Query 023056
Match_columns 288
No_of_seqs 318 out of 1528
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 08:07:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023056.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023056hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03091 hypothetical protein; 100.0 1.3E-37 2.8E-42 296.9 13.2 134 1-134 1-134 (459)
2 PLN03212 Transcription repress 100.0 3.7E-37 8E-42 275.7 11.4 130 2-131 13-142 (249)
3 KOG0048 Transcription factor, 100.0 1.6E-33 3.5E-38 255.5 11.7 116 11-126 6-121 (238)
4 KOG0049 Transcription factor, 99.9 1.7E-22 3.7E-27 199.1 7.0 141 7-147 246-441 (939)
5 KOG0049 Transcription factor, 99.8 1.5E-19 3.2E-24 178.6 7.1 107 1-108 347-454 (939)
6 KOG0048 Transcription factor, 99.7 5.2E-18 1.1E-22 154.1 0.5 100 63-164 5-106 (238)
7 PLN03212 Transcription repress 99.7 2.9E-17 6.3E-22 147.8 3.7 93 63-157 21-115 (249)
8 PF13921 Myb_DNA-bind_6: Myb-l 99.7 9.2E-17 2E-21 115.4 4.9 60 17-78 1-60 (60)
9 PLN03091 hypothetical protein; 99.6 3.7E-16 8.1E-21 150.1 2.8 93 62-156 9-103 (459)
10 COG5147 REB1 Myb superfamily p 99.6 2E-15 4.4E-20 148.9 6.8 113 10-124 16-128 (512)
11 KOG0050 mRNA splicing protein 99.6 1.3E-15 2.8E-20 147.8 3.9 105 12-118 5-109 (617)
12 PF13921 Myb_DNA-bind_6: Myb-l 99.5 4.6E-15 9.9E-20 106.6 2.6 60 70-129 1-60 (60)
13 KOG0051 RNA polymerase I termi 99.4 1.9E-13 4.2E-18 136.3 6.8 108 13-123 383-519 (607)
14 PF00249 Myb_DNA-binding: Myb- 99.4 9.6E-14 2.1E-18 95.7 2.5 48 14-61 1-48 (48)
15 PF00249 Myb_DNA-binding: Myb- 99.4 3.3E-13 7.2E-18 93.0 4.2 46 67-112 1-48 (48)
16 KOG0051 RNA polymerase I termi 99.3 3.8E-12 8.1E-17 127.1 4.8 121 13-135 307-453 (607)
17 smart00717 SANT SANT SWI3, AD 99.2 3.8E-11 8.2E-16 80.9 5.1 47 67-113 1-48 (49)
18 smart00717 SANT SANT SWI3, AD 99.1 1.2E-10 2.6E-15 78.4 3.7 48 14-62 1-48 (49)
19 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 2.9E-10 6.2E-15 75.4 5.1 44 69-112 1-45 (45)
20 cd00167 SANT 'SWI3, ADA2, N-Co 98.9 8.6E-10 1.9E-14 73.1 3.3 45 16-61 1-45 (45)
21 KOG0050 mRNA splicing protein 98.5 6.3E-08 1.4E-12 94.9 2.4 81 65-145 5-86 (617)
22 COG5147 REB1 Myb superfamily p 98.2 5.6E-07 1.2E-11 89.6 2.2 120 14-135 222-360 (512)
23 TIGR01557 myb_SHAQKYF myb-like 97.9 1.2E-05 2.6E-10 57.5 3.9 48 14-61 3-54 (57)
24 KOG0457 Histone acetyltransfer 97.9 9.1E-06 2E-10 78.7 3.3 49 12-61 70-118 (438)
25 TIGR01557 myb_SHAQKYF myb-like 97.7 9.9E-05 2.1E-09 52.8 5.3 46 67-112 3-54 (57)
26 KOG0457 Histone acetyltransfer 97.6 6.6E-05 1.4E-09 72.9 5.0 48 65-112 70-118 (438)
27 PF13325 MCRS_N: N-terminal re 97.4 0.00039 8.4E-09 61.7 6.7 101 16-118 1-132 (199)
28 TIGR02894 DNA_bind_RsfA transc 97.4 0.0002 4.3E-09 61.3 3.9 52 66-118 3-61 (161)
29 PF08914 Myb_DNA-bind_2: Rap1 97.0 0.001 2.2E-08 48.9 3.8 50 67-116 2-61 (65)
30 PF13837 Myb_DNA-bind_4: Myb/S 96.9 0.0008 1.7E-08 51.3 2.9 49 68-116 2-68 (90)
31 PF08914 Myb_DNA-bind_2: Rap1 96.8 0.00095 2.1E-08 49.0 2.5 51 14-64 2-60 (65)
32 KOG1279 Chromatin remodeling f 96.8 0.0017 3.8E-08 65.0 4.9 46 66-111 252-297 (506)
33 COG5259 RSC8 RSC chromatin rem 96.7 0.00088 1.9E-08 65.7 2.5 46 13-60 278-323 (531)
34 COG5259 RSC8 RSC chromatin rem 96.7 0.0015 3.3E-08 64.1 3.8 44 68-111 280-323 (531)
35 KOG1279 Chromatin remodeling f 96.6 0.0014 3E-08 65.7 3.0 46 13-60 252-297 (506)
36 TIGR02894 DNA_bind_RsfA transc 96.6 0.0011 2.4E-08 56.7 1.9 50 12-63 2-57 (161)
37 PRK13923 putative spore coat p 96.2 0.0042 9E-08 53.9 3.4 52 66-118 4-62 (170)
38 PF13837 Myb_DNA-bind_4: Myb/S 96.1 0.0027 5.9E-08 48.3 1.7 47 15-61 2-64 (90)
39 COG5114 Histone acetyltransfer 95.9 0.0036 7.8E-08 59.0 1.8 48 14-62 63-110 (432)
40 PF13873 Myb_DNA-bind_5: Myb/S 95.9 0.013 2.9E-07 43.7 4.3 48 67-114 2-71 (78)
41 COG5114 Histone acetyltransfer 95.8 0.0081 1.8E-07 56.6 3.5 47 67-113 63-110 (432)
42 PF13873 Myb_DNA-bind_5: Myb/S 95.7 0.012 2.6E-07 44.0 3.5 49 13-61 1-69 (78)
43 PRK13923 putative spore coat p 95.5 0.0058 1.3E-07 53.0 1.3 49 12-62 3-57 (170)
44 PLN03142 Probable chromatin-re 95.5 0.039 8.4E-07 60.0 7.8 100 15-115 825-987 (1033)
45 KOG2656 DNA methyltransferase 93.6 0.11 2.3E-06 50.4 4.9 53 68-120 131-189 (445)
46 PF09111 SLIDE: SLIDE; InterP 92.6 0.19 4.2E-06 41.1 4.4 34 11-44 46-82 (118)
47 COG5118 BDP1 Transcription ini 92.2 0.19 4E-06 48.7 4.3 43 68-110 366-408 (507)
48 PF12776 Myb_DNA-bind_3: Myb/S 88.9 0.84 1.8E-05 34.9 4.7 45 69-113 1-63 (96)
49 KOG4282 Transcription factor G 88.6 0.61 1.3E-05 44.5 4.6 49 68-116 55-117 (345)
50 KOG1194 Predicted DNA-binding 87.6 1.8 3.8E-05 43.1 6.9 48 67-114 187-234 (534)
51 PF11626 Rap1_C: TRF2-interact 82.7 0.91 2E-05 34.9 2.1 28 12-42 45-80 (87)
52 PF08281 Sigma70_r4_2: Sigma-7 81.0 3.2 7E-05 28.2 4.2 41 72-113 12-52 (54)
53 KOG4282 Transcription factor G 80.7 1.2 2.7E-05 42.4 2.7 47 15-61 55-113 (345)
54 COG5118 BDP1 Transcription ini 79.9 1.4 2.9E-05 42.9 2.6 45 14-60 365-409 (507)
55 KOG4167 Predicted DNA-binding 79.8 2.6 5.6E-05 44.2 4.7 46 67-112 619-664 (907)
56 PF12776 Myb_DNA-bind_3: Myb/S 78.3 2.4 5.3E-05 32.3 3.2 45 16-60 1-61 (96)
57 smart00595 MADF subfamily of S 77.1 2.3 4.9E-05 32.1 2.6 24 89-113 30-53 (89)
58 PF09111 SLIDE: SLIDE; InterP 72.8 4 8.8E-05 33.4 3.2 51 64-114 46-112 (118)
59 PF13404 HTH_AsnC-type: AsnC-t 71.8 3.2 6.9E-05 27.6 2.0 38 20-59 3-40 (42)
60 PF11626 Rap1_C: TRF2-interact 71.4 3.9 8.4E-05 31.4 2.7 17 63-79 43-59 (87)
61 KOG4468 Polycomb-group transcr 70.9 8.6 0.00019 39.6 5.6 53 66-118 87-149 (782)
62 KOG4329 DNA-binding protein [G 70.6 7.3 0.00016 37.9 4.8 44 68-111 278-322 (445)
63 KOG0384 Chromodomain-helicase 70.1 4.8 0.0001 44.6 3.8 77 13-96 1132-1209(1373)
64 KOG2656 DNA methyltransferase 69.5 3.9 8.5E-05 39.9 2.8 50 10-60 126-180 (445)
65 PRK11179 DNA-binding transcrip 68.9 6.1 0.00013 33.2 3.6 46 72-118 8-54 (153)
66 PF13404 HTH_AsnC-type: AsnC-t 65.9 11 0.00024 25.0 3.6 38 73-111 3-41 (42)
67 KOG4167 Predicted DNA-binding 64.5 5 0.00011 42.2 2.6 44 14-59 619-662 (907)
68 PF13325 MCRS_N: N-terminal re 64.0 14 0.00029 33.1 4.9 44 69-113 1-47 (199)
69 PRK11169 leucine-responsive tr 61.3 8.4 0.00018 32.8 3.1 46 72-118 13-59 (164)
70 KOG2009 Transcription initiati 61.1 11 0.00024 38.8 4.2 45 66-110 408-452 (584)
71 KOG4468 Polycomb-group transcr 60.1 14 0.0003 38.2 4.7 47 14-62 88-144 (782)
72 PRK11179 DNA-binding transcrip 59.8 6.8 0.00015 32.9 2.2 45 19-65 8-52 (153)
73 PF04545 Sigma70_r4: Sigma-70, 59.4 17 0.00037 24.3 3.8 41 73-114 7-47 (50)
74 PRK11169 leucine-responsive tr 57.2 6.2 0.00013 33.6 1.5 45 19-65 13-57 (164)
75 PF11035 SnAPC_2_like: Small n 55.6 40 0.00087 32.3 6.7 87 13-113 20-127 (344)
76 PLN03142 Probable chromatin-re 48.9 14 0.00031 40.7 3.0 32 13-44 925-956 (1033)
77 cd08319 Death_RAIDD Death doma 48.8 19 0.00041 27.6 2.9 30 75-105 2-31 (83)
78 smart00344 HTH_ASNC helix_turn 46.6 30 0.00065 26.7 3.8 45 73-118 3-48 (108)
79 PRK09413 IS2 repressor TnpA; R 45.5 53 0.0011 26.4 5.2 45 13-61 9-53 (121)
80 PF11035 SnAPC_2_like: Small n 45.1 68 0.0015 30.8 6.4 45 67-111 21-69 (344)
81 TIGR02985 Sig70_bacteroi1 RNA 42.6 44 0.00095 26.9 4.4 28 84-112 127-154 (161)
82 PF09420 Nop16: Ribosome bioge 42.3 53 0.0011 28.1 5.0 47 66-112 113-163 (164)
83 smart00501 BRIGHT BRIGHT, ARID 40.9 31 0.00067 26.3 3.0 38 77-114 36-86 (93)
84 cd08803 Death_ank3 Death domai 39.9 36 0.00078 26.0 3.2 31 75-106 4-34 (84)
85 PF01388 ARID: ARID/BRIGHT DNA 39.4 47 0.001 25.0 3.8 38 77-114 40-90 (92)
86 PF07750 GcrA: GcrA cell cycle 39.3 28 0.00061 29.9 2.8 40 69-109 2-41 (162)
87 KOG1194 Predicted DNA-binding 39.0 28 0.0006 34.9 3.0 45 13-59 186-230 (534)
88 PF10440 WIYLD: Ubiquitin-bind 37.8 22 0.00048 26.1 1.7 18 77-94 31-48 (65)
89 KOG3554 Histone deacetylase co 34.5 41 0.0009 33.9 3.4 42 68-109 286-328 (693)
90 PF02954 HTH_8: Bacterial regu 34.3 58 0.0013 21.1 3.1 35 73-108 5-39 (42)
91 PF10545 MADF_DNA_bdg: Alcohol 33.9 30 0.00065 25.0 1.9 26 88-113 28-54 (85)
92 cd08317 Death_ank Death domain 32.9 38 0.00082 25.5 2.3 30 75-105 4-33 (84)
93 PRK09645 RNA polymerase sigma 32.6 91 0.002 25.8 4.9 27 85-112 133-159 (173)
94 PF04504 DUF573: Protein of un 32.3 80 0.0017 24.7 4.2 19 14-32 4-22 (98)
95 PF09197 Rap1-DNA-bind: Rap1, 32.3 39 0.00084 27.2 2.3 17 16-32 1-17 (105)
96 PF09905 DUF2132: Uncharacteri 32.0 30 0.00065 25.3 1.5 44 22-78 12-62 (64)
97 PF07750 GcrA: GcrA cell cycle 31.9 31 0.00068 29.6 1.9 29 16-46 2-30 (162)
98 cd06171 Sigma70_r4 Sigma70, re 31.7 97 0.0021 19.5 4.0 40 70-111 11-50 (55)
99 cd08311 Death_p75NR Death doma 31.4 40 0.00088 25.3 2.2 33 72-106 2-34 (77)
100 COG1522 Lrp Transcriptional re 31.0 68 0.0015 26.2 3.8 47 72-119 7-54 (154)
101 PF04504 DUF573: Protein of un 31.0 66 0.0014 25.2 3.5 47 68-114 5-64 (98)
102 TIGR02937 sigma70-ECF RNA poly 30.9 76 0.0017 24.7 4.0 33 80-113 120-152 (158)
103 cd08804 Death_ank2 Death domai 30.7 51 0.0011 25.1 2.7 31 75-106 4-34 (84)
104 PF07638 Sigma70_ECF: ECF sigm 30.1 70 0.0015 27.4 3.9 36 76-112 141-176 (185)
105 cd08318 Death_NMPP84 Death dom 29.8 55 0.0012 24.9 2.8 27 78-105 10-36 (86)
106 cd08777 Death_RIP1 Death Domai 29.3 51 0.0011 25.2 2.5 30 76-106 3-32 (86)
107 COG1522 Lrp Transcriptional re 29.2 38 0.00081 27.8 1.9 45 19-65 7-51 (154)
108 smart00005 DEATH DEATH domain, 28.7 54 0.0012 24.2 2.6 31 74-105 4-35 (88)
109 PRK09652 RNA polymerase sigma 27.6 94 0.002 25.6 4.1 28 84-112 142-169 (182)
110 smart00344 HTH_ASNC helix_turn 27.4 56 0.0012 25.1 2.5 43 20-64 3-45 (108)
111 PRK11924 RNA polymerase sigma 26.4 99 0.0021 25.4 4.0 27 85-112 140-166 (179)
112 KOG2009 Transcription initiati 25.7 66 0.0014 33.3 3.2 47 11-59 406-452 (584)
113 PRK09643 RNA polymerase sigma 24.8 1.1E+02 0.0025 26.1 4.2 27 85-112 149-175 (192)
114 PRK04217 hypothetical protein; 24.6 1.3E+02 0.0028 24.2 4.2 43 68-112 41-83 (110)
115 cd08805 Death_ank1 Death domai 24.2 74 0.0016 24.3 2.6 28 75-103 4-31 (84)
116 KOG4329 DNA-binding protein [G 23.4 68 0.0015 31.4 2.7 42 15-58 278-320 (445)
117 KOG0384 Chromodomain-helicase 23.3 47 0.001 37.3 1.8 25 69-93 1135-1160(1373)
118 PRK09641 RNA polymerase sigma 22.6 1.3E+02 0.0028 25.1 4.1 27 85-112 151-177 (187)
119 cd08779 Death_PIDD Death Domai 22.3 84 0.0018 23.9 2.6 27 76-103 3-29 (86)
120 PRK12523 RNA polymerase sigma 21.7 1.5E+02 0.0033 24.6 4.4 30 84-114 133-162 (172)
121 PRK09637 RNA polymerase sigma 20.9 1.5E+02 0.0033 25.1 4.2 27 85-112 121-147 (181)
122 PF09420 Nop16: Ribosome bioge 20.4 1E+02 0.0022 26.3 3.0 48 12-60 112-162 (164)
123 TIGR02954 Sig70_famx3 RNA poly 20.1 1.6E+02 0.0034 24.3 4.1 27 86-113 135-161 (169)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=1.3e-37 Score=296.87 Aligned_cols=134 Identities=63% Similarity=1.237 Sum_probs=129.4
Q ss_pred CCCCCcCcCCCCCCCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhcCCCCCCCCCChHHHHHHHH
Q 023056 1 MGRSPCCEKAHTNKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYLRPDLKRGNFTDEEDELIIK 80 (288)
Q Consensus 1 m~r~~~~~K~~~~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~~krg~WT~eED~~L~~ 80 (288)
|||++||.|..++||+||+|||++|+++|.+||..+|..||+.++.+|+++|||+||.++|+|.+++++||+|||++|++
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999755999999999999999999999999999999999
Q ss_pred HHHHhcCchhhhhccCCCCCHHHHHHHHHHhhhhHhhcCCCCCCCCcchhhhhh
Q 023056 81 LHSLLGNKWSLIAGRLPGRTDNEIKNYWNTHIKRKLLNRGLDPQTHRPLNQIHN 134 (288)
Q Consensus 81 lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~l~~~~~~~~~~~~ed~~L~~~~~ 134 (288)
++.+||++|..||..|||||+++||+||+.+|++++..+++.+.++.+|.++..
