~W~~Ia~~lpgRt~~~~k~rw~~~l~~~ 211 (329)
+.|..|+.+..+.|. .+.+|++.+ |-+...|+.+...+.+..
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 568888888888774 699999999 999999999998887754
No 107
>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=27.01 E-value=1.2e+02 Score=19.46 Aligned_cols=40 Identities=13% Similarity=0.205 Sum_probs=25.7
Q ss_pred ccHHHHHHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHH
Q 020197 166 ITLEEQLLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTR 207 (329)
Q Consensus 166 WT~eEd~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~ 207 (329)
++++ +..++.+.-..|..+.+||+.+ |-+...++.+....
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 4444 4445555545677899999987 67777776655444
No 108
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=26.94 E-value=1.1e+02 Score=25.71 Aligned_cols=41 Identities=10% Similarity=0.081 Sum_probs=30.3
Q ss_pred HHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHHHHHHHH
Q 020197 172 LLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTRVQKQAK 213 (329)
Q Consensus 172 ~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~l~~~~k 213 (329)
..++.+....|-.+..||+.+ |-+...++.+....+++..+
T Consensus 134 r~vl~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~Lr~ 174 (182)
T PRK09652 134 RTAITLREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREALRA 174 (182)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 344445555678899999999 88999998887766665544
No 109
>PRK04217 hypothetical protein; Provisional
Probab=26.72 E-value=1.3e+02 Score=24.65 Aligned_cols=50 Identities=20% Similarity=0.147 Sum_probs=38.2
Q ss_pred CcccHHHHHHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHHHHHHHHhc
Q 020197 164 GKITLEEQLLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTRVQKQAKQL 215 (329)
Q Consensus 164 g~WT~eEd~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~l~~~~kk~ 215 (329)
..-+++| ..++.+....|-...+||+.+ |-+...++.++....++..+..
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkkLre~L 90 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKKVAQML 90 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHHH
Confidence 3456666 567777777788999999999 9999999999887766554443
No 110
>cd00131 PAX Paired Box domain
Probab=25.09 E-value=4e+02 Score=22.07 Aligned_cols=73 Identities=15% Similarity=0.061 Sum_probs=47.7
Q ss_pred ccCCCCHHHHHHHHHHHHHcCCCchhhhccccCCccC-chhhhhhhccc--cCCccccC----cccHHHHHHHHHHHHhh
Q 020197 109 RKGPWTVEEDFKLINYIVTHGEGRWNRLARCAGLKRT-GKSCRLRWLNY--LRPDVRLG----KITLEEQLLILELHSRW 181 (329)
Q Consensus 109 ~kg~WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt-~~qcr~Rw~n~--L~p~~k~g----~WT~eEd~~Ll~~v~~~ 181 (329)
...+.+.++-++++.+++ -|. .-..||+.|+..+. ..-+..||... +.|....| .-+++.+..|+.++.+.
T Consensus 14 m~~~lS~d~R~rIv~~~~-~G~-s~~~iA~~~~Vs~~tV~r~i~r~~e~G~v~pk~~gg~rpr~~~~~~~~~i~~~v~~~ 91 (128)
T cd00131 14 NGRPLPDSIRQRIVELAQ-SGI-RPCDISRQLRVSHGCVSKILNRYYETGSIRPGAIGGSKPRVATPEVVKKIEIYKQEN 91 (128)
T ss_pred CCCcCCHHHHHHHHHHHH-cCC-CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCCCCCCCCCCcCCHHHHHHHHHHHHHC
Confidence 345789999999998875 575 89999999984433 44456666632 44432222 24666667777777665
Q ss_pred CC
Q 020197 182 GN 183 (329)
Q Consensus 182 G~ 183 (329)
+.
T Consensus 92 p~ 93 (128)
T cd00131 92 PG 93 (128)
T ss_pred CC
Confidence 54
No 111
>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=22.91 E-value=52 Score=25.52 Aligned_cols=28 Identities=25% Similarity=0.383 Sum_probs=22.5
Q ss_pred HHHHHHHHHHcCCCchhhhccccCCccCc
Q 020197 118 DFKLINYIVTHGEGRWNRLARCAGLKRTG 146 (329)
Q Consensus 118 D~~L~~~v~~~g~~~W~~IA~~~~~~Rt~ 146 (329)
|+.|..+....|. +|..+|.++|+.-+.
