Query 014135
Match_columns 430
No_of_seqs 271 out of 1777
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 02:11:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014135.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014135hhsearch_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 5E-119 1E-123 913.1 26.8 416 1-429 1-459 (459)
2 PLN03212 Transcription repress 100.0 8.2E-34 1.8E-38 272.8 10.6 128 3-130 14-141 (249)
3 KOG0048 Transcription factor, 100.0 2.8E-31 6E-36 256.4 11.6 120 9-128 4-123 (238)
4 KOG0049 Transcription factor, 99.9 5E-22 1.1E-26 209.5 8.2 150 3-152 242-447 (939)
5 PLN03091 hypothetical protein; 99.9 6.9E-21 1.5E-25 195.5 14.5 103 62-164 9-113 (459)
6 KOG0049 Transcription factor, 99.8 5.9E-21 1.3E-25 201.4 5.9 113 1-114 347-460 (939)
7 KOG0048 Transcription factor, 99.8 5.2E-20 1.1E-24 178.1 4.4 104 63-166 5-110 (238)
8 PLN03212 Transcription repress 99.8 5E-19 1.1E-23 170.9 6.4 113 44-164 10-124 (249)
9 PF13921 Myb_DNA-bind_6: Myb-l 99.6 6.7E-16 1.4E-20 118.5 3.3 60 17-78 1-60 (60)
10 COG5147 REB1 Myb superfamily p 99.5 1E-14 2.2E-19 154.1 7.0 109 8-117 14-122 (512)
11 KOG0050 mRNA splicing protein 99.5 9.6E-15 2.1E-19 152.0 3.6 106 12-119 5-110 (617)
12 KOG0051 RNA polymerase I termi 99.4 1.1E-13 2.3E-18 147.9 5.2 136 13-151 383-554 (607)
13 PF13921 Myb_DNA-bind_6: Myb-l 99.4 2.1E-13 4.6E-18 104.6 2.0 59 70-128 1-59 (60)
14 PF00249 Myb_DNA-binding: Myb- 99.3 2.8E-12 6.2E-17 94.7 5.0 46 67-112 1-48 (48)
15 PF00249 Myb_DNA-binding: Myb- 99.3 4.6E-13 1E-17 98.9 0.4 48 14-61 1-48 (48)
16 smart00717 SANT SANT SWI3, AD 99.1 1.8E-10 4E-15 82.4 5.6 47 67-113 1-48 (49)
17 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 1.4E-09 2.9E-14 76.8 5.6 44 69-112 1-45 (45)
18 smart00717 SANT SANT SWI3, AD 98.9 3.4E-10 7.4E-15 80.9 2.0 48 14-62 1-48 (49)
19 KOG0051 RNA polymerase I termi 98.9 8E-10 1.7E-14 118.6 4.3 120 13-134 307-452 (607)
20 cd00167 SANT 'SWI3, ADA2, N-Co 98.8 2.1E-09 4.6E-14 75.8 1.7 44 16-60 1-44 (45)
21 KOG0050 mRNA splicing protein 98.5 5.6E-08 1.2E-12 102.2 2.8 86 65-150 5-91 (617)
22 COG5147 REB1 Myb superfamily p 98.5 4.5E-08 9.7E-13 104.2 2.0 97 64-160 17-114 (512)
23 TIGR01557 myb_SHAQKYF myb-like 97.7 2.3E-05 4.9E-10 60.8 2.1 49 13-61 2-54 (57)
24 TIGR01557 myb_SHAQKYF myb-like 97.5 0.00025 5.3E-09 55.0 5.8 47 67-113 3-55 (57)
25 KOG0457 Histone acetyltransfer 97.5 3.5E-05 7.6E-10 80.3 1.4 51 11-62 69-119 (438)
26 KOG0457 Histone acetyltransfer 97.4 0.00028 6.1E-09 73.7 5.9 49 64-112 69-118 (438)
27 TIGR02894 DNA_bind_RsfA transc 97.1 0.00063 1.4E-08 62.9 4.7 52 66-118 3-61 (161)
28 PF13325 MCRS_N: N-terminal re 97.1 0.001 2.2E-08 63.7 5.8 100 16-117 1-131 (199)
29 COG5259 RSC8 RSC chromatin rem 96.7 0.00054 1.2E-08 72.2 1.0 46 13-60 278-323 (531)
30 PF13837 Myb_DNA-bind_4: Myb/S 96.6 0.0016 3.4E-08 53.2 3.1 51 67-117 1-69 (90)
31 COG5259 RSC8 RSC chromatin rem 96.5 0.0033 7.1E-08 66.5 4.8 45 67-111 279-323 (531)
32 KOG1279 Chromatin remodeling f 96.5 0.0013 2.7E-08 70.8 1.7 47 12-60 251-297 (506)
33 KOG1279 Chromatin remodeling f 96.4 0.0042 9.2E-08 66.9 5.3 46 66-111 252-297 (506)
34 PF08914 Myb_DNA-bind_2: Rap1 96.4 0.0047 1E-07 49.2 4.1 51 67-117 2-62 (65)
35 TIGR02894 DNA_bind_RsfA transc 95.9 0.0028 6E-08 58.7 0.8 49 12-62 2-56 (161)
36 PRK13923 putative spore coat p 95.9 0.0097 2.1E-07 55.7 4.2 52 65-117 3-61 (170)
37 PF13873 Myb_DNA-bind_5: Myb/S 95.4 0.044 9.5E-07 43.9 6.0 49 67-115 2-72 (78)
38 PF13837 Myb_DNA-bind_4: Myb/S 95.4 0.0034 7.4E-08 51.1 -0.5 46 15-60 2-63 (90)
39 COG5114 Histone acetyltransfer 95.1 0.02 4.4E-07 58.2 3.8 48 66-113 62-110 (432)
40 PF08914 Myb_DNA-bind_2: Rap1 95.1 0.0061 1.3E-07 48.5 -0.0 52 14-65 2-61 (65)
41 COG5114 Histone acetyltransfer 94.5 0.01 2.2E-07 60.4 -0.0 48 14-62 63-110 (432)
42 PLN03142 Probable chromatin-re 94.2 0.12 2.5E-06 60.5 7.7 101 16-117 826-989 (1033)
43 PRK13923 putative spore coat p 94.1 0.011 2.3E-07 55.4 -0.7 50 11-62 2-57 (170)
44 PF13873 Myb_DNA-bind_5: Myb/S 93.9 0.013 2.9E-07 46.9 -0.6 49 13-61 1-69 (78)
45 KOG2656 DNA methyltransferase 90.5 0.44 9.6E-06 49.9 5.4 86 36-122 75-191 (445)
46 KOG4282 Transcription factor G 90.1 0.55 1.2E-05 48.0 5.7 51 67-117 54-118 (345)
47 PF12776 Myb_DNA-bind_3: Myb/S 88.6 1 2.2E-05 37.0 5.3 46 69-114 1-64 (96)
48 COG5118 BDP1 Transcription ini 87.9 0.72 1.6E-05 48.3 4.7 45 68-112 366-410 (507)
49 PF09111 SLIDE: SLIDE; InterP 87.4 0.95 2E-05 40.1 4.6 53 64-116 46-114 (118)
50 KOG4167 Predicted DNA-binding 85.4 0.63 1.4E-05 52.2 3.0 44 14-59 619-662 (907)
51 KOG4282 Transcription factor G 77.6 1 2.2E-05 46.0 1.1 48 14-61 54-113 (345)
52 PF09111 SLIDE: SLIDE; InterP 77.2 1.9 4.1E-05 38.3 2.5 47 10-56 45-105 (118)
53 PF11626 Rap1_C: TRF2-interact 77.0 1.4 3E-05 36.6 1.5 30 10-42 43-80 (87)
54 KOG4468 Polycomb-group transcr 77.0 4.6 9.9E-05 44.7 5.7 61 66-127 87-157 (782)
55 PF08281 Sigma70_r4_2: Sigma-7 75.6 5.8 0.00013 29.2 4.5 41 72-113 12-52 (54)
56 KOG1194 Predicted DNA-binding 72.9 6.8 0.00015 42.1 5.6 48 66-113 186-233 (534)
57 smart00595 MADF subfamily of S 72.6 5.6 0.00012 32.2 4.0 26 89-115 30-55 (89)
58 COG5118 BDP1 Transcription ini 68.0 3.4 7.3E-05 43.5 2.1 48 10-59 361-408 (507)
59 PF13404 HTH_AsnC-type: AsnC-t 61.0 15 0.00033 26.6 3.8 38 73-111 3-41 (42)
60 KOG0384 Chromodomain-helicase 60.2 8 0.00017 46.1 3.5 75 15-96 1134-1209(1373)
61 KOG4167 Predicted DNA-binding 60.2 13 0.00029 42.1 5.0 44 67-110 619-662 (907)
62 KOG2656 DNA methyltransferase 57.6 4.5 9.8E-05 42.6 0.9 49 11-60 127-180 (445)
63 PRK11179 DNA-binding transcrip 56.9 20 0.00043 32.4 4.8 44 73-117 9-53 (153)
64 PF11035 SnAPC_2_like: Small n 55.7 29 0.00063 35.9 6.2 91 9-113 16-127 (344)
65 KOG4329 DNA-binding protein [G 55.6 32 0.0007 36.3 6.6 43 68-110 278-321 (445)
66 PF12776 Myb_DNA-bind_3: Myb/S 55.3 7.5 0.00016 31.8 1.7 44 16-59 1-60 (96)
67 PF11626 Rap1_C: TRF2-interact 53.8 13 0.00027 30.9 2.8 17 63-79 43-59 (87)
68 PF04545 Sigma70_r4: Sigma-70, 52.6 27 0.00058 25.4 4.1 41 73-114 7-47 (50)
69 PF13325 MCRS_N: N-terminal re 52.5 24 0.00053 34.1 4.9 45 69-114 1-48 (199)
70 PF01388 ARID: ARID/BRIGHT DNA 52.0 30 0.00065 28.3 4.8 39 76-114 39-90 (92)
71 PF11035 SnAPC_2_like: Small n 47.7 60 0.0013 33.7 7.0 49 67-115 21-73 (344)
72 PRK11169 leucine-responsive tr 47.3 27 0.00059 31.9 4.2 45 72-117 13-58 (164)
73 smart00501 BRIGHT BRIGHT, ARID 47.2 36 0.00078 28.1 4.6 40 76-115 35-87 (93)
74 PF13404 HTH_AsnC-type: AsnC-t 46.0 6.6 0.00014 28.5 -0.1 38 20-59 3-40 (42)
75 KOG4468 Polycomb-group transcr 43.1 21 0.00045 39.8 3.1 48 14-62 88-144 (782)
76 KOG2009 Transcription initiati 41.0 28 0.00061 38.7 3.7 45 66-110 408-452 (584)
77 TIGR02985 Sig70_bacteroi1 RNA 40.9 52 0.0011 28.4 4.8 38 76-114 119-156 (161)
78 PF07750 GcrA: GcrA cell cycle 37.3 41 0.00088 31.3 3.7 41 69-110 2-42 (162)
79 PRK11179 DNA-binding transcrip 36.5 13 0.00028 33.6 0.3 44 19-64 8-51 (153)
80 PF10545 MADF_DNA_bdg: Alcohol 34.8 41 0.00088 26.3 2.9 27 89-115 29-56 (85)
81 PF04504 DUF573: Protein of un 33.4 72 0.0016 27.2 4.3 49 68-116 5-66 (98)
82 cd08319 Death_RAIDD Death doma 32.9 59 0.0013 27.1 3.6 29 75-104 2-30 (83)
83 PRK11169 leucine-responsive tr 32.2 13 0.00028 34.0 -0.4 46 18-65 12-57 (164)
84 cd08803 Death_ank3 Death domai 28.6 83 0.0018 26.2 3.8 28 75-103 4-31 (84)
85 PF09420 Nop16: Ribosome bioge 28.4 1.1E+02 0.0023 28.3 5.0 47 66-112 113-163 (164)
86 smart00344 HTH_ASNC helix_turn 27.9 98 0.0021 25.7 4.3 43 73-116 3-46 (108)
87 TIGR02937 sigma70-ECF RNA poly 27.8 1.2E+02 0.0026 25.3 4.8 34 80-114 120-153 (158)
88 KOG1194 Predicted DNA-binding 27.5 33 0.00072 37.1 1.5 48 10-59 183-230 (534)
89 cd06171 Sigma70_r4 Sigma70, re 25.3 1.6E+02 0.0035 20.0 4.4 36 74-110 14-49 (55)
90 PRK09645 RNA polymerase sigma 25.0 1.6E+02 0.0035 26.2 5.4 29 85-114 133-161 (173)
91 PRK09652 RNA polymerase sigma 24.8 1.5E+02 0.0032 26.2 5.1 33 81-114 139-171 (182)
92 PF07638 Sigma70_ECF: ECF sigm 24.6 1.5E+02 0.0032 27.4 5.2 38 74-112 139-176 (185)
93 PRK11924 RNA polymerase sigma 24.3 1.2E+02 0.0027 26.6 4.5 30 84-114 139-168 (179)
94 cd08317 Death_ank Death domain 23.8 87 0.0019 25.5 3.1 28 75-103 4-31 (84)
95 PF04504 DUF573: Protein of un 23.5 1.2E+02 0.0026 25.8 4.0 72 13-85 3-95 (98)
96 KOG2009 Transcription initiati 23.5 53 0.0011 36.6 2.2 51 7-59 402-452 (584)
97 PF02954 HTH_8: Bacterial regu 22.8 1.6E+02 0.0034 20.9 3.9 34 73-107 5-38 (42)
98 PRK09643 RNA polymerase sigma 21.9 1.5E+02 0.0033 27.3 4.7 31 83-114 147-177 (192)
99 cd08804 Death_ank2 Death domai 21.6 1.2E+02 0.0025 25.1 3.4 30 75-105 4-33 (84)
100 cd08779 Death_PIDD Death Domai 21.6 82 0.0018 26.1 2.6 34 76-109 3-38 (86)
101 cd08805 Death_ank1 Death domai 20.7 95 0.0021 25.9 2.7 35 75-109 4-40 (84)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=5.3e-119 Score=913.08 Aligned_cols=416 Identities=67% Similarity=1.102 Sum_probs=364.4