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~kpl~e~E~ 134 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPLSEVEN 134 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCCCCcccccc
Confidence 999999999999999999999999999999999999999999999999987644
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=3.7e-37 Score=275.75 Aligned_cols=130 Identities=66% Similarity=1.329 Sum_probs=124.4
Q ss_pred CCCCcCcCCCCCCCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhcCCCCCCCCCChHHHHHHHHH
Q 023056 2 GRSPCCEKAHTNKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYLRPDLKRGNFTDEEDELIIKL 81 (288)
Q Consensus 2 ~r~~~~~K~~~~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~~krg~WT~eED~~L~~l 81 (288)
.|+|||.|+++++++||+|||++|+++|++||..+|..||+.++.+|+++|||+||.++|+|.+++++||+|||++|+++
T Consensus 13 ~~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel 92 (249)
T PLN03212 13 KTTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRL 92 (249)
T ss_pred CCCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHH
Confidence 37899999999999999999999999999999999999999996459999999999999999999999999999999999
Q ss_pred HHHhcCchhhhhccCCCCCHHHHHHHHHHhhhhHhhcCCCCCCCCcchhh
Q 023056 82 HSLLGNKWSLIAGRLPGRTDNEIKNYWNTHIKRKLLNRGLDPQTHRPLNQ 131 (288)
Q Consensus 82 v~~~G~~W~~IA~~lpgRT~~qck~Rw~~~l~~~~~~~~~~~~ed~~L~~ 131 (288)
+..||++|+.||..|||||+++||+||+.++++++...+..++++.++..
T Consensus 93 ~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~~~kp~~~ 142 (249)
T PLN03212 93 HRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTHKPLDA 142 (249)
T ss_pred HHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCCCCCCCCc
Confidence 99999999999999999999999999999999999999999999888643
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=1.6e-33 Score=255.53 Aligned_cols=116 Identities=70% Similarity=1.215 Sum_probs=108.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhcCCCCCCCCCChHHHHHHHHHHHHhcCchh
Q 023056 11 HTNKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYLRPDLKRGNFTDEEDELIIKLHSLLGNKWS 90 (288)
Q Consensus 11 ~~~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~~krg~WT~eED~~L~~lv~~~G~~W~ 90 (288)
.+.||+||+|||++|+++|..||.++|..||+.+|..|++++||.||.|||+|++++|.||+|||++|++||..+|++|+
T Consensus 6 ~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrWs 85 (238)
T KOG0048|consen 6 ELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRWS 85 (238)
T ss_pred cccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHHH
Confidence 34489999999999999999999999999999999559999999999999999999999999999999999999999999
Q ss_pred hhhccCCCCCHHHHHHHHHHhhhhHhhcCCCCCCCC
Q 023056 91 LIAGRLPGRTDNEIKNYWNTHIKRKLLNRGLDPQTH 126 (288)
Q Consensus 91 ~IA~~lpgRT~~qck~Rw~~~l~~~~~~~~~~~~ed 126 (288)
.||++|||||++.||++|+++|++++...+.++.+.
T Consensus 86 ~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~~~~~~~ 121 (238)
T KOG0048|consen 86 LIAGRLPGRTDNEVKNHWNTHLKKKLLKMGIDPSTH 121 (238)
T ss_pred HHHhhCCCcCHHHHHHHHHHHHHHHHHHcCCCCCcc
Confidence 999999999999999999999999998877444443
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.86 E-value=1.7e-22 Score=199.11 Aligned_cols=141 Identities=21% Similarity=0.307 Sum_probs=129.5
Q ss_pred CcCCCCCCCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhh-------------------------------
Q 023056 7 CEKAHTNKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRL------------------------------- 55 (288)
Q Consensus 7 ~~K~~~~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~------------------------------- 55 (288)
.+.|.++|..|+.|||++|..+...++..+|..||..+|++|+..||..
T Consensus 246 ~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~~~~ 325 (939)
T KOG0049|consen 246 ELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKITSI 325 (939)
T ss_pred hcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHhhc
Confidence 3578889999999999999999988888888888888888888888876
Q ss_pred -----------------------hhhhhcCCCCCCCCCChHHHHHHHHHHHHhc-CchhhhhccCCCCCHHHHHHHHHHh
Q 023056 56 -----------------------RWINYLRPDLKRGNFTDEEDELIIKLHSLLG-NKWSLIAGRLPGRTDNEIKNYWNTH 111 (288)
Q Consensus 56 -----------------------Rw~~~L~p~~krg~WT~eED~~L~~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~ 111 (288)
||...|+|.+++|+||.+||.+|+.+|.+|| ..|.+|-..+|||++.|||.||.+.
T Consensus 326 nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nv 405 (939)
T KOG0049|consen 326 NSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNV 405 (939)
T ss_pred cCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHH
Confidence 6677789999999999999999999999999 6799999999999999999999999
Q ss_pred hhhHhhcCCCCCCCCcchhhhhhccCCCcccccCCC
Q 023056 112 IKRKLLNRGLDPQTHRPLNQIHNHNNFNKYTINNNE 147 (288)
Q Consensus 112 l~~~~~~~~~~~~ed~~L~~~~~~~~~~~~~~~~~~ 147 (288)
|...++.+.|+-.||..|+.++..||.+.|...+..
T Consensus 406 L~~s~K~~rW~l~edeqL~~~V~~YG~g~WakcA~~ 441 (939)
T KOG0049|consen 406 LNRSAKVERWTLVEDEQLLYAVKVYGKGNWAKCAML 441 (939)
T ss_pred HHHhhccCceeecchHHHHHHHHHHccchHHHHHHH
Confidence 999999999999999999999999999999887764
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.78 E-value=1.5e-19 Score=178.59 Aligned_cols=107 Identities=25% Similarity=0.411 Sum_probs=101.1
Q ss_pred CCCCCcCcCCCCCCCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhcCCCCCCCCCChHHHHHHHH
Q 023056 1 MGRSPCCEKAHTNKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYLRPDLKRGNFTDEEDELIIK 80 (288)
Q Consensus 1 m~r~~~~~K~~~~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~~krg~WT~eED~~L~~ 80 (288)
|||..-...|++++|.||++||.+|+.+|.+||.++|.+|-..+|+ |+..|||+||.|.|+...|.+.||-.||+.|+.
T Consensus 347 I~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPn-RSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~ 425 (939)
T KOG0049|consen 347 ITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPN-RSDSQCRERYTNVLNRSAKVERWTLVEDEQLLY 425 (939)
T ss_pred hhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCC-ccHHHHHHHHHHHHHHhhccCceeecchHHHHH
Confidence 5788888999999999999999999999999999999999999998 999999999999999999999999999999999
Q ss_pred HHHHhc-CchhhhhccCCCCCHHHHHHHH
Q 023056 81 LHSLLG-NKWSLIAGRLPGRTDNEIKNYW 108 (288)
Q Consensus 81 lv~~~G-~~W~~IA~~lpgRT~~qck~Rw 108 (288)
+|..|| ++|.+||..||+||..|...|=
T Consensus 426 ~V~~YG~g~WakcA~~Lp~~t~~q~~rrR 454 (939)
T KOG0049|consen 426 AVKVYGKGNWAKCAMLLPKKTSRQLRRRR 454 (939)
T ss_pred HHHHHccchHHHHHHHccccchhHHHHHH
Confidence 999999 8999999999999996654443
No 6
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.68 E-value=5.2e-18 Score=154.10 Aligned_cols=100 Identities=14% Similarity=0.175 Sum_probs=90.0
Q ss_pred CCCCCCCCChHHHHHHHHHHHHhc-CchhhhhccCC-CCCHHHHHHHHHHhhhhHhhcCCCCCCCCcchhhhhhccCCCc
Q 023056 63 PDLKRGNFTDEEDELIIKLHSLLG-NKWSLIAGRLP-GRTDNEIKNYWNTHIKRKLLNRGLDPQTHRPLNQIHNHNNFNK 140 (288)
Q Consensus 63 p~~krg~WT~eED~~L~~lv~~~G-~~W~~IA~~lp-gRT~~qck~Rw~~~l~~~~~~~~~~~~ed~~L~~~~~~~~~~~ 140 (288)
+.+.+|+||+|||++|+++|.+|| ++|..|++.++ +|++++||-||.++|+|.++++.|+++|+..|++++..+|..+
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrW 84 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRW 84 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHH
Confidence 345579999999999999999999 88999999998 9999999999999999999999999999999999999998775
Q ss_pred ccccCCCCCCCCCCCCCCCCCCCC
Q 023056 141 YTINNNEGIIQPKNLIKPKSESSF 164 (288)
Q Consensus 141 ~~~~~~~~~~~~~~~~~~~~~~~~ 164 (288)
..++ .. +|+++++.+++|+.+.
T Consensus 85 s~IA-~~-LPGRTDNeIKN~Wnt~ 106 (238)
T KOG0048|consen 85 SLIA-GR-LPGRTDNEVKNHWNTH 106 (238)
T ss_pred HHHH-hh-CCCcCHHHHHHHHHHH
Confidence 4444 44 8999999998888554
No 7
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.66 E-value=2.9e-17 Score=147.78 Aligned_cols=93 Identities=17% Similarity=0.305 Sum_probs=81.9
Q ss_pred CCCCCCCCChHHHHHHHHHHHHhc-CchhhhhccC-CCCCHHHHHHHHHHhhhhHhhcCCCCCCCCcchhhhhhccCCCc
Q 023056 63 PDLKRGNFTDEEDELIIKLHSLLG-NKWSLIAGRL-PGRTDNEIKNYWNTHIKRKLLNRGLDPQTHRPLNQIHNHNNFNK 140 (288)
Q Consensus 63 p~~krg~WT~eED~~L~~lv~~~G-~~W~~IA~~l-pgRT~~qck~Rw~~~l~~~~~~~~~~~~ed~~L~~~~~~~~~~~ 140 (288)
+.+++++||+|||++|+++|++|| ++|..||+.+ ++||+.||+.||.++|++.+.+++|+.+||..|++++..+|..
T Consensus 21 ~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~GnK- 99 (249)
T PLN03212 21 MGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNR- 99 (249)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhcccc-
Confidence 478999999999999999999999 7899999998 6999999999999999999999999999999999999999865
Q ss_pred ccccCCCCCCCCCCCCC
Q 023056 141 YTINNNEGIIQPKNLIK 157 (288)
Q Consensus 141 ~~~~~~~~~~~~~~~~~ 157 (288)
|..++.. +++++.+.+
T Consensus 100 Ws~IAk~-LpGRTDnqI 115 (249)
T PLN03212 100 WSLIAGR-IPGRTDNEI 115 (249)
T ss_pred HHHHHhh-cCCCCHHHH
Confidence 5554443 566665544
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=99.66 E-value=9.2e-17 Score=115.41 Aligned_cols=60 Identities=43% Similarity=0.882 Sum_probs=54.9
Q ss_pred CCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhcCCCCCCCCCChHHHHHH
Q 023056 17 WTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYLRPDLKRGNFTDEEDELI 78 (288)
Q Consensus 17 WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~~krg~WT~eED~~L 78 (288)
||+|||++|+.+|..|| .+|..||+.||. |+..+|+.||.++|.|.+++++||++||++|
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~l~~-Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEHLGN-RTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHHSTT-S-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHHHCc-CCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 99999999999999999 579999999976 9999999999999999999999999999987
No 9
>PLN03091 hypothetical protein; Provisional
Probab=99.59 E-value=3.7e-16 Score=150.14 Aligned_cols=93 Identities=16% Similarity=0.263 Sum_probs=80.4
Q ss_pred CCCCCCCCCChHHHHHHHHHHHHhc-CchhhhhccC-CCCCHHHHHHHHHHhhhhHhhcCCCCCCCCcchhhhhhccCCC
Q 023056 62 RPDLKRGNFTDEEDELIIKLHSLLG-NKWSLIAGRL-PGRTDNEIKNYWNTHIKRKLLNRGLDPQTHRPLNQIHNHNNFN 139 (288)
Q Consensus 62 ~p~~krg~WT~eED~~L~~lv~~~G-~~W~~IA~~l-pgRT~~qck~Rw~~~l~~~~~~~~~~~~ed~~L~~~~~~~~~~ 139 (288)
...+++++||+|||++|+++|.+|| ++|..||+.+ +||+++|||.||.++|++.+.+++|+++||..|++++..+|..
