Query 048053
Match_columns 75
No_of_seqs 205 out of 1051
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 05:48:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048053.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048053hhsearch_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 2.3E-29 5.1E-34 179.5 6.8 75 1-75 1-81 (459)
2 PLN03212 Transcription repress 100.0 1.4E-28 3E-33 165.4 6.1 74 2-75 13-92 (249)
3 KOG0048 Transcription factor, 99.9 5.2E-26 1.1E-30 152.6 6.2 67 9-75 4-76 (238)
4 PF13921 Myb_DNA-bind_6: Myb-l 99.8 1.1E-20 2.3E-25 102.9 5.5 55 17-72 1-60 (60)
5 KOG0049 Transcription factor, 99.7 5.4E-18 1.2E-22 126.1 3.5 75 1-75 347-426 (939)
6 PF00249 Myb_DNA-binding: Myb- 99.6 2.5E-16 5.4E-21 82.6 3.1 42 14-55 1-48 (48)
7 PLN03212 Transcription repress 99.5 1.4E-15 3E-20 102.7 0.2 57 3-60 67-128 (249)
8 PLN03091 hypothetical protein; 99.5 7.2E-15 1.6E-19 105.6 1.4 54 3-57 56-114 (459)
9 KOG0050 mRNA splicing protein 99.4 2.3E-14 4.9E-19 104.6 0.9 64 12-75 5-73 (617)
10 KOG0049 Transcription factor, 99.4 1.1E-13 2.3E-18 103.5 3.2 49 5-53 244-298 (939)
11 KOG0051 RNA polymerase I termi 99.4 2.5E-13 5.3E-18 100.7 3.9 62 13-75 383-450 (607)
12 smart00717 SANT SANT SWI3, AD 99.4 7.3E-13 1.6E-17 67.6 3.9 43 14-56 1-48 (49)
13 COG5147 REB1 Myb superfamily p 99.3 3.5E-13 7.5E-18 98.7 1.7 66 10-75 16-86 (512)
14 KOG0048 Transcription factor, 99.2 5.4E-12 1.2E-16 84.8 3.6 55 3-58 51-110 (238)
15 cd00167 SANT 'SWI3, ADA2, N-Co 99.2 1.2E-11 2.7E-16 62.2 3.5 40 16-55 1-45 (45)
16 COG5147 REB1 Myb superfamily p 98.5 3E-08 6.4E-13 73.1 0.7 64 10-74 287-356 (512)
17 TIGR01557 myb_SHAQKYF myb-like 98.3 9.5E-07 2.1E-11 48.0 4.0 43 13-55 2-54 (57)
18 KOG0457 Histone acetyltransfer 98.2 1.6E-06 3.5E-11 62.7 4.1 46 11-56 69-119 (438)
19 KOG0050 mRNA splicing protein 98.2 3.7E-07 8E-12 67.4 0.2 51 6-57 51-105 (617)
20 PF08914 Myb_DNA-bind_2: Rap1 97.5 4.4E-05 9.6E-10 42.4 1.1 46 14-59 2-61 (65)
21 TIGR02894 DNA_bind_RsfA transc 97.5 0.0001 2.2E-09 47.5 2.5 46 12-57 2-57 (161)
22 PF13837 Myb_DNA-bind_4: Myb/S 97.4 9.6E-05 2.1E-09 42.1 1.9 42 14-55 1-64 (90)
23 COG5259 RSC8 RSC chromatin rem 97.3 0.00015 3.4E-09 53.3 2.5 41 13-54 278-323 (531)
24 KOG1279 Chromatin remodeling f 97.2 0.00028 6.1E-09 52.4 3.2 44 10-54 249-297 (506)
25 KOG0051 RNA polymerase I termi 97.2 0.00016 3.5E-09 54.5 1.7 55 12-66 434-519 (607)
26 PF13921 Myb_DNA-bind_6: Myb-l 96.9 0.00031 6.7E-09 37.5 0.6 20 6-25 41-60 (60)
27 PRK13923 putative spore coat p 96.8 0.00089 1.9E-08 43.5 2.4 46 12-57 3-58 (170)
28 PF13325 MCRS_N: N-terminal re 96.6 0.0046 1E-07 41.1 4.7 57 16-74 1-86 (199)
29 PF13873 Myb_DNA-bind_5: Myb/S 96.4 0.0023 5E-08 35.8 1.9 42 14-55 2-69 (78)
30 PF09111 SLIDE: SLIDE; InterP 96.2 0.0075 1.6E-07 37.0 3.5 46 10-55 45-110 (118)
31 COG5114 Histone acetyltransfer 96.0 0.0057 1.2E-07 43.7 2.5 45 12-56 61-110 (432)
32 PF11626 Rap1_C: TRF2-interact 94.2 0.056 1.2E-06 31.2 2.7 24 10-33 43-74 (87)