Q ss_pred CCCCcccccCCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccccCCCCCCCCCCHHHHHHHHH
Q 014135 1 MGRHSCCYKQKLRKGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGAFSVQEESLIVE 80 (430)
Q Consensus 1 mgR~~~~~kp~lkKg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~~Lle 80 (430)
|||+.||+|++++|++||+|||++|+++|++||.++|..||+.++.+|+++|||+||.++|+|.+++++||+|||++|++
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999998778999999999999999999999999999999999
Q ss_pred HHHHhCCchhHHhhhCCCCCHHHHHHHHhhhhhHHHHhCCCCCCCCCcchhhhhhhcchhhHhhccCCchhh--hhhhh-
Q 014135 81 LHAVLGNRWSQIAAQLPGRTDDEIKNLWNSSIKKKLRQRGIDPNTHKPLSEVENDKEQQLTVINKNSDKASA--ESSKD- 157 (430)
Q Consensus 81 lv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk~lkk~~~~~~edk~L~e~~~~~g~~w~~Iak~~~k~~~--~~~k~- 157 (430)
++++||++|.+||+.|+|||+++||+||+.+++++++.+++++.+++++.+.+......-.. .....++.+ ....+
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~kpl~e~E~~~d~~p~~-~~~~~~~s~~~~~el~~ 159 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPLSEVENGEDKNPPT-DDKSDKASSVVSNELNL 159 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCCCCccccccccccCCcc-ccccccchhhhhhhhhh
Confidence 99999999999999999999999999999999999999999999999999877654432100 000000000 00000
Q ss_pred HHHhhcCcC--------------------ccCC-------------CcCCCCCCCCCcccccchhhhhhhhccCCCCCcc
Q 014135 158 LAAEIMHPL--------------------EVSS-------------SSEINTNNNNNASMLNLVDKFAAAASNNESSTTS 204 (430)
Q Consensus 158 ~~~~~~~~~--------------------e~ss-------------Ssn~~~~~~n~~~~~~~~d~~~~~a~~~~~~~~s 204 (430)
....+.++. |..+ .++.+....+++ ||+|+|++ +||+++++
T Consensus 160 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~fld~~~~---~~~~~~~~ 233 (459)
T PLN03091 160 LKADNSKPLAALQEKRSSSISPAGYQLEVESSSSSKINNSNNNNHSNSNLMTPTPNKD---FFLDRFTT---SHESSTTS 233 (459)
T ss_pred hhhhccCccccchhcccccccccccccccccccccccccccccCCccccccCCCCcch---hhhhhhcc---ccccCccC
Confidence 111111111 1111 223344445555 89999987 89999999
Q ss_pred cCC-CCCCCCCCccCCCCCCCCCCCCCCCCcccccCCCCCcccccccccccccccc-ccccC----CCcccCCCCCCCCC
Q 014135 205 CRP-DLMGYFPFQKLNYGPNIGLSVNTNTSSLFFNPNSTSSEMISEFNSSIIPSIS-ASVFQ----TPIRVKPSISLPSE 278 (430)
Q Consensus 205 c~p-d~~~yf~~q~l~y~~~~~~~~~~~~~~l~f~~~~~~~~~~s~f~~~~~~si~-~~~~~----s~~~~~p~~~~~~~ 278 (430)
|+| |++||||||+|+|+++++++++++ ++|||+|++++|+||+||+++|+++|| |+|++ ++++|||+|+||+|
T Consensus 234 c~ps~~~~~f~~qql~y~~~~~~s~~~~-~~~~~~~~~~~~~~~~e~~~s~~~~~~~p~~~~s~~~~~~~~k~~~~~p~~ 312 (459)
T PLN03091 234 CRPSDLVGHFPFQQLNYASNARLSTNPN-PTLWFSQNSKSFEMNSEFSSSMTPSILPPSVTSSFLPTPMSYKPSISLPSD 312 (459)
T ss_pred CCCCccccccchhhcccccccccCcCCC-cceeeccCCCcccccccccccccccccCCCcccccccCccccccccCCCCC
Confidence 999 999999999999999999999999 999999999999999999999999998 67766 48999999999999
Q ss_pred CCCCCCCCCCCccccCCCCCCCCCCCCCCCCCcccccccccccCCccccccccccCCCCchHHHHHhhhcCCcccccccc
Q 014135 279 NPSVGTSDINGIQNWEPSSFSNNCSTSNGSTTSIELQSSSSFFEGNVFSWGITADCGKSNDQEAQIRALEGDQEDIKWSE 358 (430)
Q Consensus 279 ~~~~~~~~~~g~~~w~~~~~~n~~~s~~~s~~s~~~~s~s~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~e~~kw~e 358 (430)
||++++++++|++|||+++++|++++++||++|+||||+|+||||++|+|||| ||+ .+|||+|+|.++.++|||||+|
T Consensus 313 n~s~~s~~~~~~~~we~~~~sn~~~~~~~~~~s~e~qs~ss~f~n~~fsw~~~-d~~-~s~k~~q~h~~~~~~eeiKW~e 390 (459)
T PLN03091 313 NPSIPSFTVNGVRNWEAGAFSNNSNSSNGSSSSIELQSNSSFFENSIFSWGLA-DCG-KSDKEAQIHLLESDPEDIKWPE 390 (459)
T ss_pred CCCCCCcccCCccccccCCCCCCCCCCCCCCccccccccchhhccCccccccc-ccc-cchhhhhhhccccchhhcchHH
Confidence 99999999999999999999999999999999999999999999999999998 998 8999999888777799999999
Q ss_pred cccCCcccccccccccCCccccccccCCcccccCCCcccccchhh-hhhccccCcccchhhhhHHHhhhccC
Q 014135 359 YLNTPFFLGSTIQNHQTSQSMYSDVKPEAHFISEGSNTTTWIQNQ-HQQASQTTPAMYTKDLQRLSVAFGQT 429 (430)
Q Consensus 359 y~~~~~~~~~~~~~~~~~~~~y~~~k~e~~~~~~~~~~~~~~~~~-~~~~~q~~~~~~~kd~qr~~~~f~~~ 429 (430)
|||+|||||+++||| ++|+||+|||+||||++|++ +++|+|+| +|+++| ++|||+||||||+||||||
T Consensus 391 yl~~~~~~~~~~q~q-~~q~ly~~ik~et~~~~~~~-~~~w~~~q~~q~~~~-~~d~~~kdlqr~~~~fg~~ 459 (459)
T PLN03091 391 YLQNPFLMAATLQNQ-TPQPLYNEIKPETHFITEGS-STMWPHNQQQQEPLQ-NPDIYTKDLQRLTAAFGQI 459 (459)
T ss_pred Hhcchhhhhhhhhhc-Cchhhhhhccchhhcccccc-ccccccccccccccc-cccccchHHHHHHHhhccC
Confidence 999999999999999 99999999999999999999 89997755 444556 9999999999999999996
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=8.2e-34 Score=272.76 Aligned_cols=128 Identities=59% Similarity=1.167 Sum_probs=123.3
Q ss_pred CCcccccCCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccccCCCCCCCCCCHHHHHHHHHHH
Q 014135 3 RHSCCYKQKLRKGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGAFSVQEESLIVELH 82 (430)
Q Consensus 3 R~~~~~kp~lkKg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~~Llelv 82 (430)
|-.||+|+++++++||+|||++|+++|++||..+|.+||+.++.+|+++|||+||.++|+|.+++++||+|||++|++++
T Consensus 14 ~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~ 93 (249)
T PLN03212 14 TTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLH 93 (249)
T ss_pred CCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHH
Confidence 56899999999999999999999999999999899999999866899999999999999999999999999999999999
Q ss_pred HHhCCchhHHhhhCCCCCHHHHHHHHhhhhhHHHHhCCCCCCCCCcch
Q 014135 83 AVLGNRWSQIAAQLPGRTDDEIKNLWNSSIKKKLRQRGIDPNTHKPLS 130 (430)
Q Consensus 83 ~k~G~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk~lkk~~~~~~edk~L~ 130 (430)
.+||++|..||+.|+|||+++||+||+.++++++++.+..+.+.+++.
T Consensus 94 ~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~~~kp~~ 141 (249)
T PLN03212 94 RLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTHKPLD 141 (249)
T ss_pred HhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCCCCCCCC
Confidence 999999999999999999999999999999999999999999988764
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.97 E-value=2.8e-31 Score=256.45 Aligned_cols=120 Identities=62% Similarity=1.097 Sum_probs=111.8
Q ss_pred cCCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccccCCCCCCCCCCHHHHHHHHHHHHHhCCc
Q 014135 9 KQKLRKGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGAFSVQEESLIVELHAVLGNR 88 (430)
Q Consensus 9 kp~lkKg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~~Llelv~k~G~~ 88 (430)
|+.+.||+||+|||++|+++|++||.++|..||+.+|++|++++||.||.+||+|++++|.||+|||++|++|+.++|++
T Consensus 4 k~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNr 83 (238)
T KOG0048|consen 4 NPELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNR 83 (238)
T ss_pred CccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcH
Confidence 44566899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHhhhCCCCCHHHHHHHHhhhhhHHHHhCCCCCCCCCc
Q 014135 89 WSQIAAQLPGRTDDEIKNLWNSSIKKKLRQRGIDPNTHKP 128 (430)
Q Consensus 89 Ws~IA~~LpgRT~~QcR~RW~~~Lkk~lkk~~~~~~edk~ 128 (430)
|+.||++|||||++.||++|+..|++++.+.+.++....+
T Consensus 84 Ws~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~~~~~~~~~ 123 (238)
T KOG0048|consen 84 WSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMGIDPSTHRP 123 (238)
T ss_pred HHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcCCCCCcccc
Confidence 9999999999999999999999999999887754444333
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.86 E-value=5e-22 Score=209.48 Aligned_cols=150 Identities=19% Similarity=0.300 Sum_probs=139.7
Q ss_pred CCcccccCCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCccccc----------------------------
Q 014135 3 RHSCCYKQKLRKGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCR---------------------------- 54 (430)
Q Consensus 3 R~~~~~kp~lkKg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr---------------------------- 54 (430)
.|..++.|+++|..|++|||++|+.+...+|..+|.+||..+|+.|++.||.
T Consensus 242 ~W~n~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~ 321 (939)
T KOG0049|consen 242 KWYNELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVK 321 (939)
T ss_pred HHhhhcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHH
Confidence 3788999999999999999999999999999989999999998778888887
Q ss_pred --------------------------cccccccCCCCCCCCCCHHHHHHHHHHHHHhCC-chhHHhhhCCCCCHHHHHHH
Q 014135 55 --------------------------LRWINYLRPDLKRGAFSVQEESLIVELHAVLGN-RWSQIAAQLPGRTDDEIKNL 107 (430)
Q Consensus 55 --------------------------~Rw~n~L~p~lkkg~WT~EED~~Llelv~k~G~-~Ws~IA~~LpgRT~~QcR~R 107 (430)
.||...|+|.+++|+||.+||.+|+.+|.+||. .|.+|-..+|||++.|||.|
T Consensus 322 ~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~R 401 (939)
T KOG0049|consen 322 ITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRER 401 (939)
T ss_pred HhhccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHH
Confidence 677777999999999999999999999999995 69999999999999999999
Q ss_pred HhhhhhHHHHhCCCCCCCCCcchhhhhhhcc-hhhHhhccCCchhh
Q 014135 108 WNSSIKKKLRQRGIDPNTHKPLSEVENDKEQ-QLTVINKNSDKASA 152 (430)
Q Consensus 108 W~~~Lkk~lkk~~~~~~edk~L~e~~~~~g~-~w~~Iak~~~k~~~ 152 (430)
|.+.|...++...|+..+|..|++++..||. +|..++...++++.