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnK 88 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcc
Confidence 3578899999999999999999999 7899999988 5999999999999999999999999999999999999999875
Q ss_pred cccccCCCCCCCCCCCC
Q 023056 140 KYTINNNEGIIQPKNLI 156 (288)
Q Consensus 140 ~~~~~~~~~~~~~~~~~ 156 (288)
+..++ .. ++++....
T Consensus 89 WskIA-k~-LPGRTDnq 103 (459)
T PLN03091 89 WSQIA-AQ-LPGRTDNE 103 (459)
T ss_pred hHHHH-Hh-cCCCCHHH
Confidence 44444 33 45554443
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=99.58 E-value=2e-15 Score=148.86 Aligned_cols=113 Identities=27% Similarity=0.469 Sum_probs=104.6
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhcCCCCCCCCCChHHHHHHHHHHHHhcCch
Q 023056 10 AHTNKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYLRPDLKRGNFTDEEDELIIKLHSLLGNKW 89 (288)
Q Consensus 10 ~~~~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~~krg~WT~eED~~L~~lv~~~G~~W 89 (288)
-+.+.|.|+..||+.|..+|+.+|.++|..||..+.. |++++|+.||+++++|.++++.|+.+||..|+.+..++|..|
T Consensus 16 ~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~-~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~w 94 (512)
T COG5147 16 TKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLIS-STGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQW 94 (512)
T ss_pred ceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcc-cccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCchh
Confidence 4567899999999999999999999999999999998 999999999999999999999999999999999999999999
Q ss_pred hhhhccCCCCCHHHHHHHHHHhhhhHhhcCCCCCC
Q 023056 90 SLIAGRLPGRTDNEIKNYWNTHIKRKLLNRGLDPQ 124 (288)
Q Consensus 90 ~~IA~~lpgRT~~qck~Rw~~~l~~~~~~~~~~~~ 124 (288)
+.||..+++|++.+|.+||...+..... ..|+..
T Consensus 95 stia~~~d~rt~~~~~ery~~~~~~~~s-~~~s~~ 128 (512)
T COG5147 95 STIADYKDRRTAQQCVERYVNTLEDLSS-THDSKL 128 (512)
T ss_pred hhhccccCccchHHHHHHHHHHhhhhhc-cccccc
Confidence 9999999999999999999998876665 444433
No 11
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.56 E-value=1.3e-15 Score=147.82 Aligned_cols=105 Identities=25% Similarity=0.540 Sum_probs=99.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhcCCCCCCCCCChHHHHHHHHHHHHhcCchhh
Q 023056 12 TNKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYLRPDLKRGNFTDEEDELIIKLHSLLGNKWSL 91 (288)
Q Consensus 12 ~~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~~krg~WT~eED~~L~~lv~~~G~~W~~ 91 (288)
++.|.|+.-||+.|..+|.+||.+.|.+|++.+.. .+++||+.||..+|+|.+++..|+.+||++|+.+.......|..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~-kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrt 83 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNR-KTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRT 83 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhh-cchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccch
Confidence 46789999999999999999999999999999997 99999999999999999999999999999999999999999999
Q ss_pred hhccCCCCCHHHHHHHHHHhhhhHhhc
Q 023056 92 IAGRLPGRTDNEIKNYWNTHIKRKLLN 118 (288)
Q Consensus 92 IA~~lpgRT~~qck~Rw~~~l~~~~~~ 118 (288)
|+..| ||++.||-.||++++......
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s~ 109 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVSY 109 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHhh
Confidence 99999 999999999999998776544
No 12
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.52 E-value=4.6e-15 Score=106.55 Aligned_cols=60 Identities=33% Similarity=0.612 Sum_probs=53.8
Q ss_pred CChHHHHHHHHHHHHhcCchhhhhccCCCCCHHHHHHHHHHhhhhHhhcCCCCCCCCcch
Q 023056 70 FTDEEDELIIKLHSLLGNKWSLIAGRLPGRTDNEIKNYWNTHIKRKLLNRGLDPQTHRPL 129 (288)
Q Consensus 70 WT~eED~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~l~~~~~~~~~~~~ed~~L 129 (288)
||+|||++|+.+|..||++|..||..|+.||..+|++||+.+|++.+.+++|+++|+..|
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999999999999999669999999999999999999999999988654
No 13
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.42 E-value=1.9e-13 Score=136.28 Aligned_cols=108 Identities=29% Similarity=0.566 Sum_probs=95.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhcCCCC--CCCCCChHHHHHHHHHHH-------
Q 023056 13 NKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYLRPDL--KRGNFTDEEDELIIKLHS------- 83 (288)
Q Consensus 13 ~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~~--krg~WT~eED~~L~~lv~------- 83 (288)
.+|+||+||++.|..+|..+| ++|..|+++|+ |.+..|++||.++....- +++.||.||.++|+.+|+
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g-~~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~ 459 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHG-NDWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREAL 459 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhc-ccHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhh
Confidence 799999999999999999999 56999999999 999999999999998874 899999999999999995
Q ss_pred Hh-------------------cCchhhhhccCCCCCHHHHHHHHHHhhhhHhhc-CCCCC
Q 023056 84 LL-------------------GNKWSLIAGRLPGRTDNEIKNYWNTHIKRKLLN-RGLDP 123 (288)
Q Consensus 84 ~~-------------------G~~W~~IA~~lpgRT~~qck~Rw~~~l~~~~~~-~~~~~ 123 (288)
.+ +-+|+.|+..+..|+..||+.+|+.++...... +.|..
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~~~~~ 519 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKRQESK 519 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhcccccc
Confidence 22 125999999989999999999999988766544 55554
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=99.41 E-value=9.6e-14 Score=95.67 Aligned_cols=48 Identities=35% Similarity=0.756 Sum_probs=42.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhc
Q 023056 14 KGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYL 61 (288)
Q Consensus 14 kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L 61 (288)
|++||+|||++|+++|..||.++|..||..|+++||+.||+.||.++|
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 689999999999999999998889999999993399999999999875
No 15
>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=99.39 E-value=3.3e-13 Score=92.96 Aligned_cols=46 Identities=35% Similarity=0.707 Sum_probs=41.6
Q ss_pred CCCCChHHHHHHHHHHHHhcCc-hhhhhccCC-CCCHHHHHHHHHHhh
Q 023056 67 RGNFTDEEDELIIKLHSLLGNK-WSLIAGRLP-GRTDNEIKNYWNTHI 112 (288)
Q Consensus 67 rg~WT~eED~~L~~lv~~~G~~-W~~IA~~lp-gRT~~qck~Rw~~~l 112 (288)
+++||+|||++|+++|.+||.+ |..||..|| +||..||++||++++
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 5799999999999999999977 999999999 999999999999874
No 16
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.26 E-value=3.8e-12 Score=127.14 Aligned_cols=121 Identities=26% Similarity=0.311 Sum_probs=103.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC-----------------------CCcccccchhcCccchhhhhhhhhhhcCCCC-CCC
Q 023056 13 NKGAWTKEEDQRLIDYIRAHGE-----------------------GCWRSLPKAAGLLRCGKSCRLRWINYLRPDL-KRG 68 (288)
Q Consensus 13 ~kg~WT~eED~~L~~~V~~~g~-----------------------~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~~-krg 68 (288)
+-+.|+++||..|-..|..|-. +-|..|.+.||. |+...++.+-++.-.|-- ++|
T Consensus 307 ~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp~-R~~~siy~~~rR~y~~FE~~rg 385 (607)
T KOG0051|consen 307 NLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLPY-RDRKSIYHHLRRAYTPFENKRG 385 (607)
T ss_pred hhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcCc-ccchhHHHHHHhcCCccccccC
Confidence 4489999999999999988721 116778888998 999998884444444433 999
Q ss_pred CCChHHHHHHHHHHHHhcCchhhhhccCCCCCHHHHHHHHHHhhhhH--hhcCCCCCCCCcchhhhhhc
Q 023056 69 NFTDEEDELIIKLHSLLGNKWSLIAGRLPGRTDNEIKNYWNTHIKRK--LLNRGLDPQTHRPLNQIHNH 135 (288)
Q Consensus 69 ~WT~eED~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~l~~~--~~~~~~~~~ed~~L~~~~~~ 135 (288)
.||+||++.|..+|.++|+.|..|+..| ||.+..|++||+.+.... ...+.|+.+|...|+++|++
T Consensus 386 ~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~ 453 (607)
T KOG0051|consen 386 KWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNE 453 (607)
T ss_pred CCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHH
Confidence 9999999999999999999999999999 999999999999999877 48889999999999999863
No 17
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.18 E-value=3.8e-11 Score=80.86 Aligned_cols=47 Identities=47% Similarity=0.898 Sum_probs=44.2
Q ss_pred CCCCChHHHHHHHHHHHHhc-CchhhhhccCCCCCHHHHHHHHHHhhh
Q 023056 67 RGNFTDEEDELIIKLHSLLG-NKWSLIAGRLPGRTDNEIKNYWNTHIK 113 (288)
Q Consensus 67 rg~WT~eED~~L~~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~l~ 113 (288)
+++||++||.+|+.++..|| .+|..||..|++||+.+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998764
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.07 E-value=1.2e-10 Score=78.37 Aligned_cols=48 Identities=40% Similarity=0.828 Sum_probs=44.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhcC
Q 023056 14 KGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYLR 62 (288)
Q Consensus 14 kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~ 62 (288)
++.||++||.+|+.++..||..+|..||..|++ |++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~-rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPG-RTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCC-CCHHHHHHHHHHHcC
Confidence 468999999999999999997779999999997 999999999998764
No 19
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.05 E-value=2.9e-10 Score=75.38 Aligned_cols=44 Identities=39% Similarity=0.773 Sum_probs=41.7
Q ss_pred CCChHHHHHHHHHHHHhc-CchhhhhccCCCCCHHHHHHHHHHhh
Q 023056 69 NFTDEEDELIIKLHSLLG-NKWSLIAGRLPGRTDNEIKNYWNTHI 112 (288)
Q Consensus 69 ~WT~eED~~L~~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~l 112 (288)
+||++||..|+.++..|| .+|..||..|++||..+|++||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 99999999999999999999998753
No 20
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.92 E-value=8.6e-10 Score=73.06 Aligned_cols=45 Identities=38% Similarity=0.770 Sum_probs=42.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhc
Q 023056 16 AWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYL 61 (288)
Q Consensus 16 ~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L 61 (288)
.||++||..|+.++..||..+|..||..+++ |++.+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~-rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPG-RTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCC-CCHHHHHHHHHHhC
Confidence 5999999999999999997789999999998 99999999998753
No 21
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.47 E-value=6.3e-08 Score=94.92 Aligned_cols=81 Identities=22% Similarity=0.346 Sum_probs=73.3
Q ss_pred CCCCCCChHHHHHHHHHHHHhc-CchhhhhccCCCCCHHHHHHHHHHhhhhHhhcCCCCCCCCcchhhhhhccCCCcccc
Q 023056 65 LKRGNFTDEEDELIIKLHSLLG-NKWSLIAGRLPGRTDNEIKNYWNTHIKRKLLNRGLDPQTHRPLNQIHNHNNFNKYTI 143 (288)
Q Consensus 65 ~krg~WT~eED~~L~~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~l~~~~~~~~~~~~ed~~L~~~~~~~~~~~~~~ 143 (288)
++.|.|+.-||+.|..+|.+|| +.|+.|+..++-.|+.||+.||..+|++.+++..|+.++|..|+.+.......+-++
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrtI 84 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRTI 84 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccchH
Confidence 5678999999999999999999 789999999999999999999999999999999999999999998887765555555
Q ss_pred cC
Q 023056 144 NN 145 (288)
Q Consensus 144 ~~ 145 (288)
.+
T Consensus 85 a~ 86 (617)
T KOG0050|consen 85 AD 86 (617)
T ss_pred HH
Confidence 44
No 22
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.21 E-value=5.6e-07 Score=89.56 Aligned_cols=120 Identities=24% Similarity=0.323 Sum_probs=100.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-----------------CCcccccchhcCccchhhhhhhhhhhcCCCCCCCCCChHHHH
Q 023056 14 KGAWTKEEDQRLIDYIRAHGE-----------------GCWRSLPKAAGLLRCGKSCRLRWINYLRPDLKRGNFTDEEDE 76 (288)
Q Consensus 14 kg~WT~eED~~L~~~V~~~g~-----------------~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~~krg~WT~eED~ 76 (288)
+..||...++.+-.+++.+|- ..|.-|-..++. |+.+..+.+-.+.+++.-.+|.||.+|+.