33 PF12776 Myb_DNA-bind_3: Myb/S 93.7 0.14 3E-06 29.2 3.7 39 16-54 1-61 (96)
34 KOG4282 Transcription factor G 91.7 0.19 4E-06 35.3 2.9 42 15-56 55-114 (345)
35 PF09420 Nop16: Ribosome bioge 89.8 0.59 1.3E-05 29.8 3.6 43 12-55 112-163 (164)
36 PLN03142 Probable chromatin-re 89.2 0.67 1.5E-05 37.5 4.2 45 12-56 924-985 (1033)
37 PF13404 HTH_AsnC-type: AsnC-t 89.1 0.4 8.6E-06 24.1 2.0 34 20-53 3-40 (42)
38 PRK11179 DNA-binding transcrip 86.3 0.87 1.9E-05 28.4 2.7 42 19-60 8-53 (153)
39 KOG0384 Chromodomain-helicase 86.3 0.33 7.2E-06 39.9 1.0 29 13-41 1132-1160(1373)
40 PRK11169 leucine-responsive tr 85.5 0.66 1.4E-05 29.4 1.9 43 18-60 12-58 (164)
41 COG5118 BDP1 Transcription ini 81.4 1.8 3.9E-05 31.9 3.0 40 13-53 364-408 (507)
42 KOG2656 DNA methyltransferase 77.6 3.9 8.5E-05 30.1 3.7 44 11-55 127-181 (445)
43 KOG4468 Polycomb-group transcr 70.6 5 0.00011 31.3 2.9 42 14-56 88-144 (782)
44 PF00674 DUP: DUP family; Int 70.6 5 0.00011 23.8 2.5 37 23-59 44-103 (108)
45 PF01388 ARID: ARID/BRIGHT DNA 68.8 1.8 3.9E-05 24.5 0.2 33 24-56 40-89 (92)
46 PF04504 DUF573: Protein of un 67.1 19 0.00042 21.1 4.4 61 14-75 4-91 (98)
47 smart00344 HTH_ASNC helix_turn 66.6 8.8 0.00019 22.0 2.9 40 20-59 3-46 (108)
48 KOG4167 Predicted DNA-binding 63.4 8 0.00017 30.8 2.8 40 14-54 619-663 (907)
49 PF10440 WIYLD: Ubiquitin-bind 60.6 6.3 0.00014 21.8 1.4 18 24-42 31-48 (65)
50 smart00501 BRIGHT BRIGHT, ARID 59.8 4.7 0.0001 23.0 0.8 34 24-57 36-86 (93)
51 COG1522 Lrp Transcriptional re 54.7 13 0.00028 22.5 2.3 42 19-60 7-52 (154)
52 smart00595 MADF subfamily of S 54.7 4.7 0.0001 22.4 0.3 19 36-54 29-51 (89)
53 PF09197 Rap1-DNA-bind: Rap1, 53.3 15 0.00032 22.2 2.3 17 16-32 1-17 (105)
54 PF08281 Sigma70_r4_2: Sigma-7 51.9 12 0.00026 18.8 1.6 35 19-54 12-50 (54)
55 PF10892 DUF2688: Protein of u 46.9 20 0.00043 19.4 1.9 15 15-29 43-57 (60)
56 PF09846 DUF2073: Uncharacteri 46.9 19 0.00042 21.7 2.1 17 14-30 26-42 (104)
57 PF10545 MADF_DNA_bdg: Alcohol 42.2 8.9 0.00019 20.7 0.1 12 43-54 41-52 (85)
58 TIGR01210 conserved hypothetic 38.8 40 0.00086 23.6 2.9 49 10-58 256-306 (313)
59 COG1168 MalY Bifunctional PLP- 36.4 53 0.0011 24.2 3.3 25 9-33 166-191 (388)
60 cd08319 Death_RAIDD Death doma 32.2 28 0.00061 19.9 1.1 20 22-42 2-21 (83)
61 PF08074 CHDCT2: CHDCT2 (NUC03 32.1 20 0.00044 23.5 0.6 26 16-41 5-30 (173)
62 KOG1194 Predicted DNA-binding 31.7 35 0.00076 25.9 1.8 29 13-42 186-214 (534)
63 PF02954 HTH_8: Bacterial regu 30.1 57 0.0012 15.7 2.0 21 21-42 6-26 (42)
64 PF05546 She9_MDM33: She9 / Md 28.9 61 0.0013 21.9 2.4 20 13-32 82-101 (207)
65 PF09356 Phage_BR0599: Phage c 27.5 33 0.00071 19.4 0.9 14 43-56 56-69 (80)
66 PF09019 EcoRII-C: EcoRII C te 27.3 11 0.00025 24.4 -1.2 12 45-56 96-107 (164)
67 PF11216 DUF3012: Protein of u 26.8 36 0.00079 16.2 0.8 12 12-23 13-24 (32)
68 KOG4329 DNA-binding protein [G 25.5 96 0.0021 23.0 3.1 37 15-52 278-320 (445)
69 COG3795 Uncharacterized protei 25.3 35 0.00076 21.2 0.8 18 15-32 15-32 (123)