T Consensus 402 Y~nvL~~s~K~~rW~l~edeqL~~~V~~YG~g~WakcA~~Lp~~t~ 447 (939)
T KOG0049|consen 402 YTNVLNRSAKVERWTLVEDEQLLYAVKVYGKGNWAKCAMLLPKKTS 447 (939)
T ss_pred HHHHHHHhhccCceeecchHHHHHHHHHHccchHHHHHHHccccch
Confidence 9999999999999999999999999999998 79999988887655
No 5
>PLN03091 hypothetical protein; Provisional
Probab=99.85 E-value=6.9e-21 Score=195.54 Aligned_cols=103 Identities=15% Similarity=0.275 Sum_probs=96.8
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhC-CchhHHhhhC-CCCCHHHHHHHHhhhhhHHHHhCCCCCCCCCcchhhhhhhcch
Q 014135 62 RPDLKRGAFSVQEESLIVELHAVLG-NRWSQIAAQL-PGRTDDEIKNLWNSSIKKKLRQRGIDPNTHKPLSEVENDKEQQ 139 (430)
Q Consensus 62 ~p~lkkg~WT~EED~~Llelv~k~G-~~Ws~IA~~L-pgRT~~QcR~RW~~~Lkk~lkk~~~~~~edk~L~e~~~~~g~~ 139 (430)
++.+++++||+|||++|+++|.+|| .+|..||+.+ ++|+++|||.||.++|++.+++++|+++||+.|++++..+|.+
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnK 88 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcc
Confidence 3578999999999999999999999 5799999998 5999999999999999999999999999999999999999999
Q ss_pred hhHhhccCCchhhhhhhhHHHhhcC
Q 014135 140 LTVINKNSDKASAESSKDLAAEIMH 164 (430)
Q Consensus 140 w~~Iak~~~k~~~~~~k~~~~~~~~ 164 (430)
|..|++...+|+++.+|+.+..+++
T Consensus 89 WskIAk~LPGRTDnqIKNRWnslLK 113 (459)
T PLN03091 89 WSQIAAQLPGRTDNEIKNLWNSCLK 113 (459)
T ss_pred hHHHHHhcCCCCHHHHHHHHHHHHH
Confidence 9999999999999999998766544
No 6
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.82 E-value=5.9e-21 Score=201.44 Aligned_cols=113 Identities=23% Similarity=0.437 Sum_probs=104.5
Q ss_pred CCCCcccccCCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccccCCCCCCCCCCHHHHHHHHH
Q 014135 1 MGRHSCCYKQKLRKGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGAFSVQEESLIVE 80 (430)
Q Consensus 1 mgR~~~~~kp~lkKg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~~Lle 80 (430)
|+||.+.++|.+++|+||++||.+|+.+|.+||.++|.+|-..++ +|+..|||+||.++|+...|++.|+-.||+.|+.
T Consensus 347 I~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~ 425 (939)
T KOG0049|consen 347 ITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLY 425 (939)
T ss_pred hhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCceeecchHHHHH
Confidence 689999999999999999999999999999999999999999999 9999999999999999999999999999999999
Q ss_pred HHHHhC-CchhHHhhhCCCCCHHHHHHHHhhhhhH
Q 014135 81 LHAVLG-NRWSQIAAQLPGRTDDEIKNLWNSSIKK 114 (430)
Q Consensus 81 lv~k~G-~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk 114 (430)
+|.+|| ++|.+||..||+||.+|.+.|=...+.-
T Consensus 426 ~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~~~ 460 (939)
T KOG0049|consen 426 AVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLIAA 460 (939)
T ss_pred HHHHHccchHHHHHHHccccchhHHHHHHHHHHHH
Confidence 999999 8999999999999996654444333433
No 7
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.79 E-value=5.2e-20 Score=178.07 Aligned_cols=104 Identities=10% Similarity=0.191 Sum_probs=98.1
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhC-CchhHHhhhCC-CCCHHHHHHHHhhhhhHHHHhCCCCCCCCCcchhhhhhhcchh
Q 014135 63 PDLKRGAFSVQEESLIVELHAVLG-NRWSQIAAQLP-GRTDDEIKNLWNSSIKKKLRQRGIDPNTHKPLSEVENDKEQQL 140 (430)
Q Consensus 63 p~lkkg~WT~EED~~Llelv~k~G-~~Ws~IA~~Lp-gRT~~QcR~RW~~~Lkk~lkk~~~~~~edk~L~e~~~~~g~~w 140 (430)
+.+.||+||+|||++|+++|++|| ++|..|++.++ +|++++||.||.++|++.++++.|+++|+..|.+++...|++|
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 445689999999999999999999 67999999998 9999999999999999999999999999999999999999999
Q ss_pred hHhhccCCchhhhhhhhHHHhhcCcC
Q 014135 141 TVINKNSDKASAESSKDLAAEIMHPL 166 (430)
Q Consensus 141 ~~Iak~~~k~~~~~~k~~~~~~~~~~ 166 (430)
+.||+..++|+|+++|+.++..+++.
T Consensus 85 s~IA~~LPGRTDNeIKN~Wnt~lkkk 110 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHWNTHLKKK 110 (238)
T ss_pred HHHHhhCCCcCHHHHHHHHHHHHHHH
Confidence 99999999999999999988876533
No 8
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.76 E-value=5e-19 Score=170.86 Aligned_cols=113 Identities=14% Similarity=0.319 Sum_probs=102.3
Q ss_pred cCccCCccccccccccccCCCCCCCCCCHHHHHHHHHHHHHhC-CchhHHhhhC-CCCCHHHHHHHHhhhhhHHHHhCCC
Q 014135 44 AGLQRCGKSCRLRWINYLRPDLKRGAFSVQEESLIVELHAVLG-NRWSQIAAQL-PGRTDDEIKNLWNSSIKKKLRQRGI 121 (430)
Q Consensus 44 l~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~~Llelv~k~G-~~Ws~IA~~L-pgRT~~QcR~RW~~~Lkk~lkk~~~ 121 (430)
++ .|+..-|-. +.+++++||+|||++|+++|++|| .+|..||+.+ ++|+++|||.||.++|++.+++.+|
T Consensus 10 ~~-~~~~pcc~K-------~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpW 81 (249)
T PLN03212 10 VS-KKTTPCCTK-------MGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGI 81 (249)
T ss_pred CC-CCCCCCccc-------CCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCC
Confidence 44 566555543 478999999999999999999999 6899999998 6999999999999999999999999
Q ss_pred CCCCCCcchhhhhhhcchhhHhhccCCchhhhhhhhHHHhhcC
Q 014135 122 DPNTHKPLSEVENDKEQQLTVINKNSDKASAESSKDLAAEIMH 164 (430)
Q Consensus 122 ~~~edk~L~e~~~~~g~~w~~Iak~~~k~~~~~~k~~~~~~~~ 164 (430)
+.+||..|++++..+|.+|..|++....|+++.+|+.+....+
T Consensus 82 T~EED~lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRWns~Lr 124 (249)
T PLN03212 82 TSDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLR 124 (249)
T ss_pred ChHHHHHHHHHHHhccccHHHHHhhcCCCCHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999999998765544
No 9
>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=99.59 E-value=6.7e-16 Score=118.48 Aligned_cols=60 Identities=40% Similarity=0.834 Sum_probs=55.2
Q ss_pred CCHHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccccCCCCCCCCCCHHHHHHH
Q 014135 17 WSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGAFSVQEESLI 78 (430)
Q Consensus 17 WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~~L 78 (430)
||+|||++|+++|.+||. +|.+||+.|| .|++.+|+.||.++|.|.+++++||++||++|
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999995 7999999997 89999999999999999999999999999987
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=99.53 E-value=1e-14 Score=154.09 Aligned_cols=109 Identities=30% Similarity=0.517 Sum_probs=103.8
Q ss_pred ccCCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccccCCCCCCCCCCHHHHHHHHHHHHHhCC
Q 014135 8 YKQKLRKGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGAFSVQEESLIVELHAVLGN 87 (430)
Q Consensus 8 ~kp~lkKg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~~Llelv~k~G~ 87 (430)
+..+++.|.|+..||+.|..+|++||..+|.+||..+. .|+++||+.||+++++|.++++.|+.|||..|+.+..++|.
T Consensus 14 ~~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~ 92 (512)
T COG5147 14 MQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGT 92 (512)
T ss_pred ccceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCc
Confidence 45677889999999999999999999999999999998 69999999999999999999999999999999999999999
Q ss_pred chhHHhhhCCCCCHHHHHHHHhhhhhHHHH
Q 014135 88 RWSQIAAQLPGRTDDEIKNLWNSSIKKKLR 117 (430)
Q Consensus 88 ~Ws~IA~~LpgRT~~QcR~RW~~~Lkk~lk 117 (430)
.|..||..+++|++.+|.+||...+.....
T Consensus 93 ~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 93 QWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 999999999999999999999988877766
No 11
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.49 E-value=9.6e-15 Score=152.01 Aligned_cols=106 Identities=25% Similarity=0.579 Sum_probs=100.4
Q ss_pred CCccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccccCCCCCCCCCCHHHHHHHHHHHHHhCCchhH
Q 014135 12 LRKGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGAFSVQEESLIVELHAVLGNRWSQ 91 (430)
Q Consensus 12 lkKg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~~Llelv~k~G~~Ws~ 91 (430)
++.|.|+..||+.|..+|.+||...|.+|++.+. .++++||+.||..+|+|.+++..|+.|||++|+.+++.+...|..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrt 83 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRT 83 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccch
Confidence 4668899999999999999999999999999998 899999999999999999999999999999999999999999999
Q ss_pred HhhhCCCCCHHHHHHHHhhhhhHHHHhC
Q 014135 92 IAAQLPGRTDDEIKNLWNSSIKKKLRQR 119 (430)
Q Consensus 92 IA~~LpgRT~~QcR~RW~~~Lkk~lkk~ 119 (430)
|+..| ||+++||..||..++.......
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s~~ 110 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVSYH 110 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHhhh
Confidence 99998 9999999999999998776543
No 12
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.42 E-value=1.1e-13 Score=147.86 Aligned_cols=136 Identities=24% Similarity=0.460 Sum_probs=109.5
Q ss_pred CccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccccCCCC--CCCCCCHHHHHHHHHHHH-------
Q 014135 13 RKGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINYLRPDL--KRGAFSVQEESLIVELHA------- 83 (430)
Q Consensus 13 kKg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~L~p~l--kkg~WT~EED~~Llelv~------- 83 (430)
.+|.||+||++.|..+|..+|. +|.+|++.|| |.+..||+||+++..+.- +++.||.||+++|+.+|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~-~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~ 459 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN-DWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREAL 459 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc-cHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhh
Confidence 8999999999999999999994 7999999998 999999999999998874 899999999999999995
Q ss_pred Hh-------------------CCchhHHhhhCCCCCHHHHHHHHhhhhhHHHHh-CCCCCCCCC-cchh------hhhhh
Q 014135 84 VL-------------------GNRWSQIAAQLPGRTDDEIKNLWNSSIKKKLRQ-RGIDPNTHK-PLSE------VENDK 136 (430)
Q Consensus 84 k~-------------------G~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk~lkk-~~~~~~edk-~L~e------~~~~~ 136 (430)
++ +.+|..|++.+..|+..|||.+|..++...... +.+...-++ -|+| +....
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~~~~~~~~~v~l~ErL~dl~~~e~~ 539 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKRQESKGSDMVWLLERLSDLDLTEES 539 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhcccccccchhHHHHHHHHhcccccCC
Confidence 23 235999999999999999999999999776544 444442222 1221 22233
Q ss_pred cchhhHhhccCCchh
Q 014135 137 EQQLTVINKNSDKAS 151 (430)
Q Consensus 137 g~~w~~Iak~~~k~~ 151 (430)
...|.-|+..-+...
T Consensus 540 ~IDW~~l~~~~~g~~ 554 (607)
T KOG0051|consen 540 PIDWKSLAEYAPGES 554 (607)
T ss_pred ccCHHHHHHhCCCCC
Confidence 446888887777654
No 13
>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=99.36 E-value=2.1e-13 Score=104.59 Aligned_cols=59 Identities=25% Similarity=0.544 Sum_probs=51.6
Q ss_pred CCHHHHHHHHHHHHHhCCchhHHhhhCCCCCHHHHHHHHhhhhhHHHHhCCCCCCCCCc
Q 014135 70 FSVQEESLIVELHAVLGNRWSQIAAQLPGRTDDEIKNLWNSSIKKKLRQRGIDPNTHKP 128 (430)
Q Consensus 70 WT~EED~~Llelv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk~lkk~~~~~~edk~ 128 (430)
||+|||++|+++|.+||.+|..||+.|+.||+.+|++||+..|++.+.+..|+++++..