T Consensus 222 ~~~~~~~~e~~i~~~~~~~~~sr~q~~~~Iws~~~~~~~f~~n~~~~l~~-R~~ksiy~~~rrky~~f~~~~~wt~e~~~ 300 (512)
T COG5147 222 KKGETLALEQEINEYKEKKGLSRKQFCERIWSTDRDEDKFWPNIYKKLPY-RDKKSIYKHLRRKYNIFEQRGKWTKEEEQ 300 (512)
T ss_pred chhHHHHHHHHHHHHHHHhcccHHHHHhhccccccccccccchhhccccc-ccccchHHHHHHhhhHHhhhccCcccccc
Confidence 344666666666666666542 235666666666 99999999999999998899999999999
Q ss_pred HHHHHHHHhcCchhhhhccCCCCCHHHHHHHHHHhhhh--HhhcCCCCCCCCcchhhhhhc
Q 023056 77 LIIKLHSLLGNKWSLIAGRLPGRTDNEIKNYWNTHIKR--KLLNRGLDPQTHRPLNQIHNH 135 (288)
Q Consensus 77 ~L~~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~l~~--~~~~~~~~~~ed~~L~~~~~~ 135 (288)
.|..++.++|+.|..|+..+ +|-...|++||+++++. .++..+|+.+|...|...+.+
T Consensus 301 eL~~~~~~~~~~w~~ig~~~-~rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e 360 (512)
T COG5147 301 ELAKLVVEHGGSWTEIGKLL-GRMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNE 360 (512)
T ss_pred ccccccccccchhhHhhhhh-ccCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHH
Confidence 99999999999999999999 99999999999999998 677789999999888877663
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=1.2e-05 Score=57.55 Aligned_cols=48 Identities=13% Similarity=0.286 Sum_probs=43.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCc---ccccchhcCcc-chhhhhhhhhhhc
Q 023056 14 KGAWTKEEDQRLIDYIRAHGEGCW---RSLPKAAGLLR-CGKSCRLRWINYL 61 (288)
Q Consensus 14 kg~WT~eED~~L~~~V~~~g~~~W---~~Ia~~~~~~R-s~~qcr~Rw~~~L 61 (288)
+-.||+||..+++++|..+|.++| +.|++.|+..+ |..||+.++..|.
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 557999999999999999998899 99999998657 9999999988764
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.86 E-value=9.1e-06 Score=78.71 Aligned_cols=49 Identities=18% Similarity=0.517 Sum_probs=45.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhc
Q 023056 12 TNKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYL 61 (288)
Q Consensus 12 ~~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L 61 (288)
+-...||.+|+-+|++++..||.+||..||.++|. |++..|.++|.+++
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGt-Ktkeeck~hy~k~f 118 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIGT-KTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcc-cchHHHHHHHHHHH
Confidence 34678999999999999999999999999999998 99999999999865
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=97.67 E-value=9.9e-05 Score=52.83 Aligned_cols=46 Identities=15% Similarity=0.250 Sum_probs=40.2
Q ss_pred CCCCChHHHHHHHHHHHHhc-Cch---hhhhccCC-CC-CHHHHHHHHHHhh
Q 023056 67 RGNFTDEEDELIIKLHSLLG-NKW---SLIAGRLP-GR-TDNEIKNYWNTHI 112 (288)
Q Consensus 67 rg~WT~eED~~L~~lv~~~G-~~W---~~IA~~lp-gR-T~~qck~Rw~~~l 112 (288)
+-.||+||..++++++..+| ++| ..|+..|. .+ |..||+.+...+.
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 45799999999999999999 599 99999883 45 9999999987764
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.62 E-value=6.6e-05 Score=72.88 Aligned_cols=48 Identities=23% Similarity=0.446 Sum_probs=44.1
Q ss_pred CCCCCCChHHHHHHHHHHHHhc-CchhhhhccCCCCCHHHHHHHHHHhh
Q 023056 65 LKRGNFTDEEDELIIKLHSLLG-NKWSLIAGRLPGRTDNEIKNYWNTHI 112 (288)
Q Consensus 65 ~krg~WT~eED~~L~~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~l 112 (288)
+-...||.+|+.+|++++..|| |||..||.++..||..+|+.+|.+++
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 4457899999999999999999 99999999998899999999998754
No 27
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.42 E-value=0.00039 Score=61.74 Aligned_cols=101 Identities=21% Similarity=0.380 Sum_probs=74.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcccccchhcCc--cchhhhhhhhhhhc-CCCC--------------------CCCCCCh
Q 023056 16 AWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLL--RCGKSCRLRWINYL-RPDL--------------------KRGNFTD 72 (288)
Q Consensus 16 ~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~--Rs~~qcr~Rw~~~L-~p~~--------------------krg~WT~ 72 (288)
+|++++|-.|+.+|..-. +-..|+..+... -|...+.+||...| +|.+ .+..||.
T Consensus 1 rW~~~DDl~Li~av~~~~--~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~ 78 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN--DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSK 78 (199)
T ss_pred CCCchhhHHHHHHHHHhc--CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCH
Confidence 699999999999998765 356666554432 46788889998876 3332 3468999
Q ss_pred HHHHHHHHHHHHhc---Cchhhhhcc----C-CCCCHHHHHHHHHHhhhhHhhc
Q 023056 73 EEDELIIKLHSLLG---NKWSLIAGR----L-PGRTDNEIKNYWNTHIKRKLLN 118 (288)
Q Consensus 73 eED~~L~~lv~~~G---~~W~~IA~~----l-pgRT~~qck~Rw~~~l~~~~~~ 118 (288)
+|+++|........ ..+.+|-.. | ++||+.++.++|..+.+..++.
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~LL~ 132 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHLLP 132 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhchhh
Confidence 99999999876654 357766322 3 8999999999999776666543
No 28
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.35 E-value=0.0002 Score=61.28 Aligned_cols=52 Identities=21% Similarity=0.359 Sum_probs=45.7
Q ss_pred CCCCCChHHHHHHHHHHHHh---cC----chhhhhccCCCCCHHHHHHHHHHhhhhHhhc
Q 023056 66 KRGNFTDEEDELIIKLHSLL---GN----KWSLIAGRLPGRTDNEIKNYWNTHIKRKLLN 118 (288)
Q Consensus 66 krg~WT~eED~~L~~lv~~~---G~----~W~~IA~~lpgRT~~qck~Rw~~~l~~~~~~ 118 (288)
+...||.|||.+|.+.|..| |+ -+..++..| +||+..|.-||+..+++.+..
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~ 61 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEE 61 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHH
Confidence 45689999999999999988 32 388999999 999999999999999988754
No 29
>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=96.96 E-value=0.001 Score=48.89 Aligned_cols=50 Identities=18% Similarity=0.379 Sum_probs=32.7
Q ss_pred CCCCChHHHHHHHHHHHHhc-------Cc--hhhhhccCC-CCCHHHHHHHHHHhhhhHh
Q 023056 67 RGNFTDEEDELIIKLHSLLG-------NK--WSLIAGRLP-GRTDNEIKNYWNTHIKRKL 116 (288)
Q Consensus 67 rg~WT~eED~~L~~lv~~~G-------~~--W~~IA~~lp-gRT~~qck~Rw~~~l~~~~ 116 (288)
+.+||.+||..|+..|..+. ++ |..++...+ .+|....|+||...|.++.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~ 61 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRP 61 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence 45899999999999997652 12 999998877 9999999999998887654
No 30
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.88 E-value=0.0008 Score=51.30 Aligned_cols=49 Identities=35% Similarity=0.543 Sum_probs=35.1
Q ss_pred CCCChHHHHHHHHHHHH------hc--C------chhhhhccC----CCCCHHHHHHHHHHhhhhHh
Q 023056 68 GNFTDEEDELIIKLHSL------LG--N------KWSLIAGRL----PGRTDNEIKNYWNTHIKRKL 116 (288)
Q Consensus 68 g~WT~eED~~L~~lv~~------~G--~------~W~~IA~~l----pgRT~~qck~Rw~~~l~~~~ 116 (288)
..||.+|...||.++.. ++ + -|..||..| ..||+.||+++|.++.+.-.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk 68 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYK 68 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence 47999999999999877 21 1 399999987 47999999999999665443
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=96.79 E-value=0.00095 Score=49.04 Aligned_cols=51 Identities=27% Similarity=0.537 Sum_probs=33.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCC------CC--cccccchhcCccchhhhhhhhhhhcCCC
Q 023056 14 KGAWTKEEDQRLIDYIRAHGE------GC--WRSLPKAAGLLRCGKSCRLRWINYLRPD 64 (288)
Q Consensus 14 kg~WT~eED~~L~~~V~~~g~------~~--W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~ 64 (288)
+.+||.|||.+|+..|..+.. +| |..+++..++.+|..+-|+||.+.|.+.
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 346999999999999976632 22 9999998885599999999999998764
No 32
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.76 E-value=0.0017 Score=65.03 Aligned_cols=46 Identities=17% Similarity=0.390 Sum_probs=42.8
Q ss_pred CCCCCChHHHHHHHHHHHHhcCchhhhhccCCCCCHHHHHHHHHHh
Q 023056 66 KRGNFTDEEDELIIKLHSLLGNKWSLIAGRLPGRTDNEIKNYWNTH 111 (288)
Q Consensus 66 krg~WT~eED~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~ 111 (288)
-+..||.+|..+|++++..||.+|.+||.++.+||..+|-.+|..+
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 3578999999999999999999999999999999999999999653
No 33
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.73 E-value=0.00088 Score=65.72 Aligned_cols=46 Identities=20% Similarity=0.545 Sum_probs=42.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhh
Q 023056 13 NKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINY 60 (288)
Q Consensus 13 ~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~ 60 (288)
....||.+|..+|++.|+.||. +|.+||.++|+ |+..||..||.++
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVgt-Kt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVGT-KTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhCC-CCHHHHHHHHHcC
Confidence 4568999999999999999995 59999999998 9999999999764
No 34
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.69 E-value=0.0015 Score=64.06 Aligned_cols=44 Identities=16% Similarity=0.289 Sum_probs=41.7
Q ss_pred CCCChHHHHHHHHHHHHhcCchhhhhccCCCCCHHHHHHHHHHh
Q 023056 68 GNFTDEEDELIIKLHSLLGNKWSLIAGRLPGRTDNEIKNYWNTH 111 (288)
Q Consensus 68 g~WT~eED~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~ 111 (288)
..||.+|..+|++.++.||..|.+||.++..||..||.-||..+
T Consensus 280 k~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 280 KNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 48999999999999999999999999999999999999999753
No 35
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.59 E-value=0.0014 Score=65.70 Aligned_cols=46 Identities=22% Similarity=0.621 Sum_probs=42.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhh
Q 023056 13 NKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINY 60 (288)
Q Consensus 13 ~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~ 60 (288)
-++.||.+|+-+|+++|..||.. |.+||.++++ ||..||..++.+.
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~dd-W~kVa~hVg~-ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDD-WNKVADHVGT-KSQEQCILKFLRL 297 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhccc-HHHHHhccCC-CCHHHHHHHHHhc
Confidence 47889999999999999999954 9999999998 9999999998764
No 36
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=96.58 E-value=0.0011 Score=56.72 Aligned_cols=50 Identities=32% Similarity=0.628 Sum_probs=42.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCC------CcccccchhcCccchhhhhhhhhhhcCC
Q 023056 12 TNKGAWTKEEDQRLIDYIRAHGEG------CWRSLPKAAGLLRCGKSCRLRWINYLRP 63 (288)
Q Consensus 12 ~~kg~WT~eED~~L~~~V~~~g~~------~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p 63 (288)
++...||.|||.+|.+.|-+|-.. .+.+++..++ ||+..|.-||+.+++.
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VRk 57 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVRK 57 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHHH
Confidence 467889999999999999999321 3788888887 9999999999998863
No 37
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.24 E-value=0.0042 Score=53.88 Aligned_cols=52 Identities=17% Similarity=0.322 Sum_probs=43.5
Q ss_pred CCCCCChHHHHHHHHHHHHhcCc-------hhhhhccCCCCCHHHHHHHHHHhhhhHhhc
Q 023056 66 KRGNFTDEEDELIIKLHSLLGNK-------WSLIAGRLPGRTDNEIKNYWNTHIKRKLLN 118 (288)
Q Consensus 66 krg~WT~eED~~L~~lv~~~G~~-------W~~IA~~lpgRT~~qck~Rw~~~l~~~~~~ 118 (288)
+...||.|||.+|.+.|..|+.. ...++..| +||+.+|..||+..+++.+..
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Yee 62 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQE 62 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHHH
Confidence 46789999999999999988622 66667778 999999999999999877643
No 38
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.15 E-value=0.0027 Score=48.33 Aligned_cols=47 Identities=28% Similarity=0.627 Sum_probs=32.7
Q ss_pred CCCCHHHHHHHHHHHHH--h----C--CC-----Ccccccchh---cCccchhhhhhhhhhhc
Q 023056 15 GAWTKEEDQRLIDYIRA--H----G--EG-----CWRSLPKAA---GLLRCGKSCRLRWINYL 61 (288)
Q Consensus 15 g~WT~eED~~L~~~V~~--~----g--~~-----~W~~Ia~~~---~~~Rs~~qcr~Rw~~~L 61 (288)
-.||.+|...|+.++.. + + .. -|..||..| |..|++.||+.+|.+..
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 46999999999999877 2 1 11 299999876 45699999999998753
No 39
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.95 E-value=0.0036 Score=58.96 Aligned_cols=48 Identities=19% Similarity=0.500 Sum_probs=44.7
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhcC
Q 023056 14 KGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYLR 62 (288)
Q Consensus 14 kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~ 62 (288)
--.|+..|+-+|++.....|.+||..||..+|. |+...|+++|.+++.
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGs-r~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGS-RAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhh-hhhHHHHHHHHHHHh
Confidence 347999999999999999999999999999997 999999999998765
No 40
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.85 E-value=0.013 Score=43.65 Aligned_cols=48 Identities=29% Similarity=0.551 Sum_probs=39.8
Q ss_pred CCCCChHHHHHHHHHHHHhc----C-------------chhhhhccC-----CCCCHHHHHHHHHHhhhh
Q 023056 67 RGNFTDEEDELIIKLHSLLG----N-------------KWSLIAGRL-----PGRTDNEIKNYWNTHIKR 114 (288)
Q Consensus 67 rg~WT~eED~~L~~lv~~~G----~-------------~W~~IA~~l-----pgRT~~qck~Rw~~~l~~ 114 (288)
...||.+|...|+++|..|. + -|..|+..| +.||..+++.+|.++...
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~ 71 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSK 71 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHH
Confidence 45799999999999998873 1 199999886 369999999999987643
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.81 E-value=0.0081 Score=56.62 Aligned_cols=47 Identities=26% Similarity=0.431 Sum_probs=43.2
Q ss_pred CCCCChHHHHHHHHHHHHhc-CchhhhhccCCCCCHHHHHHHHHHhhh
Q 023056 67 RGNFTDEEDELIIKLHSLLG-NKWSLIAGRLPGRTDNEIKNYWNTHIK 113 (288)
Q Consensus 67 rg~WT~eED~~L~~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~l~ 113 (288)
-..|+.+|+.+|++....+| ++|..||.++..|+...||++|..+..
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 35799999999999999999 999999999988999999999987654
No 42
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.72 E-value=0.012 Score=43.95 Aligned_cols=49 Identities=20% Similarity=0.439 Sum_probs=39.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC----------------CCcccccchh----cCccchhhhhhhhhhhc
Q 023056 13 NKGAWTKEEDQRLIDYIRAHGE----------------GCWRSLPKAA----GLLRCGKSCRLRWINYL 61 (288)
Q Consensus 13 ~kg~WT~eED~~L~~~V~~~g~----------------~~W~~Ia~~~----~~~Rs~~qcr~Rw~~~L 61 (288)
++..||.+|.+.|+++|..|.. .-|..|+..| ++.|+..+++.+|.++.