T Consensus 2 ~~~L~~la~~LG~-~W~~Lar~Lgls~~~ 29 (83)
T cd08319 2 DRELNQLAQRLGP-EWEQVLLDLGLSQTD 29 (83)
T ss_pred HHHHHHHHHHHhh-hHHHHHHHcCCCHHH
Confidence 5678888899997 999999999854333
No 112
>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=22.74 E-value=91 Score=24.18 Aligned_cols=29 Identities=24% Similarity=0.457 Sum_probs=23.2
Q ss_pred HHHHHHHHHhhCCcchhhcccCCCCCHHHH
Q 020197 171 QLLILELHSRWGNRWSKLAQHLPGRTDNEI 200 (329)
Q Consensus 171 d~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~ 200 (329)
|..|..+....|..|.++|..| |=+...|
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 5678888899999999999998 5555544
No 113
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=22.43 E-value=1.4e+02 Score=24.65 Aligned_cols=44 Identities=18% Similarity=0.255 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHHHHHHHH
Q 020197 169 EEQLLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTRVQKQAK 213 (329)
Q Consensus 169 eEd~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~l~~~~k 213 (329)
+||..++++.-+..++-+.+++.+ |=+-..+|+|.+.++++.-.
T Consensus 36 ~E~~~Fi~~Fi~~rGnlKe~e~~l-giSYPTvR~rLd~ii~~lg~ 79 (113)
T PF09862_consen 36 PEQLEFIKLFIKNRGNLKEMEKEL-GISYPTVRNRLDKIIEKLGY 79 (113)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHH-CCCcHHHHHHHHHHHHHhCC
Confidence 566667777777778889999998 89999999999999887643
No 114
>PF08870 DUF1832: Domain of unknown function (DUF1832); InterPro: IPR014969 This entry describes the DndE protein encoded by an operon associated with a sulphur-containing modification to DNA []. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndE is a putative carboxylase homologous to NCAIR synthetases.
Probab=21.90 E-value=3.4e+02 Score=22.21 Aligned_cols=98 Identities=18% Similarity=0.119 Sum_probs=61.8
Q ss_pred CCHHHHHHHHHHHHHcCCCchhhhccccCCccCchhhh--hhhccccC--CccccCcccHHHHHHHHHHHHhhCCcchhh
Q 020197 113 WTVEEDFKLINYIVTHGEGRWNRLARCAGLKRTGKSCR--LRWLNYLR--PDVRLGKITLEEQLLILELHSRWGNRWSKL 188 (329)
Q Consensus 113 WT~eED~~L~~~v~~~g~~~W~~IA~~~~~~Rt~~qcr--~Rw~n~L~--p~~k~g~WT~eEd~~Ll~~v~~~G~~W~~I 188 (329)
=|++-++.|.++-.+.|-..|+.+|+.-- .|+-..=. ....-..+ -.+++..|+-|.+.....+++++=+
T Consensus 4 lS~~~~~~L~~Lk~~tgi~~~Nil~R~A~-~~SL~~~~~~~~~~~~~d~g~e~~~~t~~Ge~~~~~~~ll~q~~g----- 77 (113)
T PF08870_consen 4 LSKKAKEQLKKLKRRTGITPWNILCRIAF-CRSLEEPSIPSDEDIKDDSGLELNWKTFTGEYDDIYEALLKQRYG----- 77 (113)
T ss_pred cCHHHHHHHHHHHHhcCCCcccHHHHHHH-HHHHccCCCCCCCccCCCCCeEEeeeeecCchHHHHHHHHHHHhC-----
Confidence 36778889999999999989998887431 12211100 00111111 1235567888877777766655331
Q ss_pred cccCCCCCHHHHHHHHHHHHHHHHHhcccccC
Q 020197 189 AQHLPGRTDNEIKNYWRTRVQKQAKQLKCDVN 220 (329)
Q Consensus 189 a~~lpgRt~~~~k~rw~~~l~~~~kk~~~~~~ 220 (329)
++-++..+...|+-++.+.+.-.....+
T Consensus 78 ----~~~d~~~l~~~~~~Hl~rGi~~L~~~~~ 105 (113)
T PF08870_consen 78 ----PELDDEELPKYFKLHLDRGIEYLSNDKN 105 (113)