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~ 59 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQR 59 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhc
Confidence 99999999999999999999999999977999999999999898888888898777653
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=99.30 E-value=2.8e-12 Score=94.73 Aligned_cols=46 Identities=26% Similarity=0.631 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCc-hhHHhhhCC-CCCHHHHHHHHhhhh
Q 014135 67 RGAFSVQEESLIVELHAVLGNR-WSQIAAQLP-GRTDDEIKNLWNSSI 112 (430)
Q Consensus 67 kg~WT~EED~~Llelv~k~G~~-Ws~IA~~Lp-gRT~~QcR~RW~~~L 112 (430)
|++||+|||++|+++|.+||.+ |..||..|+ +||..||++||+.++
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 5799999999999999999987 999999999 999999999998864
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=99.29 E-value=4.6e-13 Score=98.95 Aligned_cols=48 Identities=42% Similarity=0.731 Sum_probs=43.3
Q ss_pred ccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCcccccccccccc
Q 014135 14 KGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINYL 61 (430)
Q Consensus 14 Kg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~L 61 (430)
|++||+|||++|+++|.+||.++|..||..|+.+|++.||+.||.++|
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 689999999999999999998779999999988999999999999865
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.09 E-value=1.8e-10 Score=82.38 Aligned_cols=47 Identities=38% Similarity=0.858 Sum_probs=44.3
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CchhHHhhhCCCCCHHHHHHHHhhhhh
Q 014135 67 RGAFSVQEESLIVELHAVLG-NRWSQIAAQLPGRTDDEIKNLWNSSIK 113 (430)
Q Consensus 67 kg~WT~EED~~Llelv~k~G-~~Ws~IA~~LpgRT~~QcR~RW~~~Lk 113 (430)
+++||++||.+|+.++.+|| .+|..||..|++||+.+|+.||..+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998764
No 17
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.96 E-value=1.4e-09 Score=76.78 Aligned_cols=44 Identities=32% Similarity=0.729 Sum_probs=41.6
Q ss_pred CCCHHHHHHHHHHHHHhC-CchhHHhhhCCCCCHHHHHHHHhhhh
Q 014135 69 AFSVQEESLIVELHAVLG-NRWSQIAAQLPGRTDDEIKNLWNSSI 112 (430)
Q Consensus 69 ~WT~EED~~Llelv~k~G-~~Ws~IA~~LpgRT~~QcR~RW~~~L 112 (430)
+||++||.+|+.++.+|| .+|..||+.|++|++.+|+.||..++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999998753
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.94 E-value=3.4e-10 Score=80.95 Aligned_cols=48 Identities=40% Similarity=0.791 Sum_probs=44.3
Q ss_pred ccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccccC
Q 014135 14 KGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINYLR 62 (430)
Q Consensus 14 Kg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~L~ 62 (430)
++.||++||++|+.++..||..+|..||..++ +|++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~-~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcC-CCCHHHHHHHHHHHcC
Confidence 46899999999999999999668999999999 9999999999998764
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.91 E-value=8e-10 Score=118.56 Aligned_cols=120 Identities=24% Similarity=0.295 Sum_probs=98.2
Q ss_pred CccCCCHHHHHHHHHHHHHhCC---------------CC--------ccccccccCccCCccccccccccccCCCC-CCC
Q 014135 13 RKGLWSPEEDEKLLNYITKHGH---------------GC--------WSSVPKLAGLQRCGKSCRLRWINYLRPDL-KRG 68 (430)
Q Consensus 13 kKg~WT~EEDe~Ll~lV~kyG~---------------~n--------W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~l-kkg 68 (430)
+-+.|+.+||+.|-..|..|-. .+ |..|-..|+ .|+...+..+-++...|-- ++|
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 NLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFENKRG 385 (607)
T ss_pred hhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCccccccC
Confidence 4488999999999999998721 11 566667788 5998888763333333322 999
Q ss_pred CCCHHHHHHHHHHHHHhCCchhHHhhhCCCCCHHHHHHHHhhhhhHH--HHhCCCCCCCCCcchhhhh
Q 014135 69 AFSVQEESLIVELHAVLGNRWSQIAAQLPGRTDDEIKNLWNSSIKKK--LRQRGIDPNTHKPLSEVEN 134 (430)
Q Consensus 69 ~WT~EED~~Llelv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk~--lkk~~~~~~edk~L~e~~~ 134 (430)
.||+||++.|..+|.++|+.|..|++.| ||.+..||+||+.+++.. .+++.|+.+|...|+.+++
T Consensus 386 ~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~ 452 (607)
T KOG0051|consen 386 KWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVN 452 (607)
T ss_pred CCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHH
Confidence 9999999999999999999999999999 999999999999999877 4778899999888887775
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=98.79 E-value=2.1e-09 Score=75.80 Aligned_cols=44 Identities=41% Similarity=0.736 Sum_probs=41.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccc
Q 014135 16 LWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINY 60 (430)
Q Consensus 16 ~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~ 60 (430)
+||++||+.|+.++.+||..+|..||..++ +|++.+|+.||.++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~-~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcC-CCCHHHHHHHHHHh
Confidence 599999999999999999778999999998 89999999999865
No 21
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.49 E-value=5.6e-08 Score=102.24 Aligned_cols=86 Identities=19% Similarity=0.338 Sum_probs=81.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC-CchhHHhhhCCCCCHHHHHHHHhhhhhHHHHhCCCCCCCCCcchhhhhhhcchhhHh
Q 014135 65 LKRGAFSVQEESLIVELHAVLG-NRWSQIAAQLPGRTDDEIKNLWNSSIKKKLRQRGIDPNTHKPLSEVENDKEQQLTVI 143 (430)
Q Consensus 65 lkkg~WT~EED~~Llelv~k~G-~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk~lkk~~~~~~edk~L~e~~~~~g~~w~~I 143 (430)
++.|.|+..||+.|..+|.+|| +.|+.|+..++-.++.||+.||...+.+.+++-.|+.++|..++.+......+|..|
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 679999999999999999999999999999999999999999999999999999999
Q ss_pred hccCCch
Q 014135 144 NKNSDKA 150 (430)
Q Consensus 144 ak~~~k~ 150 (430)
+...++.
T Consensus 85 a~i~gr~ 91 (617)
T KOG0050|consen 85 ADIMGRT 91 (617)
T ss_pred HHHhhhh
Confidence 9877763
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=98.49 E-value=4.5e-08 Score=104.21 Aligned_cols=97 Identities=22% Similarity=0.407 Sum_probs=90.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CchhHHhhhCCCCCHHHHHHHHhhhhhHHHHhCCCCCCCCCcchhhhhhhcchhhH
Q 014135 64 DLKRGAFSVQEESLIVELHAVLG-NRWSQIAAQLPGRTDDEIKNLWNSSIKKKLRQRGIDPNTHKPLSEVENDKEQQLTV 142 (430)
Q Consensus 64 ~lkkg~WT~EED~~Llelv~k~G-~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk~lkk~~~~~~edk~L~e~~~~~g~~w~~ 142 (430)
..+.|.|+..||+.|..+|++|| ++|+.||..|.-|++++|+.||+..+.+.+++..|..++++.++.+..+.+.+|+.
T Consensus 17 ~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~wst 96 (512)
T COG5147 17 KRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWST 96 (512)
T ss_pred eecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCchhhh
Confidence 45778999999999999999999 67999999998899999999999999999999999999999999999999999999
Q ss_pred hhccCCchhhhhhhhHHH
Q 014135 143 INKNSDKASAESSKDLAA 160 (430)
Q Consensus 143 Iak~~~k~~~~~~k~~~~ 160 (430)
|++..++++.....+-..
T Consensus 97 ia~~~d~rt~~~~~ery~ 114 (512)
T COG5147 97 IADYKDRRTAQQCVERYV 114 (512)
T ss_pred hccccCccchHHHHHHHH
Confidence 999999887777766443
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=97.67 E-value=2.3e-05 Score=60.78 Aligned_cols=49 Identities=14% Similarity=0.336 Sum_probs=43.0
Q ss_pred CccCCCHHHHHHHHHHHHHhCCCCc---cccccccCccC-Ccccccccccccc
Q 014135 13 RKGLWSPEEDEKLLNYITKHGHGCW---SSVPKLAGLQR-CGKSCRLRWINYL 61 (430)
Q Consensus 13 kKg~WT~EEDe~Ll~lV~kyG~~nW---~~IA~~l~~~R-t~~QCr~Rw~n~L 61 (430)
++-.||+||.++++++|+.+|.++| +.|++.|+..| +..||+.++..|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 3567999999999999999998899 99999887566 9999999987664
No 24
>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=97.50 E-value=0.00025 Score=55.02 Aligned_cols=47 Identities=15% Similarity=0.234 Sum_probs=41.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-ch---hHHhhhCC-CC-CHHHHHHHHhhhhh
Q 014135 67 RGAFSVQEESLIVELHAVLGN-RW---SQIAAQLP-GR-TDDEIKNLWNSSIK 113 (430)
Q Consensus 67 kg~WT~EED~~Llelv~k~G~-~W---s~IA~~Lp-gR-T~~QcR~RW~~~Lk 113 (430)
+-.||+||..++++++..+|. +| ..|++.|. .| |..||+.+...+..
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 558999999999999999995 99 99999883 45 99999999887653
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.50 E-value=3.5e-05 Score=80.30 Aligned_cols=51 Identities=18% Similarity=0.489 Sum_probs=46.7
Q ss_pred CCCccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccccC
Q 014135 11 KLRKGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINYLR 62 (430)
Q Consensus 11 ~lkKg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~L~ 62 (430)
.+-..-||.+|+-+|++++..||.|||..||.++| .|+..+|+++|.+++-
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHHh
Confidence 44566799999999999999999999999999999 9999999999998753
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.36 E-value=0.00028 Score=73.70 Aligned_cols=49 Identities=22% Similarity=0.450 Sum_probs=44.3
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CchhHHhhhCCCCCHHHHHHHHhhhh
Q 014135 64 DLKRGAFSVQEESLIVELHAVLG-NRWSQIAAQLPGRTDDEIKNLWNSSI 112 (430)
Q Consensus 64 ~lkkg~WT~EED~~Llelv~k~G-~~Ws~IA~~LpgRT~~QcR~RW~~~L 112 (430)
.+-...||.+|+.+|++++..|| ++|..||.++..|+..+|+.+|.+.+
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 34556899999999999999999 99999999999999999999997554
No 27
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.10 E-value=0.00063 Score=62.92 Aligned_cols=52 Identities=21% Similarity=0.426 Sum_probs=45.4
Q ss_pred CCCCCCHHHHHHHHHHHHHh---CC----chhHHhhhCCCCCHHHHHHHHhhhhhHHHHh
Q 014135 66 KRGAFSVQEESLIVELHAVL---GN----RWSQIAAQLPGRTDDEIKNLWNSSIKKKLRQ 118 (430)
Q Consensus 66 kkg~WT~EED~~Llelv~k~---G~----~Ws~IA~~LpgRT~~QcR~RW~~~Lkk~lkk 118 (430)
+...||.|||.+|.+.|-+| |+ .+..|++.| +||+..|.-||+.++++.+..
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 56789999999999999887 42 389999999 999999999999999987653
No 28
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.06 E-value=0.001 Score=63.70 Aligned_cols=100 Identities=22% Similarity=0.373 Sum_probs=73.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccC--ccCCcccccccccccc-CCCC--------------------CCCCCCH
Q 014135 16 LWSPEEDEKLLNYITKHGHGCWSSVPKLAG--LQRCGKSCRLRWINYL-RPDL--------------------KRGAFSV 72 (430)
Q Consensus 16 ~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~--~~Rt~~QCr~Rw~n~L-~p~l--------------------kkg~WT~ 72 (430)
+|++++|-.|+.+|..-. +-..|+.-+. ..-|...+.+||+..| +|.+ .+.+||.
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 4666665333 2446778889999876 3322 4578999
Q ss_pred HHHHHHHHHHHHhCC---chhHHhhh----C-CCCCHHHHHHHHhhhhhHHHH
Q 014135 73 QEESLIVELHAVLGN---RWSQIAAQ----L-PGRTDDEIKNLWNSSIKKKLR 117 (430)
Q Consensus 73 EED~~Llelv~k~G~---~Ws~IA~~----L-pgRT~~QcR~RW~~~Lkk~lk 117 (430)
+|+++|......... .+.+|=.. + ++||++++.++|..+.+..+.
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~LL 131 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHLL 131 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhchh
Confidence 999999997766542 46666332 3 789999999999966655543
No 29
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.72 E-value=0.00054 Score=72.20 Aligned_cols=46 Identities=28% Similarity=0.517 Sum_probs=42.8
Q ss_pred CccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccc
Q 014135 13 RKGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINY 60 (430)
Q Consensus 13 kKg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~ 60 (430)
+...||.+|..+|+++|+.||. +|.+||+++| +|+..||..|+.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 5668999999999999999996 7999999999 99999999999875
No 30
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.64 E-value=0.0016 Score=53.15 Aligned_cols=51 Identities=29% Similarity=0.537 Sum_probs=35.6
Q ss_pred CCCCCHHHHHHHHHHHHH------hC--C------chhHHhhhC----CCCCHHHHHHHHhhhhhHHHH
Q 014135 67 RGAFSVQEESLIVELHAV------LG--N------RWSQIAAQL----PGRTDDEIKNLWNSSIKKKLR 117 (430)
Q Consensus 67 kg~WT~EED~~Llelv~k------~G--~------~Ws~IA~~L----pgRT~~QcR~RW~~~Lkk~lk 117 (430)
|..||.+|...||+++.. ++ + -|..||..| ..||+.||+.||.++.+...+
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~ 69 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKK 69 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHC
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence 357999999999999877 21 1 299999988 469999999999996655433
No 31
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.46 E-value=0.0033 Score=66.48 Aligned_cols=45 Identities=20% Similarity=0.307 Sum_probs=42.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchhHHhhhCCCCCHHHHHHHHhhh
Q 014135 67 RGAFSVQEESLIVELHAVLGNRWSQIAAQLPGRTDDEIKNLWNSS 111 (430)
Q Consensus 67 kg~WT~EED~~Llelv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~~ 111 (430)
...||.+|..+|++.+..||..|.+||+++..||..||--||-++
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 458999999999999999999999999999999999999999754
No 32
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.45 E-value=0.0013 Score=70.83 Aligned_cols=47 Identities=23% Similarity=0.509 Sum_probs=42.8
Q ss_pred CCccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccc
Q 014135 12 LRKGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINY 60 (430)
Q Consensus 12 lkKg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~ 60 (430)
-.++.||.+|+.+|+++|+.||. +|.+||.+++ .|+..||..++.+.