T Consensus 1 R~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 1 RKPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 3568999999999999998821 1299999766 33599999999998864
No 43
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.53 E-value=0.0058 Score=52.97 Aligned_cols=49 Identities=29% Similarity=0.545 Sum_probs=39.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCC------cccccchhcCccchhhhhhhhhhhcC
Q 023056 12 TNKGAWTKEEDQRLIDYIRAHGEGC------WRSLPKAAGLLRCGKSCRLRWINYLR 62 (288)
Q Consensus 12 ~~kg~WT~eED~~L~~~V~~~g~~~------W~~Ia~~~~~~Rs~~qcr~Rw~~~L~ 62 (288)
.++..||.|||.+|.+.|-.|+... ...++..+. |++..|..||+.+++
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 5678999999999999999997543 445555665 999999999977765
No 44
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.52 E-value=0.039 Score=60.04 Aligned_cols=100 Identities=16% Similarity=0.293 Sum_probs=78.0
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhh-------hhhhh---------------------------
Q 023056 15 GAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRL-------RWINY--------------------------- 60 (288)
Q Consensus 15 g~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~-------Rw~~~--------------------------- 60 (288)
+.||..+=..++.+..+||..+-..||..|.+ ++...++. ||..+
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~-k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~ 903 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEMEG-KTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAI 903 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhcC-CCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46999999999999999999999999999987 88777763 22110
Q ss_pred ---------------c-CCCCCCCCCChHHHHHHHHHHHHhc-Cchhhhhcc------------CCCCCHHHHHHHHHHh
Q 023056 61 ---------------L-RPDLKRGNFTDEEDELIIKLHSLLG-NKWSLIAGR------------LPGRTDNEIKNYWNTH 111 (288)
Q Consensus 61 ---------------L-~p~~krg~WT~eED~~L~~lv~~~G-~~W~~IA~~------------lpgRT~~qck~Rw~~~ 111 (288)
+ .+..++..||+|||..|+-++.+|| ++|..|-.. +..||+..+..|..++
T Consensus 904 ~~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l 983 (1033)
T PLN03142 904 GKKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTL 983 (1033)
T ss_pred HHHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHH
Confidence 0 1222345699999999999999999 889998322 2589999999999988
Q ss_pred hhhH
Q 023056 112 IKRK 115 (288)
Q Consensus 112 l~~~ 115 (288)
|+-.
T Consensus 984 ~~~~ 987 (1033)
T PLN03142 984 IRLI 987 (1033)
T ss_pred HHHH
Confidence 8543
No 45
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=93.61 E-value=0.11 Score=50.45 Aligned_cols=53 Identities=21% Similarity=0.377 Sum_probs=46.0
Q ss_pred CCCChHHHHHHHHHHHHhcCchhhhhcc-----CCC-CCHHHHHHHHHHhhhhHhhcCC
Q 023056 68 GNFTDEEDELIIKLHSLLGNKWSLIAGR-----LPG-RTDNEIKNYWNTHIKRKLLNRG 120 (288)
Q Consensus 68 g~WT~eED~~L~~lv~~~G~~W~~IA~~-----lpg-RT~~qck~Rw~~~l~~~~~~~~ 120 (288)
..||.+|-+-|..|...|.-+|-.||.. ++. ||-..+|+||+...+.-++.+.
T Consensus 131 n~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~ 189 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARA 189 (445)
T ss_pred ccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHccC
Confidence 4699999999999999999999999987 554 9999999999987776665544
No 46
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=92.58 E-value=0.19 Score=41.13 Aligned_cols=34 Identities=24% Similarity=0.489 Sum_probs=28.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC---CCcccccchh
Q 023056 11 HTNKGAWTKEEDQRLIDYIRAHGE---GCWRSLPKAA 44 (288)
Q Consensus 11 ~~~kg~WT~eED~~L~~~V~~~g~---~~W~~Ia~~~ 44 (288)
+.++..||.+||.-|+-++.+||. +.|..|-..+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 567889999999999999999998 7899887655
No 47
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=92.17 E-value=0.19 Score=48.69 Aligned_cols=43 Identities=28% Similarity=0.404 Sum_probs=41.2
Q ss_pred CCCChHHHHHHHHHHHHhcCchhhhhccCCCCCHHHHHHHHHH
Q 023056 68 GNFTDEEDELIIKLHSLLGNKWSLIAGRLPGRTDNEIKNYWNT 110 (288)
Q Consensus 68 g~WT~eED~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~ 110 (288)
.+||.+|-+++.++...+|..++.||..+|.|...||+-+|.+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~ 408 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIK 408 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHH
Confidence 4899999999999999999999999999999999999999975
No 48
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=88.88 E-value=0.84 Score=34.88 Aligned_cols=45 Identities=31% Similarity=0.522 Sum_probs=34.4
Q ss_pred CCChHHHHHHHHHHHHh---cC----------chhhhhccC---C--CCCHHHHHHHHHHhhh
Q 023056 69 NFTDEEDELIIKLHSLL---GN----------KWSLIAGRL---P--GRTDNEIKNYWNTHIK 113 (288)
Q Consensus 69 ~WT~eED~~L~~lv~~~---G~----------~W~~IA~~l---p--gRT~~qck~Rw~~~l~ 113 (288)
.||++++..|++++... |+ .|..|+..| + ..+..||++||..+.+
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~ 63 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKK 63 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHH
Confidence 49999999999988654 21 299998887 3 3478999999976543
No 49
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=88.64 E-value=0.61 Score=44.52 Aligned_cols=49 Identities=18% Similarity=0.321 Sum_probs=39.8
Q ss_pred CCCChHHHHHHHHHHHHh----------cCchhhhhccC----CCCCHHHHHHHHHHhhhhHh
Q 023056 68 GNFTDEEDELIIKLHSLL----------GNKWSLIAGRL----PGRTDNEIKNYWNTHIKRKL 116 (288)
Q Consensus 68 g~WT~eED~~L~~lv~~~----------G~~W~~IA~~l----pgRT~~qck~Rw~~~l~~~~ 116 (288)
..|+.+|-..||++.... +.-|..||+.| .-||+.+|+.+|.++.++..
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk 117 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYK 117 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 689999999999988654 12399999965 46999999999999776543
No 50
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=87.61 E-value=1.8 Score=43.06 Aligned_cols=48 Identities=21% Similarity=0.351 Sum_probs=43.5
Q ss_pred CCCCChHHHHHHHHHHHHhcCchhhhhccCCCCCHHHHHHHHHHhhhh
Q 023056 67 RGNFTDEEDELIIKLHSLLGNKWSLIAGRLPGRTDNEIKNYWNTHIKR 114 (288)
Q Consensus 67 rg~WT~eED~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~l~~ 114 (288)
...||.||-.++-.+...||.++.+|-..||.|+-..+..+|+...+.
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~ 234 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKT 234 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHH
Confidence 457999999999999999999999999999999999999988765543
No 51
>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=82.74 E-value=0.91 Score=34.89 Aligned_cols=28 Identities=32% Similarity=0.613 Sum_probs=16.7
Q ss_pred CCCCCCCHHHHHHH--------HHHHHHhCCCCcccccc
Q 023056 12 TNKGAWTKEEDQRL--------IDYIRAHGEGCWRSLPK 42 (288)
Q Consensus 12 ~~kg~WT~eED~~L--------~~~V~~~g~~~W~~Ia~ 42 (288)
--.|-||+|+|+.| ..++++|| +..|+.
T Consensus 45 n~~GiWT~eDD~~L~~~~~~~~~~L~~khG---~~~i~~ 80 (87)
T PF11626_consen 45 NMPGIWTPEDDEMLRSGDKDDIERLIKKHG---EERIER 80 (87)
T ss_dssp T-TT---HHHHHHHTS--HHHHHHHHHHH----HHHHHH
T ss_pred CCCCCcCHHHHHHHHcCCHHHHHHHHHHhC---HHHHHH
Confidence 44789999999999 35677887 555554
No 52
>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=81.05 E-value=3.2 Score=28.23 Aligned_cols=41 Identities=24% Similarity=0.289 Sum_probs=30.7
Q ss_pred hHHHHHHHHHHHHhcCchhhhhccCCCCCHHHHHHHHHHhhh
Q 023056 72 DEEDELIIKLHSLLGNKWSLIAGRLPGRTDNEIKNYWNTHIK 113 (288)
Q Consensus 72 ~eED~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~l~ 113 (288)
++++..++.++-..|-.|..||..+ |.|...++.+....++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARK 52 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHh
Confidence 4677788888888899999999999 9999999998776553
No 53
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=80.73 E-value=1.2 Score=42.39 Aligned_cols=47 Identities=23% Similarity=0.455 Sum_probs=36.9
Q ss_pred CCCCHHHHHHHHHHHHHh----CC-----CCcccccchh---cCccchhhhhhhhhhhc
Q 023056 15 GAWTKEEDQRLIDYIRAH----GE-----GCWRSLPKAA---GLLRCGKSCRLRWINYL 61 (288)
Q Consensus 15 g~WT~eED~~L~~~V~~~----g~-----~~W~~Ia~~~---~~~Rs~~qcr~Rw~~~L 61 (288)
..|+.+|-..|+.+.... .. ..|..||..+ |..|++.+|+.+|.+..
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 689999999999987533 11 2499999844 45599999999998864
No 54
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=79.94 E-value=1.4 Score=42.91 Aligned_cols=45 Identities=16% Similarity=0.265 Sum_probs=41.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhh
Q 023056 14 KGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINY 60 (288)
Q Consensus 14 kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~ 60 (288)
--+||.+|-+++.+++...|+. +..|+..+|. |+.+|+..+|.+-
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGtd-F~LIs~lfP~-R~RkqIKaKfi~E 409 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGTD-FSLISSLFPN-RERKQIKAKFIKE 409 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcch-HHHHHHhcCc-hhHHHHHHHHHHH
Confidence 4589999999999999999965 9999999998 9999999998763
No 55
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=79.82 E-value=2.6 Score=44.21 Aligned_cols=46 Identities=15% Similarity=0.190 Sum_probs=41.9
Q ss_pred CCCCChHHHHHHHHHHHHhcCchhhhhccCCCCCHHHHHHHHHHhh
Q 023056 67 RGNFTDEEDELIIKLHSLLGNKWSLIAGRLPGRTDNEIKNYWNTHI 112 (288)
Q Consensus 67 rg~WT~eED~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~l 112 (288)
...||+.|..++.+++-.|.+++..|++.++++|-.+|-.+|++..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtWK 664 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTWK 664 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHHH
Confidence 3579999999999999999999999999999999999998877543
No 56
>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=78.30 E-value=2.4 Score=32.25 Aligned_cols=45 Identities=22% Similarity=0.497 Sum_probs=31.5
Q ss_pred CCCHHHHHHHHHHHHHh---CCC---------Ccccccchhc----Cccchhhhhhhhhhh
Q 023056 16 AWTKEEDQRLIDYIRAH---GEG---------CWRSLPKAAG----LLRCGKSCRLRWINY 60 (288)
Q Consensus 16 ~WT~eED~~L~~~V~~~---g~~---------~W~~Ia~~~~----~~Rs~~qcr~Rw~~~ 60 (288)
.||+++++.|++++... |.. .|..|+..|. ...+..||..||...
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~l 61 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTL 61 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHH
Confidence 59999999999987544 211 1788877653 335678888887653
No 57
>smart00595 MADF subfamily of SANT domain.
Probab=77.05 E-value=2.3 Score=32.06 Aligned_cols=24 Identities=33% Similarity=0.583 Sum_probs=21.0
Q ss_pred hhhhhccCCCCCHHHHHHHHHHhhh
Q 023056 89 WSLIAGRLPGRTDNEIKNYWNTHIK 113 (288)
Q Consensus 89 W~~IA~~lpgRT~~qck~Rw~~~l~ 113 (288)
|..||..| |-|...|+.+|+++-.
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~ 53 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRD 53 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 99999999 5599999999987643
No 58
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=72.80 E-value=4 Score=33.37 Aligned_cols=51 Identities=27% Similarity=0.465 Sum_probs=40.1
Q ss_pred CCCCCCCChHHHHHHHHHHHHhcC----chhhhhccC------------CCCCHHHHHHHHHHhhhh
Q 023056 64 DLKRGNFTDEEDELIIKLHSLLGN----KWSLIAGRL------------PGRTDNEIKNYWNTHIKR 114 (288)
Q Consensus 64 ~~krg~WT~eED~~L~~lv~~~G~----~W~~IA~~l------------pgRT~~qck~Rw~~~l~~ 114 (288)
..++..||++||.-|+-++.+||- .|..|-..+ ..||+..+..|-.++|+-
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~ 112 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKL 112 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHH
Confidence 556779999999999999999994 798886542 479999999999988753
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=71.84 E-value=3.2 Score=27.56 Aligned_cols=38 Identities=18% Similarity=0.373 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhh
Q 023056 20 EEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWIN 59 (288)
Q Consensus 20 eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~ 59 (288)
+=|.+|+.++...+...|.+||+.+| =+...|..|+.+
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 45889999999999999999999999 688889888764
No 60
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=71.44 E-value=3.9 Score=31.36 Aligned_cols=17 Identities=41% Similarity=0.667 Sum_probs=10.3
Q ss_pred CCCCCCCCChHHHHHHH
Q 023056 63 PDLKRGNFTDEEDELII 79 (288)
Q Consensus 63 p~~krg~WT~eED~~L~ 79 (288)
|....|-||+++|+.|.
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 66678999999999993
No 61
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=70.94 E-value=8.6 Score=39.62 Aligned_cols=53 Identities=15% Similarity=0.387 Sum_probs=42.0
Q ss_pred CCCCCChHHHHHHHHHHHHhcCchhhhhc----------cCCCCCHHHHHHHHHHhhhhHhhc
Q 023056 66 KRGNFTDEEDELIIKLHSLLGNKWSLIAG----------RLPGRTDNEIKNYWNTHIKRKLLN 118 (288)
Q Consensus 66 krg~WT~eED~~L~~lv~~~G~~W~~IA~----------~lpgRT~~qck~Rw~~~l~~~~~~ 118 (288)
++..||-.|.+-+..+++++|+++.+|-+ ...-+|..|++.+|+..+.+..+.