70 KOG2009 Transcription initiati 25.3 1.4E+02 0.003 23.3 4.0 44 9-53 404-452 (584)
71 KOG0798 Uncharacterized conser 25.0 29 0.00063 25.4 0.4 42 14-55 338-379 (380)
72 PF00605 IRF: Interferon regul 23.3 1.1E+02 0.0023 18.4 2.6 45 12-57 37-83 (109)
73 PF04545 Sigma70_r4: Sigma-70, 23.0 87 0.0019 15.3 1.9 35 20-55 7-45 (50)
74 cd08803 Death_ank3 Death domai 23.0 62 0.0013 18.4 1.5 20 22-42 4-23 (84)
75 PF08870 DUF1832: Domain of un 22.8 68 0.0015 19.3 1.7 25 18-42 5-29 (113)
76 PRK03906 mannonate dehydratase 22.4 85 0.0018 22.9 2.4 28 14-42 37-64 (385)
77 PF03808 Glyco_tran_WecB: Glyc 22.0 1.2E+02 0.0026 19.1 2.8 33 13-46 81-114 (172)
78 TIGR00696 wecB_tagA_cpsF bacte 21.5 1.3E+02 0.0028 19.4 2.9 32 14-46 81-113 (177)
79 PF08417 PaO: Pheophorbide a o 21.3 1.2E+02 0.0027 17.1 2.5 20 20-39 69-92 (92)
80 KOG2941 Beta-1,4-mannosyltrans 21.2 45 0.00097 24.7 0.8 21 13-33 260-281 (444)
81 KOG3200 Uncharacterized conser 20.8 69 0.0015 21.5 1.5 25 17-41 21-45 (224)
82 KOG2925 Predicted translation 20.8 1E+02 0.0022 20.0 2.2 40 1-41 1-40 (167)
83 PF05924 SAMP: SAMP Motif; In 20.5 95 0.0021 13.2 1.6 10 21-30 2-11 (20)
84 TIGR01765 tspaseT_teng_N trans 20.2 1.1E+02 0.0024 16.5 2.1 18 16-33 7-24 (73)
85 TIGR00695 uxuA mannonate dehyd 20.1 1E+02 0.0022 22.7 2.4 28 14-42 37-64 (394)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=99.96 E-value=2.3e-29 Score=179.46 Aligned_cols=75 Identities=49% Similarity=0.937 Sum_probs=72.6
Q ss_pred CCCCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCCcccc------CChHHHHHHHHhhcCCCCCCCCCCHHHHHHHhc
Q 048053 1 MVRAPTYDGRGMKKGAWSKEEDDKLRAYILKYGHWNWAQLP------KSGKSCRLRWMNYLRPDIKHGNYTKEEETKRKR 74 (75)
Q Consensus 1 m~r~~~~~~~~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia------rt~~qcr~Rw~~~L~~~~~~~~wt~eEd~~L~~ 74 (75)
|||++||.++.++||+||+|||++|+++|.+||.++|..|| |+++|||+||.++|+|.+++++||+|||++|++
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 99999999999999999999999999999999999999999 499999999999999999999999999999986
Q ss_pred C
Q 048053 75 L 75 (75)
Q Consensus 75 l 75 (75)
+
T Consensus 81 L 81 (459)
T PLN03091 81 L 81 (459)
T ss_pred H
Confidence 4
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.95 E-value=1.4e-28 Score=165.36 Aligned_cols=74 Identities=50% Similarity=0.929 Sum_probs=70.0
Q ss_pred CCCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCCcccc------CChHHHHHHHHhhcCCCCCCCCCCHHHHHHHhcC
Q 048053 2 VRAPTYDGRGMKKGAWSKEEDDKLRAYILKYGHWNWAQLP------KSGKSCRLRWMNYLRPDIKHGNYTKEEETKRKRL 75 (75)
Q Consensus 2 ~r~~~~~~~~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia------rt~~qcr~Rw~~~L~~~~~~~~wt~eEd~~L~~l 75 (75)
.+.|||.++++++++||+|||++|+++|++||..+|..|| |+++|||+||.++|+|.+++++||.|||++|+++
T Consensus 13 ~~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel 92 (249)
T PLN03212 13 KTTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRL 92 (249)
T ss_pred CCCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHH
Confidence 3679999999999999999999999999999988999998 4899999999999999999999999999999863
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.93 E-value=5.2e-26 Score=152.56 Aligned_cols=67 Identities=49% Similarity=0.872 Sum_probs=62.5
Q ss_pred CCCCccCCCCHHHHHHHHHHHHHhCCCCCccccC------ChHHHHHHHHhhcCCCCCCCCCCHHHHHHHhcC
Q 048053 9 GRGMKKGAWSKEEDDKLRAYILKYGHWNWAQLPK------SGKSCRLRWMNYLRPDIKHGNYTKEEETKRKRL 75 (75)
Q Consensus 9 ~~~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Iar------t~~qcr~Rw~~~L~~~~~~~~wt~eEd~~L~~l 75 (75)
+|.+.||+||+|||++|+.+|.+||+++|..||+ ++++||.||.|||+|+++++.||+|||..|++|
T Consensus 4 k~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~l 76 (238)
T KOG0048|consen 4 NPELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKL 76 (238)
T ss_pred CccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHH
Confidence 3445689999999999999999999999999994 899999999999999999999999999999875
No 4
>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=99.83 E-value=1.1e-20 Score=102.92 Aligned_cols=55 Identities=45% Similarity=0.934 Sum_probs=49.9
Q ss_pred CCHHHHHHHHHHHHHhCCCCCcccc-----CChHHHHHHHHhhcCCCCCCCCCCHHHHHHH
Q 048053 17 WSKEEDDKLRAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLRPDIKHGNYTKEEETKR 72 (75)
Q Consensus 17 Wt~eED~~L~~~v~~~g~~~W~~Ia-----rt~~qcr~Rw~~~L~~~~~~~~wt~eEd~~L 72 (75)
||+|||++|+.+|..|| .+|..|| ||+.||+.||.++|.|.+++++||++||++|
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 99999999999999999 5999999 5999999999999999999999999999987
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.71 E-value=5.4e-18 Score=126.12 Aligned_cols=75 Identities=27% Similarity=0.459 Sum_probs=70.6
Q ss_pred CCCCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCCcccc-----CChHHHHHHHHhhcCCCCCCCCCCHHHHHHHhcC
Q 048053 1 MVRAPTYDGRGMKKGAWSKEEDDKLRAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLRPDIKHGNYTKEEETKRKRL 75 (75)
Q Consensus 1 m~r~~~~~~~~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia-----rt~~qcr~Rw~~~L~~~~~~~~wt~eEd~~L~~l 75 (75)
++|+...+.|++++|+||++||.+|+.+|.+||...|.+|- |+..|||+||.|.|+...+.+.||-.||+.|+.+
T Consensus 347 I~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~ 426 (939)
T KOG0049|consen 347 ITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYA 426 (939)
T ss_pred hhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhccCceeecchHHHHHH
Confidence 46888899999999999999999999999999999999987 5999999999999999999999999999999863
No 6
>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=99.63 E-value=2.5e-16 Score=82.57 Aligned_cols=42 Identities=43% Similarity=0.935 Sum_probs=36.9
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCcccc------CChHHHHHHHHhhc
Q 048053 14 KGAWSKEEDDKLRAYILKYGHWNWAQLP------KSGKSCRLRWMNYL 55 (75)
Q Consensus 14 k~~Wt~eED~~L~~~v~~~g~~~W~~Ia------rt~~qcr~Rw~~~L 55 (75)
|++||+|||++|+++|.+||.++|..|| ||+.||+.||.++|
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 6899999999999999999975699999 49999999999875
No 7