T Consensus 251 ~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 251 SARPNWTEQETLLLLEAIEMYGD-DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred cCCCCccHHHHHHHHHHHHHhcc-cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 35677999999999999999996 7999999999 99999999998764
No 33
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.39 E-value=0.0042 Score=66.86 Aligned_cols=46 Identities=17% Similarity=0.365 Sum_probs=42.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhHHhhhCCCCCHHHHHHHHhhh
Q 014135 66 KRGAFSVQEESLIVELHAVLGNRWSQIAAQLPGRTDDEIKNLWNSS 111 (430)
Q Consensus 66 kkg~WT~EED~~Llelv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~~ 111 (430)
.+..||.+|..+|+++|..||-.|.+||.++.+||..||-.+|..+
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 3568999999999999999999999999999999999999988553
No 34
>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=96.36 E-value=0.0047 Score=49.17 Aligned_cols=51 Identities=12% Similarity=0.347 Sum_probs=32.9
Q ss_pred CCCCCHHHHHHHHHHHHHhC-------Cc--hhHHhhhCC-CCCHHHHHHHHhhhhhHHHH
Q 014135 67 RGAFSVQEESLIVELHAVLG-------NR--WSQIAAQLP-GRTDDEIKNLWNSSIKKKLR 117 (430)
Q Consensus 67 kg~WT~EED~~Llelv~k~G-------~~--Ws~IA~~Lp-gRT~~QcR~RW~~~Lkk~lk 117 (430)
+.+||.|||..|+..|.++. ++ |.+.++.-+ .+|-...|+||.+.|+++..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~ 62 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR 62 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence 45899999999999997652 12 999999987 89999999999988876644
No 35
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=95.90 E-value=0.0028 Score=58.72 Aligned_cols=49 Identities=29% Similarity=0.599 Sum_probs=42.2
Q ss_pred CCccCCCHHHHHHHHHHHHHhCCC------CccccccccCccCCccccccccccccC
Q 014135 12 LRKGLWSPEEDEKLLNYITKHGHG------CWSSVPKLAGLQRCGKSCRLRWINYLR 62 (430)
Q Consensus 12 lkKg~WT~EEDe~Ll~lV~kyG~~------nW~~IA~~l~~~Rt~~QCr~Rw~n~L~ 62 (430)
.|+..||.|||.+|.+.|-+|-.. ...+|+..++ ||+..|.-||+.++.
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VR 56 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVR 56 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHH
Confidence 467889999999999999998321 4889999887 999999999998875
No 36
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.85 E-value=0.0097 Score=55.72 Aligned_cols=52 Identities=19% Similarity=0.369 Sum_probs=43.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCc-------hhHHhhhCCCCCHHHHHHHHhhhhhHHHH
Q 014135 65 LKRGAFSVQEESLIVELHAVLGNR-------WSQIAAQLPGRTDDEIKNLWNSSIKKKLR 117 (430)
Q Consensus 65 lkkg~WT~EED~~Llelv~k~G~~-------Ws~IA~~LpgRT~~QcR~RW~~~Lkk~lk 117 (430)
.+...||.|||.+|.+.|..|+.. ...++..| +||..+|..||+.++++...
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Ye 61 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQ 61 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHH
Confidence 356789999999999999888732 66667777 99999999999999987644
No 37
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.40 E-value=0.044 Score=43.92 Aligned_cols=49 Identities=31% Similarity=0.517 Sum_probs=40.4
Q ss_pred CCCCCHHHHHHHHHHHHHhC----C-------------chhHHhhhC-----CCCCHHHHHHHHhhhhhHH
Q 014135 67 RGAFSVQEESLIVELHAVLG----N-------------RWSQIAAQL-----PGRTDDEIKNLWNSSIKKK 115 (430)
Q Consensus 67 kg~WT~EED~~Llelv~k~G----~-------------~Ws~IA~~L-----pgRT~~QcR~RW~~~Lkk~ 115 (430)
+..||.+|.+.|+++|.+|. + .|..|+..| +.|+..+||.+|..+....
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~ 72 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKA 72 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHH
Confidence 45799999999999999872 1 299999887 3699999999999876543
No 38
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.40 E-value=0.0034 Score=51.14 Aligned_cols=46 Identities=24% Similarity=0.573 Sum_probs=32.2
Q ss_pred cCCCHHHHHHHHHHHHH--h----C--CC-----Ccccccccc---CccCCccccccccccc
Q 014135 15 GLWSPEEDEKLLNYITK--H----G--HG-----CWSSVPKLA---GLQRCGKSCRLRWINY 60 (430)
Q Consensus 15 g~WT~EEDe~Ll~lV~k--y----G--~~-----nW~~IA~~l---~~~Rt~~QCr~Rw~n~ 60 (430)
..||.+|...|++++.. + + .. -|..||..| |..|++.||+.||.+.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 47999999999999887 2 1 11 399999865 5679999999999875
No 39
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.10 E-value=0.02 Score=58.24 Aligned_cols=48 Identities=27% Similarity=0.483 Sum_probs=43.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhC-CchhHHhhhCCCCCHHHHHHHHhhhhh
Q 014135 66 KRGAFSVQEESLIVELHAVLG-NRWSQIAAQLPGRTDDEIKNLWNSSIK 113 (430)
Q Consensus 66 kkg~WT~EED~~Llelv~k~G-~~Ws~IA~~LpgRT~~QcR~RW~~~Lk 113 (430)
--..|+.+|+.+|++....+| ++|..||..+..|+...||.+|.++..
T Consensus 62 ~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 62 GEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred cCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 345799999999999999999 899999999999999999999976554
No 40
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=95.06 E-value=0.0061 Score=48.53 Aligned_cols=52 Identities=23% Similarity=0.447 Sum_probs=32.4
Q ss_pred ccCCCHHHHHHHHHHHHHhCC------CC--ccccccccCccCCccccccccccccCCCC
Q 014135 14 KGLWSPEEDEKLLNYITKHGH------GC--WSSVPKLAGLQRCGKSCRLRWINYLRPDL 65 (430)
Q Consensus 14 Kg~WT~EEDe~Ll~lV~kyG~------~n--W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~l 65 (430)
+.+||.|||+.|++.|.++.. ++ |.++++.-++.++-..-|+||...|.+..
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 467999999999999976631 22 99999876657788888999999887643
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=94.53 E-value=0.01 Score=60.39 Aligned_cols=48 Identities=17% Similarity=0.489 Sum_probs=44.8
Q ss_pred ccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccccC
Q 014135 14 KGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINYLR 62 (430)
Q Consensus 14 Kg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~L~ 62 (430)
---|+..|+.+|++...-.|.+||..||..+| .|+...|+++|..++.
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 34599999999999999999999999999999 9999999999998765
No 42
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.23 E-value=0.12 Score=60.49 Aligned_cols=101 Identities=15% Similarity=0.264 Sum_probs=78.1
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCccCCccccc-------cccccc----------------------------
Q 014135 16 LWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCR-------LRWINY---------------------------- 60 (430)
Q Consensus 16 ~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr-------~Rw~n~---------------------------- 60 (430)
.|+..|=..++.+..+||..+-..||..|+ +++..+++ +||..+
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~ 904 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG 904 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 488888888899999999888999999887 78877776 222221
Q ss_pred --------------c-CCCCCCCCCCHHHHHHHHHHHHHhC-CchhHHhhh------------CCCCCHHHHHHHHhhhh
Q 014135 61 --------------L-RPDLKRGAFSVQEESLIVELHAVLG-NRWSQIAAQ------------LPGRTDDEIKNLWNSSI 112 (430)
Q Consensus 61 --------------L-~p~lkkg~WT~EED~~Llelv~k~G-~~Ws~IA~~------------LpgRT~~QcR~RW~~~L 112 (430)
+ .+..++..+|.|||..|+-.+.+|| .+|..|-.. +..||+..+..|-..++
T Consensus 905 ~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~ 984 (1033)
T PLN03142 905 KKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI 984 (1033)
T ss_pred HHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence 0 0223455699999999999999999 789998443 25799999999999888
Q ss_pred hHHHH
Q 014135 113 KKKLR 117 (430)
Q Consensus 113 kk~lk 117 (430)
+-..+
T Consensus 985 ~~~~~ 989 (1033)
T PLN03142 985 RLIEK 989 (1033)
T ss_pred HHHHH
Confidence 76543
No 43
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=94.15 E-value=0.011 Score=55.45 Aligned_cols=50 Identities=26% Similarity=0.520 Sum_probs=40.3
Q ss_pred CCCccCCCHHHHHHHHHHHHHhCCCC------ccccccccCccCCccccccccccccC
Q 014135 11 KLRKGLWSPEEDEKLLNYITKHGHGC------WSSVPKLAGLQRCGKSCRLRWINYLR 62 (430)
Q Consensus 11 ~lkKg~WT~EEDe~Ll~lV~kyG~~n------W~~IA~~l~~~Rt~~QCr~Rw~n~L~ 62 (430)
+.++..||.|||.+|.+.|-+|+... ...++..|. |++.+|..||+-++.
T Consensus 2 k~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 2 KTRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred cchhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 45778999999999999999996543 556666765 999999999977664
No 44
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=93.86 E-value=0.013 Score=46.90 Aligned_cols=49 Identities=29% Similarity=0.449 Sum_probs=39.2
Q ss_pred CccCCCHHHHHHHHHHHHHhCC----------------CCcccccccc----CccCCcccccccccccc
Q 014135 13 RKGLWSPEEDEKLLNYITKHGH----------------GCWSSVPKLA----GLQRCGKSCRLRWINYL 61 (430)
Q Consensus 13 kKg~WT~EEDe~Ll~lV~kyG~----------------~nW~~IA~~l----~~~Rt~~QCr~Rw~n~L 61 (430)
|+..||.+|.+.|+++|.+|.. ..|..|+..+ +..|+..||+.+|.+..
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 4578999999999999999821 1399999755 23799999999998753
No 45
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=90.53 E-value=0.44 Score=49.91 Aligned_cols=86 Identities=22% Similarity=0.336 Sum_probs=66.0
Q ss_pred CccccccccCccCCccccccccccccCCC-------------------------CCCCCCCHHHHHHHHHHHHHhCCchh
Q 014135 36 CWSSVPKLAGLQRCGKSCRLRWINYLRPD-------------------------LKRGAFSVQEESLIVELHAVLGNRWS 90 (430)
Q Consensus 36 nW~~IA~~l~~~Rt~~QCr~Rw~n~L~p~-------------------------lkkg~WT~EED~~Llelv~k~G~~Ws 90 (430)
.|..+.-..+ .|.+.-...+|.+..++. +....||.+|-+-|++|++.|.-+|.
T Consensus 75 ~W~w~pFtn~-aRkD~~~l~HWvr~~d~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf~ 153 (445)
T KOG2656|consen 75 PWKWVPFTNS-ARKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRFF 153 (445)
T ss_pred CceeeccCCc-cccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeEE
Confidence 4776664444 676777777777764321 12346999999999999999999999
Q ss_pred HHhhh-----CCC-CCHHHHHHHHhhhhhHHHHhCCCC
Q 014135 91 QIAAQ-----LPG-RTDDEIKNLWNSSIKKKLRQRGID 122 (430)
Q Consensus 91 ~IA~~-----Lpg-RT~~QcR~RW~~~Lkk~lkk~~~~ 122 (430)
.||.. ++. ||-..+|+||+...++.++.+.-.