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~ 149 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKL 149 (782)
T ss_pred cccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhh
Confidence 35689999999999999999999998822 223468889999998877665433
No 62
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=70.55 E-value=7.3 Score=37.91 Aligned_cols=44 Identities=23% Similarity=0.378 Sum_probs=39.8
Q ss_pred CCCChHHHHHHHHHHHHhcCchhhh-hccCCCCCHHHHHHHHHHh
Q 023056 68 GNFTDEEDELIIKLHSLLGNKWSLI-AGRLPGRTDNEIKNYWNTH 111 (288)
Q Consensus 68 g~WT~eED~~L~~lv~~~G~~W~~I-A~~lpgRT~~qck~Rw~~~ 111 (288)
..|+++|=..+-+.++.||+++..| +..++.|+-..|-..|+-.
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHh
Confidence 4799999999999999999999999 6779999999999887653
No 63
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=70.14 E-value=4.8 Score=44.64 Aligned_cols=77 Identities=17% Similarity=0.218 Sum_probs=51.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhcCCCCCCCCCChHHHHHHHHHHHHh-cCchhh
Q 023056 13 NKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYLRPDLKRGNFTDEEDELIIKLHSLL-GNKWSL 91 (288)
Q Consensus 13 ~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~~krg~WT~eED~~L~~lv~~~-G~~W~~ 91 (288)
.---|..+||..|+-.|-+||.++|..|- .....-..=...+...+-.+.|=..+-..|+.++..+ +.+|..
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir-------~Dp~L~l~dKi~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~ 1204 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIR-------LDPDLGLTDKIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPK 1204 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhc-------cCccccchhhhcccccCCchHHHHHHHHHHHHHHhhcccCCCch
Confidence 34579999999999999999999999994 2111111111122222445667777788888888877 567776
Q ss_pred hhccC
Q 023056 92 IAGRL 96 (288)
Q Consensus 92 IA~~l 96 (288)
.+...
T Consensus 1205 ~~~~~ 1209 (1373)
T KOG0384|consen 1205 KLKRE 1209 (1373)
T ss_pred hhhcc
Confidence 55443
No 64
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=69.51 E-value=3.9 Score=39.94 Aligned_cols=50 Identities=22% Similarity=0.327 Sum_probs=43.3
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCcccccch-----hcCccchhhhhhhhhhh
Q 023056 10 AHTNKGAWTKEEDQRLIDYIRAHGEGCWRSLPKA-----AGLLRCGKSCRLRWINY 60 (288)
Q Consensus 10 ~~~~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~-----~~~~Rs~~qcr~Rw~~~ 60 (288)
.+++-..||++|-+-|.++.++|... |--||.. ++..||.....+||..+
T Consensus 126 ~~l~dn~WskeETD~LF~lck~fDLR-f~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 126 AHLNDNSWSKEETDYLFDLCKRFDLR-FFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred HhhccccccHHHHHHHHHHHHhcCee-EEEEeeccchhhccccccHHHHHHHHHHH
Confidence 45667889999999999999999977 9999976 56669999999999765
No 65
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=68.86 E-value=6.1 Score=33.18 Aligned_cols=46 Identities=13% Similarity=0.138 Sum_probs=39.9
Q ss_pred hHHHHHHHHHHHHhc-CchhhhhccCCCCCHHHHHHHHHHhhhhHhhc
Q 023056 72 DEEDELIIKLHSLLG-NKWSLIAGRLPGRTDNEIKNYWNTHIKRKLLN 118 (288)
Q Consensus 72 ~eED~~L~~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~l~~~~~~ 118 (288)
.+-|.+|+.+...-| ..|+.||+.+ |-|...|+.|+..+....+..
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 357889999998888 7899999999 999999999999888776654
No 66
>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=65.88 E-value=11 Score=24.97 Aligned_cols=38 Identities=21% Similarity=0.327 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHhc-CchhhhhccCCCCCHHHHHHHHHHh
Q 023056 73 EEDELIIKLHSLLG-NKWSLIAGRLPGRTDNEIKNYWNTH 111 (288)
Q Consensus 73 eED~~L~~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~ 111 (288)
+=|.+|+.+...-| ..|..||..+ |=|...|..|+..+
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 45788888888888 6799999999 99999999998753
No 67
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=64.54 E-value=5 Score=42.18 Aligned_cols=44 Identities=11% Similarity=0.120 Sum_probs=39.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhh
Q 023056 14 KGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWIN 59 (288)
Q Consensus 14 kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~ 59 (288)
-..||+.|-.++.+++-.|. +++-.|++.+.+ +|..||-+-|+.
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~-KDF~~v~km~~~-KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYS-KDFIFVQKMVKS-KTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhc-ccHHHHHHHhcc-ccHHHHHHHHHH
Confidence 45899999999999999998 679999999999 999999887754
No 68
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=64.04 E-value=14 Score=33.11 Aligned_cols=44 Identities=20% Similarity=0.227 Sum_probs=32.8
Q ss_pred CCChHHHHHHHHHHHHhcCchhhhhccC---CCCCHHHHHHHHHHhhh
Q 023056 69 NFTDEEDELIIKLHSLLGNKWSLIAGRL---PGRTDNEIKNYWNTHIK 113 (288)
Q Consensus 69 ~WT~eED~~L~~lv~~~G~~W~~IA~~l---pgRT~~qck~Rw~~~l~ 113 (288)
.|++.+|-+|+.+|.. |+.-..|+.-+ -.-|-..+..||+.+|-
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~lly 47 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLY 47 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHc
Confidence 4999999999998854 44555554443 23489999999998774
No 69
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=61.33 E-value=8.4 Score=32.77 Aligned_cols=46 Identities=13% Similarity=0.074 Sum_probs=39.6
Q ss_pred hHHHHHHHHHHHHhc-CchhhhhccCCCCCHHHHHHHHHHhhhhHhhc
Q 023056 72 DEEDELIIKLHSLLG-NKWSLIAGRLPGRTDNEIKNYWNTHIKRKLLN 118 (288)
Q Consensus 72 ~eED~~L~~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~l~~~~~~ 118 (288)
.+-|.+|+.+...-| -.|+.||+.+ |-|...|+.|++.+.+..+..
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCeE
Confidence 466888898888888 6799999999 999999999999888777654
No 70
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=61.07 E-value=11 Score=38.79 Aligned_cols=45 Identities=29% Similarity=0.421 Sum_probs=42.0
Q ss_pred CCCCCChHHHHHHHHHHHHhcCchhhhhccCCCCCHHHHHHHHHH
Q 023056 66 KRGNFTDEEDELIIKLHSLLGNKWSLIAGRLPGRTDNEIKNYWNT 110 (288)
Q Consensus 66 krg~WT~eED~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~ 110 (288)
..++|+.+|-++........|.+.+.|+..+|+|+..+||.+|..
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhh
Confidence 347899999999999999999999999999999999999999864
No 71
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=60.06 E-value=14 Score=38.24 Aligned_cols=47 Identities=23% Similarity=0.429 Sum_probs=37.7
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCcccccchh----------cCccchhhhhhhhhhhcC
Q 023056 14 KGAWTKEEDQRLIDYIRAHGEGCWRSLPKAA----------GLLRCGKSCRLRWINYLR 62 (288)
Q Consensus 14 kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~----------~~~Rs~~qcr~Rw~~~L~ 62 (288)
|..||-.|.+.+..+++.+| +++.+|-+++ .. ++..|+|.+|++.+.
T Consensus 88 ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~~-Ktkdqvr~~yY~~~~ 144 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQS-KTKDQVRHYYYRLVR 144 (782)
T ss_pred ccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchhh-hhhHHHHHHHHHHHH
Confidence 67899999999999999999 5698883332 22 678899999987654
No 72
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=59.76 E-value=6.8 Score=32.88 Aligned_cols=45 Identities=11% Similarity=0.187 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhcCCCC
Q 023056 19 KEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYLRPDL 65 (288)
Q Consensus 19 ~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~~ 65 (288)
.+-|.+|+.++...|.-.|.+||+.+| -+...|+.|+.+.....+
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 357999999999999999999999998 799999999998766554
No 73
>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=59.43 E-value=17 Score=24.27 Aligned_cols=41 Identities=22% Similarity=0.375 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHhcCchhhhhccCCCCCHHHHHHHHHHhhhh
Q 023056 73 EEDELIIKLHSLLGNKWSLIAGRLPGRTDNEIKNYWNTHIKR 114 (288)
Q Consensus 73 eED~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~l~~ 114 (288)
+++..++.+.-..|-.+..||..| |-|...|+.+....+++
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~k 47 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKK 47 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHH
Confidence 455556666555567899999999 99999999888776643
No 74
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=57.20 E-value=6.2 Score=33.59 Aligned_cols=45 Identities=18% Similarity=0.240 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhcCCCC
Q 023056 19 KEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYLRPDL 65 (288)
Q Consensus 19 ~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~~ 65 (288)
.+-|.+|+.+.+..|.-.|.+||+.++ -+...|+.|+.+.....+
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 567999999999999989999999998 788999999998876554
No 75
>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=55.58 E-value=40 Score=32.27 Aligned_cols=87 Identities=16% Similarity=0.301 Sum_probs=63.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCC---CcccccchhcCccchhhhhhhhhhhcCCCCCCCCCChHHHHHHHHHHHH-h---
Q 023056 13 NKGAWTKEEDQRLIDYIRAHGEG---CWRSLPKAAGLLRCGKSCRLRWINYLRPDLKRGNFTDEEDELIIKLHSL-L--- 85 (288)
Q Consensus 13 ~kg~WT~eED~~L~~~V~~~g~~---~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~~krg~WT~eED~~L~~lv~~-~--- 85 (288)
.-..||.-|...|+.+.+..... +-.+|++.+.+ |+..++++ |.+.|. +..+.+++.+ |
T Consensus 20 gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~-Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g 85 (344)
T PF11035_consen 20 GPAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPG-RSEAEIRD-FLQQLK------------GRVAREAIQKVHPGG 85 (344)
T ss_pred CcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccC-cCHHHHHH-HHHHHH------------HHHHHHHHHHhcccc
Confidence 34589999999999999877433 34577788888 99988887 444442 3345555554 2
Q ss_pred --cCc------------hhhhhccCCCCCHHHHHHHHHHhhh
Q 023056 86 --GNK------------WSLIAGRLPGRTDNEIKNYWNTHIK 113 (288)
Q Consensus 86 --G~~------------W~~IA~~lpgRT~~qck~Rw~~~l~ 113 (288)
|.+ |..+|..+.|.-...+-.-|-.+|.
T Consensus 86 ~~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 86 LKGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred cccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 111 9999999999999999888887764
No 76
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=48.92 E-value=14 Score=40.65 Aligned_cols=32 Identities=22% Similarity=0.379 Sum_probs=27.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcccccchh
Q 023056 13 NKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAA 44 (288)
Q Consensus 13 ~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~ 44 (288)
++..||.|||..|+-.+.+||.++|..|-..+
T Consensus 925 ~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i 956 (1033)
T PLN03142 925 KGKLYNEECDRFMLCMVHKLGYGNWDELKAAF 956 (1033)
T ss_pred CCCcCCHHHHHHHHHHHHHhccchHHHHHHHH
Confidence 44569999999999999999999999996655
No 77
>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=48.80 E-value=19 Score=27.55 Aligned_cols=30 Identities=27% Similarity=0.465 Sum_probs=25.0
Q ss_pred HHHHHHHHHHhcCchhhhhccCCCCCHHHHH
Q 023056 75 DELIIKLHSLLGNKWSLIAGRLPGRTDNEIK 105 (288)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~lpgRT~~qck 105 (288)
|..|..+....|..|..+|.+| |=|..+|.
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I~ 31 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDIY 31 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 5678889999999999999999 76666553
No 78
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=46.64 E-value=30 Score=26.70 Aligned_cols=45 Identities=13% Similarity=0.123 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHhc-CchhhhhccCCCCCHHHHHHHHHHhhhhHhhc
Q 023056 73 EEDELIIKLHSLLG-NKWSLIAGRLPGRTDNEIKNYWNTHIKRKLLN 118 (288)
Q Consensus 73 eED~~L~~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~l~~~~~~ 118 (288)
+.|.+|+.+....| -.++.||+.+ |-+...++.+...+.+..+..
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 56888888888877 5799999999 999999999999888777655
No 79
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=45.52 E-value=53 Score=26.42 Aligned_cols=45 Identities=11% Similarity=0.178 Sum_probs=31.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhc
Q 023056 13 NKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYL 61 (288)
Q Consensus 13 ~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L 61 (288)
++.+||.|+-..++..+...|. .=..||..++. +.. -..+|.+.+
T Consensus 9 ~rr~ys~EfK~~aV~~~~~~g~-sv~evA~e~gI--s~~-tl~~W~r~y 53 (121)
T PRK09413 9 KRRRRTTQEKIAIVQQSFEPGM-TVSLVARQHGV--AAS-QLFLWRKQY 53 (121)
T ss_pred CCCCCCHHHHHHHHHHHHcCCC-CHHHHHHHHCc--CHH-HHHHHHHHH
Confidence 4678999998888877777663 36788888874 333 335677754
No 80
>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=45.08 E-value=68 Score=30.78 Aligned_cols=45 Identities=22% Similarity=0.468 Sum_probs=35.6
Q ss_pred CCCCChHHHHHHHHHHHHh-cCc---hhhhhccCCCCCHHHHHHHHHHh
Q 023056 67 RGNFTDEEDELIIKLHSLL-GNK---WSLIAGRLPGRTDNEIKNYWNTH 111 (288)
Q Consensus 67 rg~WT~eED~~L~~lv~~~-G~~---W~~IA~~lpgRT~~qck~Rw~~~ 111 (288)
-..||.-|...|+.+.... |.. -..|++.++||+..+|++.-..+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~L 69 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQL 69 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHH
Confidence 4589999999999888766 433 56788999999999999855443
No 81
>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=42.62 E-value=44 Score=26.92 Aligned_cols=28 Identities=18% Similarity=0.281 Sum_probs=23.4
Q ss_pred HhcCchhhhhccCCCCCHHHHHHHHHHhh
Q 023056 84 LLGNKWSLIAGRLPGRTDNEIKNYWNTHI 112 (288)
Q Consensus 84 ~~G~~W~~IA~~lpgRT~~qck~Rw~~~l 112 (288)
..|-.+..||..| |.|...++.+....+
T Consensus 127 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~ 154 (161)
T TIGR02985 127 FEGKSYKEIAEEL-GISVKTVEYHISKAL 154 (161)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3467799999999 999999999987754
No 82
>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=42.26 E-value=53 Score=28.05 Aligned_cols=47 Identities=17% Similarity=0.168 Sum_probs=38.8
Q ss_pred CCCCCChHHHHHHHHHHHHhcCchhhhhccCC----CCCHHHHHHHHHHhh
Q 023056 66 KRGNFTDEEDELIIKLHSLLGNKWSLIAGRLP----GRTDNEIKNYWNTHI 112 (288)
Q Consensus 66 krg~WT~eED~~L~~lv~~~G~~W~~IA~~lp----gRT~~qck~Rw~~~l 112 (288)
....-|..|..-|..|+.+||.++..++.... -.|..||+.+...+.