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.52 E-value=1.4e-15 Score=102.70 Aligned_cols=57 Identities=19% Similarity=0.369 Sum_probs=51.5
Q ss_pred CCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCCcccc-----CChHHHHHHHHhhcCCCCC
Q 048053 3 RAPTYDGRGMKKGAWSKEEDDKLRAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLRPDIK 60 (75)
Q Consensus 3 r~~~~~~~~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia-----rt~~qcr~Rw~~~L~~~~~ 60 (75)
|+..+++|++++++||+|||++|++++..|| ++|..|| ||++||++||+.+|...+.
T Consensus 67 RW~N~L~P~I~kgpWT~EED~lLlel~~~~G-nKWs~IAk~LpGRTDnqIKNRWns~LrK~l~ 128 (249)
T PLN03212 67 RWMNYLRPSVKRGGITSDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTHLRKKLL 128 (249)
T ss_pred HHHHhhchhcccCCCChHHHHHHHHHHHhcc-ccHHHHHhhcCCCCHHHHHHHHHHHHhHHHH
Confidence 5667899999999999999999999999999 6999999 4999999999998876543
No 8
>PLN03091 hypothetical protein; Provisional
Probab=99.49 E-value=7.2e-15 Score=105.60 Aligned_cols=54 Identities=20% Similarity=0.447 Sum_probs=49.4
Q ss_pred CCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCCcccc-----CChHHHHHHHHhhcCC
Q 048053 3 RAPTYDGRGMKKGAWSKEEDDKLRAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLRP 57 (75)
Q Consensus 3 r~~~~~~~~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia-----rt~~qcr~Rw~~~L~~ 57 (75)
|+..+++|++++|+||+|||++|++++..|| .+|..|| ||+++|++||+.+|..
T Consensus 56 RW~NyLdP~IkKgpWT~EED~lLLeL~k~~G-nKWskIAk~LPGRTDnqIKNRWnslLKK 114 (459)
T PLN03091 56 RWINYLRPDLKRGTFSQQEENLIIELHAVLG-NRWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (459)
T ss_pred HHHhccCCcccCCCCCHHHHHHHHHHHHHhC-cchHHHHHhcCCCCHHHHHHHHHHHHHH
Confidence 5667899999999999999999999999999 5999999 4999999999987654
No 9
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.43 E-value=2.3e-14 Score=104.60 Aligned_cols=64 Identities=33% Similarity=0.848 Sum_probs=60.8
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCCccccC-----ChHHHHHHHHhhcCCCCCCCCCCHHHHHHHhcC
Q 048053 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQLPK-----SGKSCRLRWMNYLRPDIKHGNYTKEEETKRKRL 75 (75)
Q Consensus 12 ~~k~~Wt~eED~~L~~~v~~~g~~~W~~Iar-----t~~qcr~Rw~~~L~~~~~~~~wt~eEd~~L~~l 75 (75)
++.|.|+.-||+.|..+|.+||.+.|+.|+. ++.||+.||..+|+|.|++..||.+||++||.|
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhl 73 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHL 73 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHH
Confidence 5779999999999999999999999999994 999999999999999999999999999999864
No 10
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.41 E-value=1.1e-13 Score=103.54 Aligned_cols=49 Identities=22% Similarity=0.337 Sum_probs=43.2
Q ss_pred CCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCCcccc------CChHHHHHHHHh
Q 048053 5 PTYDGRGMKKGAWSKEEDDKLRAYILKYGHWNWAQLP------KSGKSCRLRWMN 53 (75)
Q Consensus 5 ~~~~~~~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia------rt~~qcr~Rw~~ 53 (75)
+.++.|+++|..||+|||++|+.+...+|..+|..|| |++.||.++|+.