T Consensus 154 VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~s 191 (445)
T KOG2656|consen 154 VIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARAPS 191 (445)
T ss_pred EEeeccchhhccccccHHHHHHHHHHHHHHHHHccCCC
Confidence 99987 555 999999999999888887765433
No 46
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=90.07 E-value=0.55 Score=47.96 Aligned_cols=51 Identities=18% Similarity=0.289 Sum_probs=41.0
Q ss_pred CCCCCHHHHHHHHHHHHHhC----------CchhHHhhhC----CCCCHHHHHHHHhhhhhHHHH
Q 014135 67 RGAFSVQEESLIVELHAVLG----------NRWSQIAAQL----PGRTDDEIKNLWNSSIKKKLR 117 (430)
Q Consensus 67 kg~WT~EED~~Llelv~k~G----------~~Ws~IA~~L----pgRT~~QcR~RW~~~Lkk~lk 117 (430)
...|+.+|-..||++..+.. .-|..||+.| .-||+.|||.||.++.++.-+
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~ 118 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKK 118 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Confidence 36899999999999987542 2399999965 459999999999987766543
No 47
>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=88.62 E-value=1 Score=36.98 Aligned_cols=46 Identities=24% Similarity=0.536 Sum_probs=35.3
Q ss_pred CCCHHHHHHHHHHHHHh---CC----------chhHHhhhC---C--CCCHHHHHHHHhhhhhH
Q 014135 69 AFSVQEESLIVELHAVL---GN----------RWSQIAAQL---P--GRTDDEIKNLWNSSIKK 114 (430)
Q Consensus 69 ~WT~EED~~Llelv~k~---G~----------~Ws~IA~~L---p--gRT~~QcR~RW~~~Lkk 114 (430)
.||+++++.|++++.+. |+ .|..|++.| . ..+..||++||..+.+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~ 64 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKD 64 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHH
Confidence 49999999999998653 21 299999887 2 35789999999775554
No 48
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=87.90 E-value=0.72 Score=48.25 Aligned_cols=45 Identities=20% Similarity=0.271 Sum_probs=41.9
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhHHhhhCCCCCHHHHHHHHhhhh
Q 014135 68 GAFSVQEESLIVELHAVLGNRWSQIAAQLPGRTDDEIKNLWNSSI 112 (430)
Q Consensus 68 g~WT~EED~~Llelv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~~L 112 (430)
.+|+.+|-++...+...+|..+..|+..+|.|..+|||.+|.+--
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Ee 410 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEE 410 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHh
Confidence 479999999999999999999999999999999999999997543
No 49
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=87.40 E-value=0.95 Score=40.13 Aligned_cols=53 Identities=23% Similarity=0.396 Sum_probs=41.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC----chhHHhhhC------------CCCCHHHHHHHHhhhhhHHH
Q 014135 64 DLKRGAFSVQEESLIVELHAVLGN----RWSQIAAQL------------PGRTDDEIKNLWNSSIKKKL 116 (430)
Q Consensus 64 ~lkkg~WT~EED~~Llelv~k~G~----~Ws~IA~~L------------pgRT~~QcR~RW~~~Lkk~l 116 (430)
..++..||++||.-|+-++.+||- .|..|-..+ ..||+..+..|-..+++-..
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~ 114 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIE 114 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHH
Confidence 556779999999999999999995 698886542 46999999999988876543
No 50
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=85.41 E-value=0.63 Score=52.16 Aligned_cols=44 Identities=14% Similarity=0.217 Sum_probs=36.4
Q ss_pred ccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCcccccccccc
Q 014135 14 KGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWIN 59 (430)
Q Consensus 14 Kg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n 59 (430)
...||+.|..++.+++-.|. +++..|++++. +++.+||-+-|+.
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~-KDF~~v~km~~-~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYS-KDFIFVQKMVK-SKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhc-ccHHHHHHHhc-cccHHHHHHHHHH
Confidence 35699999888888888888 57888888888 8888888887764
No 51
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=77.59 E-value=1 Score=46.01 Aligned_cols=48 Identities=25% Similarity=0.413 Sum_probs=37.8
Q ss_pred ccCCCHHHHHHHHHHHHHh----C-----CCCccccccc---cCccCCcccccccccccc
Q 014135 14 KGLWSPEEDEKLLNYITKH----G-----HGCWSSVPKL---AGLQRCGKSCRLRWINYL 61 (430)
Q Consensus 14 Kg~WT~EEDe~Ll~lV~ky----G-----~~nW~~IA~~---l~~~Rt~~QCr~Rw~n~L 61 (430)
...|+.+|-..|+++..+. . ...|..||+. .|..|++.||+.||.++.
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 3689999999999988653 1 1249999983 456799999999998753
No 52
>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=77.22 E-value=1.9 Score=38.26 Aligned_cols=47 Identities=28% Similarity=0.391 Sum_probs=34.0
Q ss_pred CCCCccCCCHHHHHHHHHHHHHhCC---CCccccccccC-----------ccCCccccccc
Q 014135 10 QKLRKGLWSPEEDEKLLNYITKHGH---GCWSSVPKLAG-----------LQRCGKSCRLR 56 (430)
Q Consensus 10 p~lkKg~WT~EEDe~Ll~lV~kyG~---~nW~~IA~~l~-----------~~Rt~~QCr~R 56 (430)
+.-++..||.+||.-|+-.+.+||. +.|.+|-..+- ..||+..+..|
T Consensus 45 ~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR 105 (118)
T PF09111_consen 45 PNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRR 105 (118)
T ss_dssp STSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHH
T ss_pred CCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHH
Confidence 4566788999999999999999999 78999876431 14666666555
No 53
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=76.98 E-value=1.4 Score=36.60 Aligned_cols=30 Identities=37% Similarity=0.704 Sum_probs=17.4
Q ss_pred CCCCccCCCHHHHHHH--------HHHHHHhCCCCcccccc
Q 014135 10 QKLRKGLWSPEEDEKL--------LNYITKHGHGCWSSVPK 42 (430)
Q Consensus 10 p~lkKg~WT~EEDe~L--------l~lV~kyG~~nW~~IA~ 42 (430)
|.-..|-||+|+|+.| .+++++|| +..|+.
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG---~~~i~~ 80 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHG---EERIER 80 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH----HHHHHH
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC---HHHHHH
Confidence 3445789999999999 45777887 555554
No 54
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=76.97 E-value=4.6 Score=44.71 Aligned_cols=61 Identities=13% Similarity=0.345 Sum_probs=46.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhHHhh----------hCCCCCHHHHHHHHhhhhhHHHHhCCCCCCCCC
Q 014135 66 KRGAFSVQEESLIVELHAVLGNRWSQIAA----------QLPGRTDDEIKNLWNSSIKKKLRQRGIDPNTHK 127 (430)
Q Consensus 66 kkg~WT~EED~~Llelv~k~G~~Ws~IA~----------~LpgRT~~QcR~RW~~~Lkk~lkk~~~~~~edk 127 (430)
.|..||..|++-...+++++|.++..|-. ...-+|..|+|.+|++.+++..+-. |.++-.+
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~-F~~~l~~ 157 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLL-FGPDLSL 157 (782)
T ss_pred cccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhh-cccccCc
Confidence 36689999999999999999999988832 2234578899999999888776654 5543333
No 55
>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=75.64 E-value=5.8 Score=29.17 Aligned_cols=41 Identities=22% Similarity=0.289 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHhCCchhHHhhhCCCCCHHHHHHHHhhhhh
Q 014135 72 VQEESLIVELHAVLGNRWSQIAAQLPGRTDDEIKNLWNSSIK 113 (430)
Q Consensus 72 ~EED~~Llelv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~~Lk 113 (430)
++++..++.++...|-.|.+||+.+ |.+...|+.+....++
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 4678888889889999999999999 8999999998876654
No 56
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=72.87 E-value=6.8 Score=42.12 Aligned_cols=48 Identities=17% Similarity=0.272 Sum_probs=42.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhHHhhhCCCCCHHHHHHHHhhhhh
Q 014135 66 KRGAFSVQEESLIVELHAVLGNRWSQIAAQLPGRTDDEIKNLWNSSIK 113 (430)
Q Consensus 66 kkg~WT~EED~~Llelv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~~Lk 113 (430)
....||.||-.++-.+...||.++.+|-+.||.|+-..+...|...-+
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK 233 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKK 233 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHH
Confidence 345899999999999999999999999999999999999888765443
No 57
>smart00595 MADF subfamily of SANT domain.
Probab=72.57 E-value=5.6 Score=32.23 Aligned_cols=26 Identities=27% Similarity=0.518 Sum_probs=22.0
Q ss_pred hhHHhhhCCCCCHHHHHHHHhhhhhHH
Q 014135 89 WSQIAAQLPGRTDDEIKNLWNSSIKKK 115 (430)
Q Consensus 89 Ws~IA~~LpgRT~~QcR~RW~~~Lkk~ 115 (430)
|..||..|.. +..+|+.+|+++....
T Consensus 30 W~~Ia~~l~~-~~~~~~~kw~~LR~~y 55 (89)
T smart00595 30 WEEIAEELGL-SVEECKKRWKNLRDRY 55 (89)
T ss_pred HHHHHHHHCc-CHHHHHHHHHHHHHHH
Confidence 9999999944 9999999998876544
No 58
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=67.96 E-value=3.4 Score=43.49 Aligned_cols=48 Identities=25% Similarity=0.328 Sum_probs=42.6
Q ss_pred CCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCcccccccccc
Q 014135 10 QKLRKGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWIN 59 (430)
Q Consensus 10 p~lkKg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n 59 (430)
.+-.--+|+.+|-+++.+++..+|. ++..|+.+++ .|..+|++.+|.+
T Consensus 361 ~~~~~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP-~R~RkqIKaKfi~ 408 (507)
T COG5118 361 KKKGALRWSKKEIEKFYKALSIWGT-DFSLISSLFP-NRERKQIKAKFIK 408 (507)
T ss_pred CCCCCCcccHHHHHHHHHHHHHhcc-hHHHHHHhcC-chhHHHHHHHHHH
Confidence 3444567999999999999999997 7999999999 9999999998875
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=60.95 E-value=15 Score=26.57 Aligned_cols=38 Identities=16% Similarity=0.309 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHhC-CchhHHhhhCCCCCHHHHHHHHhhh
Q 014135 73 QEESLIVELHAVLG-NRWSQIAAQLPGRTDDEIKNLWNSS 111 (430)
Q Consensus 73 EED~~Llelv~k~G-~~Ws~IA~~LpgRT~~QcR~RW~~~ 111 (430)
+=|.+|+.+..+-| ..|..||+.+ |=+...|..|+..+
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 45888999999888 4699999999 88999999998754
No 60
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=60.18 E-value=8 Score=46.15 Aligned_cols=75 Identities=19% Similarity=0.236 Sum_probs=46.3
Q ss_pred cCCCHHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccccCCCCCCCCCCHHHHHHHHHHHHHh-CCchhHHh
Q 014135 15 GLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGAFSVQEESLIVELHAVL-GNRWSQIA 93 (430)
Q Consensus 15 g~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~~Llelv~k~-G~~Ws~IA 93 (430)
.-|..+||.+|+-.|-+||.++|..|-. +....--=...+...+-.+.|=..+-..|+.++.++ +.+|....
T Consensus 1134 ~~W~~e~Ds~LLiGI~khGygswe~Ir~-------Dp~L~l~dKi~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~~~ 1206 (1373)
T KOG0384|consen 1134 CDWGSEDDSMLLIGIFKHGYGSWEAIRL-------DPDLGLTDKIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPKKL 1206 (1373)
T ss_pred cCCCchhhhhHhhhhhhcccccHHHhcc-------CccccchhhhcccccCCchHHHHHHHHHHHHHHhhcccCCCchhh
Confidence 4599999999999999999999999942 111110001111112334456666666777777666 45566555
Q ss_pred hhC
Q 014135 94 AQL 96 (430)
Q Consensus 94 ~~L 96 (430)
+..
T Consensus 1207 ~~~ 1209 (1373)
T KOG0384|consen 1207 KRE 1209 (1373)
T ss_pred hcc
Confidence 433
No 61
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=60.17 E-value=13 Score=42.10 Aligned_cols=44 Identities=7% Similarity=0.102 Sum_probs=40.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchhHHhhhCCCCCHHHHHHHHhh
Q 014135 67 RGAFSVQEESLIVELHAVLGNRWSQIAAQLPGRTDDEIKNLWNS 110 (430)
Q Consensus 67 kg~WT~EED~~Llelv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~ 110 (430)
...||+.|..+.-.++..|..++-.|++.++++|-.||-..|+.
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHH
Confidence 35799999999999999999999999999999999999887654
No 62
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=57.57 E-value=4.5 Score=42.65 Aligned_cols=49 Identities=16% Similarity=0.270 Sum_probs=42.3
Q ss_pred CCCccCCCHHHHHHHHHHHHHhCCCCccccccc-----cCccCCccccccccccc
Q 014135 11 KLRKGLWSPEEDEKLLNYITKHGHGCWSSVPKL-----AGLQRCGKSCRLRWINY 60 (430)
Q Consensus 11 ~lkKg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~-----l~~~Rt~~QCr~Rw~n~ 60 (430)
.+....||++|.+-|.++.++|.-+ |-.||.. .+..||....++||+.+
T Consensus 127 ~l~dn~WskeETD~LF~lck~fDLR-f~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 127 HLNDNSWSKEETDYLFDLCKRFDLR-FFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred hhccccccHHHHHHHHHHHHhcCee-EEEEeeccchhhccccccHHHHHHHHHHH
Confidence 3455789999999999999999974 9999987 66569999999999865
No 63
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=56.91 E-value=20 Score=32.41 Aligned_cols=44 Identities=14% Similarity=0.109 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHhC-CchhHHhhhCCCCCHHHHHHHHhhhhhHHHH
Q 014135 73 QEESLIVELHAVLG-NRWSQIAAQLPGRTDDEIKNLWNSSIKKKLR 117 (430)
Q Consensus 73 EED~~Llelv~k~G-~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk~lk 117 (430)
+-|.+|+++..+-| ..|+.||+.+ |-+...|+.|++.+....+-
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCe
Confidence 57899999999988 5799999999 99999999999887766543
No 64
>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=55.74 E-value=29 Score=35.94 Aligned_cols=91 Identities=16% Similarity=0.270 Sum_probs=63.5
Q ss_pred cCCCCccCCCHHHHHHHHHHHHHhCCCC---ccccccccCccCCccccccccccccCCCCCCCCCCHHHHHHHHHHHHH-
Q 014135 9 KQKLRKGLWSPEEDEKLLNYITKHGHGC---WSSVPKLAGLQRCGKSCRLRWINYLRPDLKRGAFSVQEESLIVELHAV- 84 (430)
Q Consensus 9 kp~lkKg~WT~EEDe~Ll~lV~kyG~~n---W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~lkkg~WT~EED~~Llelv~k- 84 (430)
........||..|...|+++.+...... -.+|++.+. +|+..++++- .+.|+ +..+.+++++
T Consensus 16 g~~~gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~f-l~~LK------------~rvareaiqkv 81 (344)
T PF11035_consen 16 GEVTGPAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRDF-LQQLK------------GRVAREAIQKV 81 (344)
T ss_pred CCCCCcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHHH-HHHHH------------HHHHHHHHHHh
Confidence 3344456799999999999988764333 456777787 8988888763 33332 4455566655
Q ss_pred h-----CCc------------hhHHhhhCCCCCHHHHHHHHhhhhh
Q 014135 85 L-----GNR------------WSQIAAQLPGRTDDEIKNLWNSSIK 113 (430)
Q Consensus 85 ~-----G~~------------Ws~IA~~LpgRT~~QcR~RW~~~Lk 113 (430)
| |.+ |...|+.+.|.-...+-.-|-++|.