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 34578999999999999999999999988653 479999998876543
No 83
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=40.94 E-value=31 Score=26.34 Aligned_cols=38 Identities=21% Similarity=0.400 Sum_probs=27.5
Q ss_pred HHHHHHHHhcC--------chhhhhccC--C---CCCHHHHHHHHHHhhhh
Q 023056 77 LIIKLHSLLGN--------KWSLIAGRL--P---GRTDNEIKNYWNTHIKR 114 (288)
Q Consensus 77 ~L~~lv~~~G~--------~W~~IA~~l--p---gRT~~qck~Rw~~~l~~ 114 (288)
.|..+|...|| .|..||..| + ......++..|..+|.+
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 46677777764 599999998 2 22457788888887754
No 84
>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=39.89 E-value=36 Score=26.02 Aligned_cols=31 Identities=26% Similarity=0.381 Sum_probs=25.4
Q ss_pred HHHHHHHHHHhcCchhhhhccCCCCCHHHHHH
Q 023056 75 DELIIKLHSLLGNKWSLIAGRLPGRTDNEIKN 106 (288)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~ 106 (288)
|..|..+....|..|..+|..| |=+...|..
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI~~ 34 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEINQ 34 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHHHH
Confidence 5678888899999999999999 777766543
No 85
>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=39.38 E-value=47 Score=25.04 Aligned_cols=38 Identities=21% Similarity=0.405 Sum_probs=27.0
Q ss_pred HHHHHHHHhcC--------chhhhhccC--C-CCC--HHHHHHHHHHhhhh
Q 023056 77 LIIKLHSLLGN--------KWSLIAGRL--P-GRT--DNEIKNYWNTHIKR 114 (288)
Q Consensus 77 ~L~~lv~~~G~--------~W~~IA~~l--p-gRT--~~qck~Rw~~~l~~ 114 (288)
.|..+|...|| .|..||..| + +-+ +.+++..|..+|.+
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 47777777763 599999998 2 122 36899999888754
No 86
>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=39.27 E-value=28 Score=29.94 Aligned_cols=40 Identities=33% Similarity=0.300 Sum_probs=32.4
Q ss_pred CCChHHHHHHHHHHHHhcCchhhhhccCCCCCHHHHHHHHH
Q 023056 69 NFTDEEDELIIKLHSLLGNKWSLIAGRLPGRTDNEIKNYWN 109 (288)
Q Consensus 69 ~WT~eED~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~ 109 (288)
.||+|+.++|.+|... |-.=+.||..|.|.|.+.|.-+-+
T Consensus 2 ~Wtde~~~~L~~lw~~-G~SasqIA~~lg~vsRnAViGk~h 41 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GLSASQIARQLGGVSRNAVIGKAH 41 (162)
T ss_pred CCCHHHHHHHHHHHHc-CCCHHHHHHHhCCcchhhhhhhhh
Confidence 5999999999988843 666789999996688888876554
No 87
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=39.01 E-value=28 Score=34.90 Aligned_cols=45 Identities=16% Similarity=0.127 Sum_probs=38.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhh
Q 023056 13 NKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWIN 59 (288)
Q Consensus 13 ~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~ 59 (288)
.+..||.||--+|-.+..-|| .++.+|-++|+. |+-.+++.-|..
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~G-K~F~kIrq~LP~-rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFG-KDFHKIRQALPH-RSLASLVQYYYS 230 (534)
T ss_pred CcccchHHHHHHHHHHHHHhc-ccHHHHHHHccC-ccHHHHHHHHHH
Confidence 467899999999999999999 559999999998 998888776644
No 88
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=37.85 E-value=22 Score=26.09 Aligned_cols=18 Identities=28% Similarity=0.601 Sum_probs=15.2
Q ss_pred HHHHHHHHhcCchhhhhc
Q 023056 77 LIIKLHSLLGNKWSLIAG 94 (288)
Q Consensus 77 ~L~~lv~~~G~~W~~IA~ 94 (288)
.|.+|.+.||++|..|-.
T Consensus 31 vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 31 VLKNLLKLYDGNWELIEE 48 (65)
T ss_pred HHHHHHHHHcCCchhhhc
Confidence 577888999999999964
No 89
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=34.47 E-value=41 Score=33.89 Aligned_cols=42 Identities=19% Similarity=0.309 Sum_probs=37.3
Q ss_pred CCCChHHHHHHHHHHHHhcCchhhhh-ccCCCCCHHHHHHHHH
Q 023056 68 GNFTDEEDELIIKLHSLLGNKWSLIA-GRLPGRTDNEIKNYWN 109 (288)
Q Consensus 68 g~WT~eED~~L~~lv~~~G~~W~~IA-~~lpgRT~~qck~Rw~ 109 (288)
..|+..|-.++-++..+||+++..|- .+||-++-..|-.+|+
T Consensus 286 EEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 286 EEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred hhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 36999999999999999999999994 5569999999988775
No 90
>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=34.32 E-value=58 Score=21.14 Aligned_cols=35 Identities=23% Similarity=0.135 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHhcCchhhhhccCCCCCHHHHHHHH
Q 023056 73 EEDELIIKLHSLLGNKWSLIAGRLPGRTDNEIKNYW 108 (288)
Q Consensus 73 eED~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~Rw 108 (288)
-|...|..+...++++....|+.| |=+...+..+-
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~kl 39 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRKL 39 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHH
Confidence 367788899999999999999998 76776666554
No 91
>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=33.92 E-value=30 Score=25.04 Aligned_cols=26 Identities=23% Similarity=0.408 Sum_probs=20.6
Q ss_pred chhhhhccCC-CCCHHHHHHHHHHhhh
Q 023056 88 KWSLIAGRLP-GRTDNEIKNYWNTHIK 113 (288)
Q Consensus 88 ~W~~IA~~lp-gRT~~qck~Rw~~~l~ 113 (288)
-|..||..|. .-+...|+.+|.++..
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~ 54 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRD 54 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHH
Confidence 3999999994 2578899999987554
No 92
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-associati
Probab=32.88 E-value=38 Score=25.50 Aligned_cols=30 Identities=30% Similarity=0.666 Sum_probs=23.8
Q ss_pred HHHHHHHHHHhcCchhhhhccCCCCCHHHHH
Q 023056 75 DELIIKLHSLLGNKWSLIAGRLPGRTDNEIK 105 (288)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~lpgRT~~qck 105 (288)
|..|..+....|..|..+|+.| |=+...|.
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI~ 33 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDID 33 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHHH
Confidence 4567788888999999999999 66665543
No 93
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=32.63 E-value=91 Score=25.85 Aligned_cols=27 Identities=22% Similarity=0.259 Sum_probs=21.2
Q ss_pred hcCchhhhhccCCCCCHHHHHHHHHHhh
Q 023056 85 LGNKWSLIAGRLPGRTDNEIKNYWNTHI 112 (288)
Q Consensus 85 ~G~~W~~IA~~lpgRT~~qck~Rw~~~l 112 (288)
.|-.-..||..| |.+...|+.+....+
T Consensus 133 ~g~s~~EIA~~l-gis~~tV~~~l~ra~ 159 (173)
T PRK09645 133 RGWSTAQIAADL-GIPEGTVKSRLHYAL 159 (173)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 355678999999 899999998876543
No 94
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=32.29 E-value=80 Score=24.73 Aligned_cols=19 Identities=11% Similarity=0.419 Sum_probs=16.0
Q ss_pred CCCCCHHHHHHHHHHHHHh
Q 023056 14 KGAWTKEEDQRLIDYIRAH 32 (288)
Q Consensus 14 kg~WT~eED~~L~~~V~~~ 32 (288)
...||++++-.|++++..|
T Consensus 4 qR~WS~eDEi~iL~gl~~~ 22 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDF 22 (98)
T ss_pred cCCCCchHHHHHHHHHHHH
Confidence 3469999999999988777
No 95
>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=32.27 E-value=39 Score=27.18 Aligned_cols=17 Identities=24% Similarity=0.429 Sum_probs=13.0
Q ss_pred CCCHHHHHHHHHHHHHh
Q 023056 16 AWTKEEDQRLIDYIRAH 32 (288)
Q Consensus 16 ~WT~eED~~L~~~V~~~ 32 (288)
+||++||-.|-..|.+|
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 58999999999999877
No 96
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=31.97 E-value=30 Score=25.28 Aligned_cols=44 Identities=18% Similarity=0.463 Sum_probs=28.5
Q ss_pred HHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhcCCCC-------CCCCCChHHHHHH
Q 023056 22 DQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYLRPDL-------KRGNFTDEEDELI 78 (288)
Q Consensus 22 D~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~~-------krg~WT~eED~~L 78 (288)
+.+|.++|..|| |..+++.+.. | |+. -+|++ ++.+|..+..+.|
T Consensus 12 e~il~~Lv~~yG---W~~L~~~i~i-~----CF~-----~~PsikSSLkFLRkTpWAR~KVE~l 62 (64)
T PF09905_consen 12 ETILTELVEHYG---WEELGERINI-N----CFK-----NNPSIKSSLKFLRKTPWAREKVENL 62 (64)
T ss_dssp HHHHHHHHHHT----HHHHHHHTTS-S----STT-----SS--HHHHHHHHHHSHHHHHHHHHH
T ss_pred HHHHHHHHHHhC---HHHHHhhccc-c----cCC-----CCCchHHHHHHHhcCHhHHHHHHHh
Confidence 567889999999 9999998875 3 221 23443 3567877766654
No 97
>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=31.91 E-value=31 Score=29.64 Aligned_cols=29 Identities=21% Similarity=0.264 Sum_probs=23.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcccccchhcC
Q 023056 16 AWTKEEDQRLIDYIRAHGEGCWRSLPKAAGL 46 (288)
Q Consensus 16 ~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~ 46 (288)
.||+|+.++|.++...-- .=.+||..||+
T Consensus 2 ~Wtde~~~~L~~lw~~G~--SasqIA~~lg~ 30 (162)
T PF07750_consen 2 SWTDERVERLRKLWAEGL--SASQIARQLGG 30 (162)
T ss_pred CCCHHHHHHHHHHHHcCC--CHHHHHHHhCC
Confidence 499999999999875432 25799999994
No 98
>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=31.69 E-value=97 Score=19.52 Aligned_cols=40 Identities=18% Similarity=0.234 Sum_probs=27.3
Q ss_pred CChHHHHHHHHHHHHhcCchhhhhccCCCCCHHHHHHHHHHh
Q 023056 70 FTDEEDELIIKLHSLLGNKWSLIAGRLPGRTDNEIKNYWNTH 111 (288)
Q Consensus 70 WT~eED~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~ 111 (288)
++++ +..++.++-..|-.+..||..+ |-+...|+.+....
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 4455555555678899999998 78888887665543
No 99
>cd08311 Death_p75NR Death domain of p75 Neurotophin Receptor. Death Domain (DD) found in p75 neurotrophin receptor (p75NTR, NGFR, TNFRSF16). p75NTR binds members of the neurotrophin (NT) family including nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT3, among others. It contains an NT-binding extracellular region that bears four cysteine-rich repeats, a transmembrane domain, and an intracellular DD. p75NTR plays roles in the immune, vascular, and nervous systems, and has been shown to promote cell death or survival, and to induce neurite outgrowth or collapse depending on its ligands and co-receptors. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptor
Probab=31.40 E-value=40 Score=25.33 Aligned_cols=33 Identities=33% Similarity=0.569 Sum_probs=25.3
Q ss_pred hHHHHHHHHHHHHhcCchhhhhccCCCCCHHHHHH
Q 023056 72 DEEDELIIKLHSLLGNKWSLIAGRLPGRTDNEIKN 106 (288)
Q Consensus 72 ~eED~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~ 106 (288)
.||.++|+..- ..|.+|...|..| |=+...|..
T Consensus 2 ~~~v~~ll~~~-nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLESG-RPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhCC-CCccCHHHHHHHc-CCCHHHHHH
Confidence 57888888322 4578999999999 878877765
No 100
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=31.01 E-value=68 Score=26.20 Aligned_cols=47 Identities=15% Similarity=0.148 Sum_probs=39.0
Q ss_pred hHHHHHHHHHHHHhc-CchhhhhccCCCCCHHHHHHHHHHhhhhHhhcC
Q 023056 72 DEEDELIIKLHSLLG-NKWSLIAGRLPGRTDNEIKNYWNTHIKRKLLNR 119 (288)
Q Consensus 72 ~eED~~L~~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~l~~~~~~~ 119 (288)
.+-|.+|+.+...-+ ..+..||+.+ |-|...|+.|-..+.+..+.++
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI~~ 54 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVIKG 54 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCceee
Confidence 356788888888877 6799999999 9999999999988887776553
No 101
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=30.96 E-value=66 Score=25.23 Aligned_cols=47 Identities=15% Similarity=0.206 Sum_probs=30.2
Q ss_pred CCCChHHHHHHHHHHHHh----c----Cchhhh----hccC-CCCCHHHHHHHHHHhhhh
Q 023056 68 GNFTDEEDELIIKLHSLL----G----NKWSLI----AGRL-PGRTDNEIKNYWNTHIKR 114 (288)
Q Consensus 68 g~WT~eED~~L~~lv~~~----G----~~W~~I----A~~l-pgRT~~qck~Rw~~~l~~ 114 (288)
..||++++..|++.+..| | ..|..+ ...| ..=+..|+.++-+.+-++
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~K 64 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKK 64 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHH
Confidence 359999999999999877 5 234433 3333 223777777776664433
No 102
>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=30.93 E-value=76 Score=24.72 Aligned_cols=33 Identities=27% Similarity=0.227 Sum_probs=24.7
Q ss_pred HHHHHhcCchhhhhccCCCCCHHHHHHHHHHhhh
Q 023056 80 KLHSLLGNKWSLIAGRLPGRTDNEIKNYWNTHIK 113 (288)
Q Consensus 80 ~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~l~ 113 (288)
.++-..|..+..||..+ |-+...++.+....++
T Consensus 120 ~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~ 152 (158)
T TIGR02937 120 VLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARK 152 (158)
T ss_pred hhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 33334577899999999 7789999888877543
No 103
>cd08804 Death_ank2 Death domain of Ankyrin-2. Death Domain (DD) of Ankyrin-2 (ANK-2) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-2, also called ankyrin-B (for broadly expressed), is required for proper function of the Na/Ca ion exchanger-1 in cardiomyocytes, and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. Human ANK-2 is associated with "Ankyrin-B syndrome", an atypical arrythmia disorder with risk of sudden cardiac death. It also plays key roles in the brain and striated muscle. Loss of ANK-2 is associated with significant nervous system defects and sarcomere disorganization. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other
Probab=30.70 E-value=51 Score=25.05 Aligned_cols=31 Identities=26% Similarity=0.475 Sum_probs=25.5
Q ss_pred HHHHHHHHHHhcCchhhhhccCCCCCHHHHHH
Q 023056 75 DELIIKLHSLLGNKWSLIAGRLPGRTDNEIKN 106 (288)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~ 106 (288)
|..|-.+....|.+|..+|+.| |=+...|..