T ss_pred ----CCCCHHHHHHHHHHHHHHhHHHHhcccc
Confidence 2468888999999999988877654443
No 115
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=21.41 E-value=1.6e+02 Score=24.65 Aligned_cols=39 Identities=21% Similarity=0.209 Sum_probs=28.3
Q ss_pred HHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHHHHHHHH
Q 020197 174 ILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTRVQKQAK 213 (329)
Q Consensus 174 Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~l~~~~k 213 (329)
++.+....|-.+..||+.+ |-+...|+++....+++..+
T Consensus 133 i~~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~lr~ 171 (179)
T PRK11924 133 VFLLRYVEGLSYREIAEIL-GVPVGTVKSRLRRARQLLRE 171 (179)
T ss_pred HhhHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 3444445677899999999 88899998887776655443
No 116
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=20.91 E-value=1.7e+02 Score=25.48 Aligned_cols=44 Identities=20% Similarity=0.138 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHhhCCcchhhcccCCCCCHHHHHHHHHHHHHHHHH
Q 020197 169 EEQLLILELHSRWGNRWSKLAQHLPGRTDNEIKNYWRTRVQKQAK 213 (329)
Q Consensus 169 eEd~~Ll~~v~~~G~~W~~Ia~~lpgRt~~~~k~rw~~~l~~~~k 213 (329)
+++..++.+.-..|....+||..+ |-+...++.|....+++..+
T Consensus 137 ~~~r~i~~l~~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~~Lr~ 180 (192)
T PRK09643 137 VEQRAALVAVDMQGYSVADAARML-GVAEGTVKSRCARGRARLAE 180 (192)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHH
Confidence 344455555555677899999999 89999999998666555443
No 117
>KOG3650 consensus Predicted coiled-coil protein [General function prediction only]
Probab=20.49 E-value=1.4e+02 Score=24.11 Aligned_cols=52 Identities=17% Similarity=0.020 Sum_probs=27.5
Q ss_pred cccCCccCchhhhhhhccccCCccccCcccHHHHHHHHHHHHhhCCcchhhc
Q 020197 138 RCAGLKRTGKSCRLRWLNYLRPDVRLGKITLEEQLLILELHSRWGNRWSKLA 189 (329)
Q Consensus 138 ~~~~~~Rt~~qcr~Rw~n~L~p~~k~g~WT~eEd~~Ll~~v~~~G~~W~~Ia 189 (329)
..++.|||+++..-.-.+.--+...-..=-+||..+||..|-+..+--..++
T Consensus 25 gr~~~grtprs~~P~~~~~~l~a~e~~~d~~EEKaRlItQVLELQnTLdDLS 76 (120)
T KOG3650|consen 25 GRILYGRTPRSLLPKMMNADLDAVEAENDVEEEKARLITQVLELQNTLDDLS 76 (120)
T ss_pred ccccCCCCccccCcccccccccccccccChHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444478776544332222111122223345888889988888776444443
No 118
>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=20.17 E-value=71 Score=24.78 Aligned_cols=34 Identities=21% Similarity=0.322 Sum_probs=23.8
Q ss_pred HHHHHHHHHHcCCCchhhhccccCCccCc-hhhhhh
Q 020197 118 DFKLINYIVTHGEGRWNRLARCAGLKRTG-KSCRLR 152 (329)
Q Consensus 118 D~~L~~~v~~~g~~~W~~IA~~~~~~Rt~-~qcr~R 152 (329)
|..|..+....|. +|..+|..||..=+. .+|+..
T Consensus 4 d~~l~~ia~~LG~-dW~~LA~eLg~s~~dI~~i~~e 38 (84)
T cd08803 4 DIRMAIVADHLGL-SWTELARELNFSVDEINQIRVE 38 (84)
T ss_pred HHHHHHHHHHhhc-cHHHHHHHcCCCHHHHHHHHHh
Confidence 5677777788897 999999999843333 334443
Done!