T Consensus 82 ~~~g~~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 82 HPGGLKGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred cccccccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 2 211 9999999999888888888877664
No 65
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=55.61 E-value=32 Score=36.31 Aligned_cols=43 Identities=19% Similarity=0.219 Sum_probs=38.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhHH-hhhCCCCCHHHHHHHHhh
Q 014135 68 GAFSVQEESLIVELHAVLGNRWSQI-AAQLPGRTDDEIKNLWNS 110 (430)
Q Consensus 68 g~WT~EED~~Llelv~k~G~~Ws~I-A~~LpgRT~~QcR~RW~~ 110 (430)
..|+++|-...-+.++.||.++..| +.+++.|+-..|-..|+.
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYl 321 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYL 321 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHH
Confidence 3799999999999999999999999 557899999999887753
No 66
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=55.27 E-value=7.5 Score=31.78 Aligned_cols=44 Identities=25% Similarity=0.605 Sum_probs=30.4
Q ss_pred CCCHHHHHHHHHHHHHh---CCC---------Ccccccccc----CccCCcccccccccc
Q 014135 16 LWSPEEDEKLLNYITKH---GHG---------CWSSVPKLA----GLQRCGKSCRLRWIN 59 (430)
Q Consensus 16 ~WT~EEDe~Ll~lV~ky---G~~---------nW~~IA~~l----~~~Rt~~QCr~Rw~n 59 (430)
.||+++++.|++++... |.. .|..|+..| +...+..||+.||..
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~ 60 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKT 60 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHH
Confidence 59999999999988654 211 277777654 334566777777754
No 67
>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=53.75 E-value=13 Score=30.91 Aligned_cols=17 Identities=18% Similarity=0.530 Sum_probs=10.3
Q ss_pred CCCCCCCCCHHHHHHHH
Q 014135 63 PDLKRGAFSVQEESLIV 79 (430)
Q Consensus 63 p~lkkg~WT~EED~~Ll 79 (430)
|....|-||+|+|+.|.
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 66778999999999993
No 68
>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=52.58 E-value=27 Score=25.37 Aligned_cols=41 Identities=22% Similarity=0.396 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHhCCchhHHhhhCCCCCHHHHHHHHhhhhhH
Q 014135 73 QEESLIVELHAVLGNRWSQIAAQLPGRTDDEIKNLWNSSIKK 114 (430)
Q Consensus 73 EED~~Llelv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk 114 (430)
+++..++.+.-..|-.+.+||+.| |-+...|+.+....+++
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 456666666665667899999999 88999999888777654
No 69
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=52.47 E-value=24 Score=34.11 Aligned_cols=45 Identities=13% Similarity=0.216 Sum_probs=35.2
Q ss_pred CCCHHHHHHHHHHHHHhCCchhHHhhhC---CCCCHHHHHHHHhhhhhH
Q 014135 69 AFSVQEESLIVELHAVLGNRWSQIAAQL---PGRTDDEIKNLWNSSIKK 114 (430)
Q Consensus 69 ~WT~EED~~Llelv~k~G~~Ws~IA~~L---pgRT~~QcR~RW~~~Lkk 114 (430)
.|++++|-+|+.+|.. |+.-..|+..+ ..-|-..+..||+.+|..
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd 48 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLYD 48 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHcC
Confidence 5999999999999865 55566666554 455889999999998854
No 70
>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=52.03 E-value=30 Score=28.31 Aligned_cols=39 Identities=13% Similarity=0.278 Sum_probs=29.1
Q ss_pred HHHHHHHHHhCC--------chhHHhhhCCC---CC--HHHHHHHHhhhhhH
Q 014135 76 SLIVELHAVLGN--------RWSQIAAQLPG---RT--DDEIKNLWNSSIKK 114 (430)
Q Consensus 76 ~~Llelv~k~G~--------~Ws~IA~~Lpg---RT--~~QcR~RW~~~Lkk 114 (430)
-+|..+|.+.|+ .|..||+.|.- -+ ..++|..|..+|.+
T Consensus 39 ~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 39 YKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 357888888884 59999999822 22 36889999888764
No 71
>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=47.67 E-value=60 Score=33.71 Aligned_cols=49 Identities=24% Similarity=0.458 Sum_probs=37.5
Q ss_pred CCCCCHHHHHHHHHHHHHh-CC---chhHHhhhCCCCCHHHHHHHHhhhhhHH
Q 014135 67 RGAFSVQEESLIVELHAVL-GN---RWSQIAAQLPGRTDDEIKNLWNSSIKKK 115 (430)
Q Consensus 67 kg~WT~EED~~Llelv~k~-G~---~Ws~IA~~LpgRT~~QcR~RW~~~Lkk~ 115 (430)
-..|+.-|...|+.+.+.. |. .-..|++.++||+..+|++--..+..+.
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rv 73 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRV 73 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHH
Confidence 4579999999999888765 43 3568899999999999998655444333
No 72
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=47.33 E-value=27 Score=31.92 Aligned_cols=45 Identities=7% Similarity=-0.037 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHhC-CchhHHhhhCCCCCHHHHHHHHhhhhhHHHH
Q 014135 72 VQEESLIVELHAVLG-NRWSQIAAQLPGRTDDEIKNLWNSSIKKKLR 117 (430)
Q Consensus 72 ~EED~~Llelv~k~G-~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk~lk 117 (430)
.+-|.+|+.+..+-| -.|.+||+.+ |-+...|+.|++.+.+..+.
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI 58 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFI 58 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCe
Confidence 457899999998888 5799999999 99999999999887766543
No 73
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=47.16 E-value=36 Score=28.15 Aligned_cols=40 Identities=15% Similarity=0.266 Sum_probs=30.5
Q ss_pred HHHHHHHHHhCC--------chhHHhhhCCC-----CCHHHHHHHHhhhhhHH
Q 014135 76 SLIVELHAVLGN--------RWSQIAAQLPG-----RTDDEIKNLWNSSIKKK 115 (430)
Q Consensus 76 ~~Llelv~k~G~--------~Ws~IA~~Lpg-----RT~~QcR~RW~~~Lkk~ 115 (430)
-+|..+|.+.|+ .|..||+.|.- ....++|..|.++|.+-
T Consensus 35 ~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~y 87 (93)
T smart00501 35 YRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPF 87 (93)
T ss_pred HHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHH
Confidence 457788888874 59999999822 24678899998888764
No 74
>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=46.00 E-value=6.6 Score=28.46 Aligned_cols=38 Identities=21% Similarity=0.354 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHhCCCCccccccccCccCCcccccccccc
Q 014135 20 EEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWIN 59 (430)
Q Consensus 20 EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n 59 (430)
+=|.+|+.++.+-+...|.+||+.+| =+...|..|+.+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg--lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG--LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT--S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC--cCHHHHHHHHHH
Confidence 45889999999999889999999998 788888888754
No 75
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=43.06 E-value=21 Score=39.82 Aligned_cols=48 Identities=17% Similarity=0.326 Sum_probs=36.4
Q ss_pred ccCCCHHHHHHHHHHHHHhCCCCccccccccC---------ccCCccccccccccccC
Q 014135 14 KGLWSPEEDEKLLNYITKHGHGCWSSVPKLAG---------LQRCGKSCRLRWINYLR 62 (430)
Q Consensus 14 Kg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~---------~~Rt~~QCr~Rw~n~L~ 62 (430)
|..||..|.+....+++.+| +++++|-..+- .-++-.|.|.+|++.+.
T Consensus 88 ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~ 144 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVR 144 (782)
T ss_pred ccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHH
Confidence 66799999999999999999 58988832111 13566788888877653
No 76
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=40.97 E-value=28 Score=38.71 Aligned_cols=45 Identities=20% Similarity=0.324 Sum_probs=41.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhHHhhhCCCCCHHHHHHHHhh
Q 014135 66 KRGAFSVQEESLIVELHAVLGNRWSQIAAQLPGRTDDEIKNLWNS 110 (430)
Q Consensus 66 kkg~WT~EED~~Llelv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~ 110 (430)
..++|+.+|-++...+....|.+.+.|+..+|+|...|||.+|..
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 456899999999999999999999999999999999999999864
No 77
>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=40.87 E-value=52 Score=28.43 Aligned_cols=38 Identities=21% Similarity=0.322 Sum_probs=27.8
Q ss_pred HHHHHHHHHhCCchhHHhhhCCCCCHHHHHHHHhhhhhH
Q 014135 76 SLIVELHAVLGNRWSQIAAQLPGRTDDEIKNLWNSSIKK 114 (430)
Q Consensus 76 ~~Llelv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk 114 (430)
..++.+.-..|-.+.+||+.+ |.+...|+.+....+++
T Consensus 119 r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 119 RKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334444334467899999998 88999999998876543
No 78
>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=37.31 E-value=41 Score=31.33 Aligned_cols=41 Identities=24% Similarity=0.218 Sum_probs=34.4
Q ss_pred CCCHHHHHHHHHHHHHhCCchhHHhhhCCCCCHHHHHHHHhh
Q 014135 69 AFSVQEESLIVELHAVLGNRWSQIAAQLPGRTDDEIKNLWNS 110 (430)
Q Consensus 69 ~WT~EED~~Llelv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~ 110 (430)
.||+|+.++|.+|.. -|-.=++||+.|.+.|.+.|.-+-+.
T Consensus 2 ~Wtde~~~~L~~lw~-~G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLWA-EGLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHHH-cCCCHHHHHHHhCCcchhhhhhhhhc
Confidence 599999999999984 47778999999988999998776554
No 79
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=36.55 E-value=13 Score=33.63 Aligned_cols=44 Identities=11% Similarity=0.152 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccccCCC
Q 014135 19 PEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINYLRPD 64 (430)
Q Consensus 19 ~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ 64 (430)
.+-|.+|+.+.++-|.-.|.+||+.+| -+...|+.|+.+..+..
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~G 51 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAG 51 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCC
Confidence 467999999999999889999999997 88999999998765544
No 80
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=34.84 E-value=41 Score=26.26 Aligned_cols=27 Identities=26% Similarity=0.510 Sum_probs=21.9
Q ss_pred hhHHhhhCC-CCCHHHHHHHHhhhhhHH
Q 014135 89 WSQIAAQLP-GRTDDEIKNLWNSSIKKK 115 (430)
Q Consensus 89 Ws~IA~~Lp-gRT~~QcR~RW~~~Lkk~ 115 (430)
|..||..|. .-+..+|+.||..+....
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~~y 56 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRDRY 56 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHHHH
Confidence 999999994 357889999999866544
No 81
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=33.36 E-value=72 Score=27.22 Aligned_cols=49 Identities=14% Similarity=0.104 Sum_probs=33.3
Q ss_pred CCCCHHHHHHHHHHHHHh----C----CchhHHh----hhC-CCCCHHHHHHHHhhhhhHHH
Q 014135 68 GAFSVQEESLIVELHAVL----G----NRWSQIA----AQL-PGRTDDEIKNLWNSSIKKKL 116 (430)
Q Consensus 68 g~WT~EED~~Llelv~k~----G----~~Ws~IA----~~L-pgRT~~QcR~RW~~~Lkk~l 116 (430)
..||+|+|..|++.+..| | ..|..+- ..| ..=+..|+.++-+.+-++..
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~ 66 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYR 66 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHH
Confidence 469999999999998776 6 2354443 334 23377888888777655543
No 82
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=32.90 E-value=59 Score=27.07 Aligned_cols=29 Identities=28% Similarity=0.567 Sum_probs=23.4
Q ss_pred HHHHHHHHHHhCCchhHHhhhCCCCCHHHH
Q 014135 75 ESLIVELHAVLGNRWSQIAAQLPGRTDDEI 104 (430)
Q Consensus 75 D~~Llelv~k~G~~Ws~IA~~LpgRT~~Qc 104 (430)
|+.|..+....|..|..+|+.| |=+..+|
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I 30 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDI 30 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 5678899999999999999998 5444443
No 83
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=32.18 E-value=13 Score=34.01 Aligned_cols=46 Identities=22% Similarity=0.223 Sum_probs=38.5
Q ss_pred CHHHHHHHHHHHHHhCCCCccccccccCccCCccccccccccccCCCC
Q 014135 18 SPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWINYLRPDL 65 (430)
Q Consensus 18 T~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n~L~p~l 65 (430)
-.+-|.+|+.+.++-|.-.|.+||+.+| -+...|+.|+.+..+..+
T Consensus 12 lD~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 12 LDRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 3677999999999999888999999997 888889999887655443
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=28.56 E-value=83 Score=26.15 Aligned_cols=28 Identities=25% Similarity=0.436 Sum_probs=22.8
Q ss_pred HHHHHHHHHHhCCchhHHhhhCCCCCHHH
Q 014135 75 ESLIVELHAVLGNRWSQIAAQLPGRTDDE 103 (430)
Q Consensus 75 D~~Llelv~k~G~~Ws~IA~~LpgRT~~Q 103 (430)
|.+|..+....|..|.++|+.| |=+...