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI~~ 34 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQIHQ 34 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 4567778888999999999999 777777654
No 104
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=30.14 E-value=70 Score=27.44 Aligned_cols=36 Identities=19% Similarity=0.266 Sum_probs=27.5
Q ss_pred HHHHHHHHHhcCchhhhhccCCCCCHHHHHHHHHHhh
Q 023056 76 ELIIKLHSLLGNKWSLIAGRLPGRTDNEIKNYWNTHI 112 (288)
Q Consensus 76 ~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~l 112 (288)
..++.+....|-.+..||..| |-|...++.+|...-
T Consensus 141 ~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR 176 (185)
T PF07638_consen 141 RRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR 176 (185)
T ss_pred HHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 344444444567899999999 999999999997654
No 105
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=29.83 E-value=55 Score=24.87 Aligned_cols=27 Identities=33% Similarity=0.597 Sum_probs=21.2
Q ss_pred HHHHHHHhcCchhhhhccCCCCCHHHHH
Q 023056 78 IIKLHSLLGNKWSLIAGRLPGRTDNEIK 105 (288)
Q Consensus 78 L~~lv~~~G~~W~~IA~~lpgRT~~qck 105 (288)
|..+....|..|..+|+.| |-+..+|.
T Consensus 10 l~~ia~~iG~~Wk~Lar~L-Gls~~dI~ 36 (86)
T cd08318 10 ITVFANKLGEDWKTLAPHL-EMKDKEIR 36 (86)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 3446678899999999999 77777663
No 106
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=29.27 E-value=51 Score=25.22 Aligned_cols=30 Identities=37% Similarity=0.566 Sum_probs=24.0
Q ss_pred HHHHHHHHHhcCchhhhhccCCCCCHHHHHH
Q 023056 76 ELIIKLHSLLGNKWSLIAGRLPGRTDNEIKN 106 (288)
Q Consensus 76 ~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~ 106 (288)
+.|-.+....|.+|..+|+.| |=+..+|..
T Consensus 3 ~~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 3 KHLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 345566678899999999999 888887765
No 107
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=29.22 E-value=38 Score=27.76 Aligned_cols=45 Identities=11% Similarity=0.144 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhcCCCC
Q 023056 19 KEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYLRPDL 65 (288)
Q Consensus 19 ~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~~ 65 (288)
.+-|.+++++++..+...+..||+.++ -+...|+.|-.+..+..+
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~lg--lS~~~v~~Ri~~L~~~Gi 51 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERVG--LSPSTVLRRIKRLEEEGV 51 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCc
Confidence 356889999999999989999999999 788899998877765543
No 108
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=28.68 E-value=54 Score=24.23 Aligned_cols=31 Identities=32% Similarity=0.567 Sum_probs=22.7
Q ss_pred HHHHHHHHHHH-hcCchhhhhccCCCCCHHHHH
Q 023056 74 EDELIIKLHSL-LGNKWSLIAGRLPGRTDNEIK 105 (288)
Q Consensus 74 ED~~L~~lv~~-~G~~W~~IA~~lpgRT~~qck 105 (288)
-+..|..++.. .|.+|..+|+.| |-+...|.
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i~ 35 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKL-GLSEADID 35 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHc-CCCHHHHH
Confidence 34566677777 789999999999 55555543
No 109
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=27.58 E-value=94 Score=25.56 Aligned_cols=28 Identities=14% Similarity=0.107 Sum_probs=22.2
Q ss_pred HhcCchhhhhccCCCCCHHHHHHHHHHhh
Q 023056 84 LLGNKWSLIAGRLPGRTDNEIKNYWNTHI 112 (288)
Q Consensus 84 ~~G~~W~~IA~~lpgRT~~qck~Rw~~~l 112 (288)
..|-.+..||..| |.+...++.+....+
T Consensus 142 ~~~~s~~eIA~~l-gis~~tV~~~l~ra~ 169 (182)
T PRK09652 142 IEGLSYEEIAEIM-GCPIGTVRSRIFRAR 169 (182)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3466799999999 889999988776543
No 110
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=27.43 E-value=56 Score=25.14 Aligned_cols=43 Identities=14% Similarity=0.172 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhhhcCCC
Q 023056 20 EEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWINYLRPD 64 (288)
Q Consensus 20 eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~~L~p~ 64 (288)
+.|.+++.++...+.-.+..||+.++ -+...++.|..+.....
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l~--~s~~tv~~~l~~L~~~g 45 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKVG--LSPSTVHNRVKRLEEEG 45 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCC
Confidence 57889999999998888999999998 68888888887765544
No 111
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=26.37 E-value=99 Score=25.36 Aligned_cols=27 Identities=22% Similarity=0.161 Sum_probs=21.8
Q ss_pred hcCchhhhhccCCCCCHHHHHHHHHHhh
Q 023056 85 LGNKWSLIAGRLPGRTDNEIKNYWNTHI 112 (288)
Q Consensus 85 ~G~~W~~IA~~lpgRT~~qck~Rw~~~l 112 (288)
.|-.+..||..| |-|...|+.++...+
T Consensus 140 ~~~~~~eIA~~l-gis~~tv~~~~~ra~ 166 (179)
T PRK11924 140 EGLSYREIAEIL-GVPVGTVKSRLRRAR 166 (179)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 456799999999 889999988876544
No 112
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=25.72 E-value=66 Score=33.31 Aligned_cols=47 Identities=13% Similarity=0.287 Sum_probs=41.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCcccccchhcCccchhhhhhhhhh
Q 023056 11 HTNKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLLRCGKSCRLRWIN 59 (288)
Q Consensus 11 ~~~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~Rs~~qcr~Rw~~ 59 (288)
....++||.+|-++...+....|.. ...|+..+++ |..++++..|..
T Consensus 406 ~~~~~~w~~se~e~fyka~~~~gs~-~slis~l~p~-R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 406 KLETDKWDASETELFYKALSERGSD-FSLISNLFPL-RDRKQIKAKFKK 452 (584)
T ss_pred ccccCcccchhhHHhhhHHhhhccc-cccccccccc-ccHHHHHHHHhh
Confidence 3457899999999999999999955 9999999998 999999998754
No 113
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=24.76 E-value=1.1e+02 Score=26.05 Aligned_cols=27 Identities=19% Similarity=0.118 Sum_probs=22.2
Q ss_pred hcCchhhhhccCCCCCHHHHHHHHHHhh
Q 023056 85 LGNKWSLIAGRLPGRTDNEIKNYWNTHI 112 (288)
Q Consensus 85 ~G~~W~~IA~~lpgRT~~qck~Rw~~~l 112 (288)
.|-....||..| |-+...++.|+...+
T Consensus 149 ~g~s~~EIA~~l-g~s~~tV~~rl~rar 175 (192)
T PRK09643 149 QGYSVADAARML-GVAEGTVKSRCARGR 175 (192)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 456799999999 999999999985433
No 114
>PRK04217 hypothetical protein; Provisional
Probab=24.62 E-value=1.3e+02 Score=24.23 Aligned_cols=43 Identities=16% Similarity=0.041 Sum_probs=34.0
Q ss_pred CCCChHHHHHHHHHHHHhcCchhhhhccCCCCCHHHHHHHHHHhh
Q 023056 68 GNFTDEEDELIIKLHSLLGNKWSLIAGRLPGRTDNEIKNYWNTHI 112 (288)
Q Consensus 68 g~WT~eED~~L~~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~l 112 (288)
..-|.+| ..++.+....|-....||+.+ |-+...++.++....
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RAr 83 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSAR 83 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 3456666 566677777778899999999 999999999987644
No 115
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=24.22 E-value=74 Score=24.34 Aligned_cols=28 Identities=18% Similarity=0.324 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhcCchhhhhccCCCCCHHH
Q 023056 75 DELIIKLHSLLGNKWSLIAGRLPGRTDNE 103 (288)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~lpgRT~~q 103 (288)
|.+|..+.+..|..|..+|..| |=+...
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L-~vs~~d 31 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL-QFSVED 31 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc-CCCHHH
Confidence 5567788889999999999998 545443
No 116
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=23.45 E-value=68 Score=31.42 Aligned_cols=42 Identities=12% Similarity=0.175 Sum_probs=34.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccccc-chhcCccchhhhhhhhh
Q 023056 15 GAWTKEEDQRLIDYIRAHGEGCWRSLP-KAAGLLRCGKSCRLRWI 58 (288)
Q Consensus 15 g~WT~eED~~L~~~V~~~g~~~W~~Ia-~~~~~~Rs~~qcr~Rw~ 58 (288)
..|+.+|-..+.+.++.|| +++-.|- ..+.+ |+...|..-|+
T Consensus 278 ~~wsEeEcr~FEegl~~yG-KDF~lIr~nkvrt-RsvgElVeyYY 320 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYG-KDFHLIRANKVRT-RSVGELVEYYY 320 (445)
T ss_pred ccCCHHHHHHHHHHHHHhc-ccHHHHHhccccc-chHHHHHHHHH
Confidence 3699999999999999999 5588775 45777 99999988664
No 117
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=23.35 E-value=47 Score=37.29 Aligned_cols=25 Identities=20% Similarity=0.441 Sum_probs=23.6
Q ss_pred CCChHHHHHHHHHHHHhc-Cchhhhh
Q 023056 69 NFTDEEDELIIKLHSLLG-NKWSLIA 93 (288)
Q Consensus 69 ~WT~eED~~L~~lv~~~G-~~W~~IA 93 (288)
.|..++|..|+-.|-+|| ++|..|-
T Consensus 1135 ~W~~e~Ds~LLiGI~khGygswe~Ir 1160 (1373)
T KOG0384|consen 1135 DWGSEDDSMLLIGIFKHGYGSWEAIR 1160 (1373)
T ss_pred CCCchhhhhHhhhhhhcccccHHHhc
Confidence 699999999999999999 9999984
No 118
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=22.63 E-value=1.3e+02 Score=25.13 Aligned_cols=27 Identities=11% Similarity=-0.087 Sum_probs=21.2
Q ss_pred hcCchhhhhccCCCCCHHHHHHHHHHhh
Q 023056 85 LGNKWSLIAGRLPGRTDNEIKNYWNTHI 112 (288)
Q Consensus 85 ~G~~W~~IA~~lpgRT~~qck~Rw~~~l 112 (288)
.|..+..||..| |-|...++++.....
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar 177 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGR 177 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 356689999999 889999988876544
No 119
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members
Probab=22.27 E-value=84 Score=23.91 Aligned_cols=27 Identities=26% Similarity=0.447 Sum_probs=21.5
Q ss_pred HHHHHHHHHhcCchhhhhccCCCCCHHH
Q 023056 76 ELIIKLHSLLGNKWSLIAGRLPGRTDNE 103 (288)
Q Consensus 76 ~~L~~lv~~~G~~W~~IA~~lpgRT~~q 103 (288)
..|..+....|..|..+|..| |=+...
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L-Glse~~ 29 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL-GLSYRE 29 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc-CCCHHH
Confidence 467888999999999999998 544443
No 120
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=21.65 E-value=1.5e+02 Score=24.56 Aligned_cols=30 Identities=27% Similarity=0.429 Sum_probs=23.7
Q ss_pred HhcCchhhhhccCCCCCHHHHHHHHHHhhhh
Q 023056 84 LLGNKWSLIAGRLPGRTDNEIKNYWNTHIKR 114 (288)
Q Consensus 84 ~~G~~W~~IA~~lpgRT~~qck~Rw~~~l~~ 114 (288)
..|-....||..| |-+...|+.+-...++.
T Consensus 133 ~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 162 (172)
T PRK12523 133 LDGMGHAEIAERL-GVSVSRVRQYLAQGLRQ 162 (172)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466789999999 99999999987665543
No 121
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=20.90 E-value=1.5e+02 Score=25.14 Aligned_cols=27 Identities=22% Similarity=0.069 Sum_probs=21.9
Q ss_pred hcCchhhhhccCCCCCHHHHHHHHHHhh
Q 023056 85 LGNKWSLIAGRLPGRTDNEIKNYWNTHI 112 (288)
Q Consensus 85 ~G~~W~~IA~~lpgRT~~qck~Rw~~~l 112 (288)
.|-....||..| |-+...|+.+....+
T Consensus 121 ~g~~~~EIA~~l-gis~~tV~~~l~Rar 147 (181)
T PRK09637 121 EGLSQKEIAEKL-GLSLSGAKSRVQRGR 147 (181)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHH
Confidence 456799999999 899999998876544
No 122
>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=20.40 E-value=1e+02 Score=26.25 Aligned_cols=48 Identities=15% Similarity=0.228 Sum_probs=32.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCcccccchhcCc---cchhhhhhhhhhh
Q 023056 12 TNKGAWTKEEDQRLIDYIRAHGEGCWRSLPKAAGLL---RCGKSCRLRWINY 60 (288)
Q Consensus 12 ~~kg~WT~eED~~L~~~V~~~g~~~W~~Ia~~~~~~---Rs~~qcr~Rw~~~ 60 (288)
.....-|..|.+-|..+|.+||+ |+...|.-.-.+ .|..|++.+...+
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 34567889999999999999994 477666432211 5566665554443
No 123
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=20.10 E-value=1.6e+02 Score=24.31 Aligned_cols=27 Identities=19% Similarity=0.315 Sum_probs=21.0
Q ss_pred cCchhhhhccCCCCCHHHHHHHHHHhhh
Q 023056 86 GNKWSLIAGRLPGRTDNEIKNYWNTHIK 113 (288)
Q Consensus 86 G~~W~~IA~~lpgRT~~qck~Rw~~~l~ 113 (288)
|-....||..| |-|...++.+....++
T Consensus 135 g~s~~eiA~~l-gis~~tv~~~l~Ra~~ 161 (169)
T TIGR02954 135 DLTIKEIAEVM-NKPEGTVKTYLHRALK 161 (169)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 55688888888 8899999888776543
Done!