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~d 31 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDE 31 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHH
Confidence 6788889999999999999999 444433
No 85
>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=28.36 E-value=1.1e+02 Score=28.27 Aligned_cols=47 Identities=17% Similarity=0.141 Sum_probs=38.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhHHhhhCC----CCCHHHHHHHHhhhh
Q 014135 66 KRGAFSVQEESLIVELHAVLGNRWSQIAAQLP----GRTDDEIKNLWNSSI 112 (430)
Q Consensus 66 kkg~WT~EED~~Llelv~k~G~~Ws~IA~~Lp----gRT~~QcR~RW~~~L 112 (430)
....-+..|..-|..||.+||.++...+.... -.|..||+.+...+.
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 44578999999999999999999988887653 479999998876553
No 86
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=27.90 E-value=98 Score=25.66 Aligned_cols=43 Identities=12% Similarity=0.104 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHhC-CchhHHhhhCCCCCHHHHHHHHhhhhhHHH
Q 014135 73 QEESLIVELHAVLG-NRWSQIAAQLPGRTDDEIKNLWNSSIKKKL 116 (430)
Q Consensus 73 EED~~Llelv~k~G-~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk~l 116 (430)
+.|.+|+.+..+.| -.+.+||+.+ |-+...|+.|...+.+..+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~ 46 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGV 46 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 56888999998888 4799999999 8899999999988776553
No 87
>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=27.80 E-value=1.2e+02 Score=25.27 Aligned_cols=34 Identities=26% Similarity=0.291 Sum_probs=24.9
Q ss_pred HHHHHhCCchhHHhhhCCCCCHHHHHHHHhhhhhH
Q 014135 80 ELHAVLGNRWSQIAAQLPGRTDDEIKNLWNSSIKK 114 (430)
Q Consensus 80 elv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk 114 (430)
.+.-..|..+.+||+.+ |-+...|+.+....+++
T Consensus 120 ~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 120 VLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred hhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34334577899999999 56888888888775544
No 88
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=27.46 E-value=33 Score=37.12 Aligned_cols=48 Identities=10% Similarity=0.061 Sum_probs=40.8
Q ss_pred CCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCcccccccccc
Q 014135 10 QKLRKGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWIN 59 (430)
Q Consensus 10 p~lkKg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n 59 (430)
.+-....||.||--++.++...|| ++..+|-+.|+ .|+-..++.-|..
T Consensus 183 r~~~~d~WT~Ed~vlFe~aF~~~G-K~F~kIrq~LP-~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 183 RTEFPDEWTAEDIVLFEQAFQFFG-KDFHKIRQALP-HRSLASLVQYYYS 230 (534)
T ss_pred cCCCcccchHHHHHHHHHHHHHhc-ccHHHHHHHcc-CccHHHHHHHHHH
Confidence 344566799999999999999999 58999999999 9999888876654
No 89
>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=25.26 E-value=1.6e+02 Score=20.00 Aligned_cols=36 Identities=19% Similarity=0.269 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHhCCchhHHhhhCCCCCHHHHHHHHhh
Q 014135 74 EESLIVELHAVLGNRWSQIAAQLPGRTDDEIKNLWNS 110 (430)
Q Consensus 74 ED~~Llelv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~ 110 (430)
++..++.++-..|-.+..||+.+ |-+...|+.+...
T Consensus 14 ~~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~ 49 (55)
T cd06171 14 REREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHR 49 (55)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHH
Confidence 34555666656677899999998 6677777665544
No 90
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=24.95 E-value=1.6e+02 Score=26.21 Aligned_cols=29 Identities=28% Similarity=0.362 Sum_probs=22.1
Q ss_pred hCCchhHHhhhCCCCCHHHHHHHHhhhhhH
Q 014135 85 LGNRWSQIAAQLPGRTDDEIKNLWNSSIKK 114 (430)
Q Consensus 85 ~G~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk 114 (430)
.|-.-.+||+.| |.+...|+.|....++.
T Consensus 133 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 161 (173)
T PRK09645 133 RGWSTAQIAADL-GIPEGTVKSRLHYALRA 161 (173)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 356679999998 88888998887755533
No 91
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=24.80 E-value=1.5e+02 Score=26.16 Aligned_cols=33 Identities=15% Similarity=0.216 Sum_probs=24.1
Q ss_pred HHHHhCCchhHHhhhCCCCCHHHHHHHHhhhhhH
Q 014135 81 LHAVLGNRWSQIAAQLPGRTDDEIKNLWNSSIKK 114 (430)
Q Consensus 81 lv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk 114 (430)
+....|-.+..||+.| |.+...|+.+....+++
T Consensus 139 l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 139 LREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREA 171 (182)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334467899999999 78888888887654443
No 92
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=24.61 E-value=1.5e+02 Score=27.45 Aligned_cols=38 Identities=21% Similarity=0.300 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHhCCchhHHhhhCCCCCHHHHHHHHhhhh
Q 014135 74 EESLIVELHAVLGNRWSQIAAQLPGRTDDEIKNLWNSSI 112 (430)
Q Consensus 74 ED~~Llelv~k~G~~Ws~IA~~LpgRT~~QcR~RW~~~L 112 (430)
+..+++++..-.|-.+.+||+.| |-+...|+.+|....
T Consensus 139 ~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR 176 (185)
T PF07638_consen 139 RQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR 176 (185)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 33445555555677899999999 999999999997665
No 93
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=24.30 E-value=1.2e+02 Score=26.60 Aligned_cols=30 Identities=23% Similarity=0.251 Sum_probs=22.8
Q ss_pred HhCCchhHHhhhCCCCCHHHHHHHHhhhhhH
Q 014135 84 VLGNRWSQIAAQLPGRTDDEIKNLWNSSIKK 114 (430)
Q Consensus 84 k~G~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk 114 (430)
..|-.+..||+.| |-+...|+.+....+++
T Consensus 139 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 139 VEGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466799999999 78888888887764433
No 94
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-associati
Probab=23.75 E-value=87 Score=25.53 Aligned_cols=28 Identities=25% Similarity=0.699 Sum_probs=22.1
Q ss_pred HHHHHHHHHHhCCchhHHhhhCCCCCHHH
Q 014135 75 ESLIVELHAVLGNRWSQIAAQLPGRTDDE 103 (430)
Q Consensus 75 D~~Llelv~k~G~~Ws~IA~~LpgRT~~Q 103 (430)
|..|..+....|..|.++|+.| |-+..+
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~d 31 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETD 31 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHH
Confidence 5677888899999999999999 444433
No 95
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=23.52 E-value=1.2e+02 Score=25.82 Aligned_cols=72 Identities=18% Similarity=0.331 Sum_probs=39.3
Q ss_pred CccCCCHHHHHHHHHHHHHh----CCC---Ccccccccc----CccCCccc-------cccccccccCCCCCCC---CCC
Q 014135 13 RKGLWSPEEDEKLLNYITKH----GHG---CWSSVPKLA----GLQRCGKS-------CRLRWINYLRPDLKRG---AFS 71 (430)
Q Consensus 13 kKg~WT~EEDe~Ll~lV~ky----G~~---nW~~IA~~l----~~~Rt~~Q-------Cr~Rw~n~L~p~lkkg---~WT 71 (430)
-...||+|++-.|++++..| |.. +|..+-..+ ...=+..| .+.||.+.+.. .+.| .++
T Consensus 3 ~qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~~k-~~~g~~~~~~ 81 (98)
T PF04504_consen 3 FQRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAVKK-SKNGKDPSFS 81 (98)
T ss_pred CcCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhhh-cccCcCCCCC
Confidence 34669999999999999877 421 333322222 11112222 33455554433 2222 567
Q ss_pred HHHHHHHHHHHHHh
Q 014135 72 VQEESLIVELHAVL 85 (430)
Q Consensus 72 ~EED~~Llelv~k~ 85 (430)
..-|.++.+|.++.
T Consensus 82 ~~hd~~~f~Lsk~I 95 (98)
T PF04504_consen 82 KPHDRRLFELSKKI 95 (98)
T ss_pred CHhHHHHHHHHHHH
Confidence 77777777776543
No 96
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=23.51 E-value=53 Score=36.63 Aligned_cols=51 Identities=22% Similarity=0.397 Sum_probs=45.1
Q ss_pred cccCCCCccCCCHHHHHHHHHHHHHhCCCCccccccccCccCCcccccccccc
Q 014135 7 CYKQKLRKGLWSPEEDEKLLNYITKHGHGCWSSVPKLAGLQRCGKSCRLRWIN 59 (430)
Q Consensus 7 ~~kp~lkKg~WT~EEDe~Ll~lV~kyG~~nW~~IA~~l~~~Rt~~QCr~Rw~n 59 (430)
.|.++...++|+.+|-++...+....|. +...|+..++ .|..+|++..|..
T Consensus 402 t~sk~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p-~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 402 TYSKKLETDKWDASETELFYKALSERGS-DFSLISNLFP-LRDRKQIKAKFKK 452 (584)
T ss_pred hccCccccCcccchhhHHhhhHHhhhcc-cccccccccc-cccHHHHHHHHhh
Confidence 3557778899999999999999999996 6999999998 9999999988754
No 97
>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=22.76 E-value=1.6e+02 Score=20.93 Aligned_cols=34 Identities=24% Similarity=0.190 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHhCCchhHHhhhCCCCCHHHHHHH
Q 014135 73 QEESLIVELHAVLGNRWSQIAAQLPGRTDDEIKNL 107 (430)
Q Consensus 73 EED~~Llelv~k~G~~Ws~IA~~LpgRT~~QcR~R 107 (430)
-|...|.++...+|++....|+.| |=+...+..|
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~k 38 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRK 38 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHH
Confidence 477889999999999999999988 4455444443
No 98
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=21.88 E-value=1.5e+02 Score=27.28 Aligned_cols=31 Identities=16% Similarity=0.215 Sum_probs=23.8
Q ss_pred HHhCCchhHHhhhCCCCCHHHHHHHHhhhhhH
Q 014135 83 AVLGNRWSQIAAQLPGRTDDEIKNLWNSSIKK 114 (430)
Q Consensus 83 ~k~G~~Ws~IA~~LpgRT~~QcR~RW~~~Lkk 114 (430)
...|-...+||..| |-+...|+.|....+++
T Consensus 147 ~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~~ 177 (192)
T PRK09643 147 DMQGYSVADAARML-GVAEGTVKSRCARGRAR 177 (192)
T ss_pred HHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 34567799999999 88899999998654433
No 99
>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=21.64 E-value=1.2e+02 Score=25.13 Aligned_cols=30 Identities=27% Similarity=0.539 Sum_probs=23.7
Q ss_pred HHHHHHHHHHhCCchhHHhhhCCCCCHHHHH
Q 014135 75 ESLIVELHAVLGNRWSQIAAQLPGRTDDEIK 105 (430)
Q Consensus 75 D~~Llelv~k~G~~Ws~IA~~LpgRT~~QcR 105 (430)
|..|..+....|.+|..+|+.| |=+...|.
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI~ 33 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQIH 33 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 5677888899999999999999 55555553
No 100
>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=21.64 E-value=82 Score=26.09 Aligned_cols=34 Identities=26% Similarity=0.318 Sum_probs=24.5
Q ss_pred HHHHHHHHHhCCchhHHhhhC--CCCCHHHHHHHHh
Q 014135 76 SLIVELHAVLGNRWSQIAAQL--PGRTDDEIKNLWN 109 (430)
Q Consensus 76 ~~Llelv~k~G~~Ws~IA~~L--pgRT~~QcR~RW~ 109 (430)
..|..+....|..|..+|+.| +...-..|+.+|.
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~LGlse~~Id~Ie~~~~ 38 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHLGLSYRELQRIKYNNR 38 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHcCCCHHHHHHHHHHCc
Confidence 468889999999999999998 2223334555553
No 101
>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=20.73 E-value=95 Score=25.91 Aligned_cols=35 Identities=20% Similarity=0.291 Sum_probs=25.6
Q ss_pred HHHHHHHHHHhCCchhHHhhhC--CCCCHHHHHHHHh
Q 014135 75 ESLIVELHAVLGNRWSQIAAQL--PGRTDDEIKNLWN 109 (430)
Q Consensus 75 D~~Llelv~k~G~~Ws~IA~~L--pgRT~~QcR~RW~ 109 (430)
|.+|..+....|..|.++|+.| +..--..|+..+-
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L~vs~~dI~~I~~e~p 40 (84)
T cd08805 4 EMKMAVIREHLGLSWAELARELQFSVEDINRIRVENP 40 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHcCCCHHHHHHHHHhCC
Confidence 5678888899999999999998 3333345555544
Done!