T Consensus 244 ~n~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t 298 (939)
T KOG0049|consen 244 YNELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKT 298 (939)
T ss_pred hhhcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHH
Confidence 4578999999999999999999999999999999999 488899874433
No 11
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.39 E-value=2.5e-13 Score=100.67 Aligned_cols=62 Identities=29% Similarity=0.708 Sum_probs=58.0
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCcccc----CChHHHHHHHHhhcCCCC--CCCCCCHHHHHHHhcC
Q 048053 13 KKGAWSKEEDDKLRAYILKYGHWNWAQLP----KSGKSCRLRWMNYLRPDI--KHGNYTKEEETKRKRL 75 (75)
Q Consensus 13 ~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia----rt~~qcr~Rw~~~L~~~~--~~~~wt~eEd~~L~~l 75 (75)
.+|.||++|++.|..+|.++| +.|..|+ |.|..|++||+++..+.- +++.||.||.++|+++
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g-~~W~~Ig~~lgr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~ 450 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHG-NDWKEIGKALGRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKT 450 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhc-ccHHHHHHHHccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHH
Confidence 899999999999999999999 7999998 599999999999999974 8999999999999864
No 12
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.37 E-value=7.3e-13 Score=67.65 Aligned_cols=43 Identities=42% Similarity=0.974 Sum_probs=39.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCcccc-----CChHHHHHHHHhhcC
Q 048053 14 KGAWSKEEDDKLRAYILKYGHWNWAQLP-----KSGKSCRLRWMNYLR 56 (75)
Q Consensus 14 k~~Wt~eED~~L~~~v~~~g~~~W~~Ia-----rt~~qcr~Rw~~~L~ 56 (75)
+++||++||.+|+.++..||..+|..|| +|+.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 4789999999999999999966999999 499999999998765
No 13
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.33 E-value=3.5e-13 Score=98.68 Aligned_cols=66 Identities=35% Similarity=0.705 Sum_probs=61.9
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCCCCccccC-----ChHHHHHHHHhhcCCCCCCCCCCHHHHHHHhcC
Q 048053 10 RGMKKGAWSKEEDDKLRAYILKYGHWNWAQLPK-----SGKSCRLRWMNYLRPDIKHGNYTKEEETKRKRL 75 (75)
Q Consensus 10 ~~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Iar-----t~~qcr~Rw~~~L~~~~~~~~wt~eEd~~L~~l 75 (75)
-.++.|.|+..||+.|..+|+.+|+++|+.||. +++||+.||+++++|.++++.|+.+||..|+.|
T Consensus 16 ~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l 86 (512)
T COG5147 16 TKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDL 86 (512)
T ss_pred ceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhcccccccHHHHHHHHHH
Confidence 356889999999999999999999999999993 999999999999999999999999999999864
No 14
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.25 E-value=5.4e-12 Score=84.79 Aligned_cols=55 Identities=22% Similarity=0.430 Sum_probs=50.1
Q ss_pred CCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCCccccC-----ChHHHHHHHHhhcCCC
Q 048053 3 RAPTYDGRGMKKGAWSKEEDDKLRAYILKYGHWNWAQLPK-----SGKSCRLRWMNYLRPD 58 (75)
Q Consensus 3 r~~~~~~~~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Iar-----t~~qcr~Rw~~~L~~~ 58 (75)
|...|++|+++||.||+|||..|++++..+| +.|+.||+ |++.+++.|+..|...
T Consensus 51 RW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~G-NrWs~IA~~LPGRTDNeIKN~Wnt~lkkk 110 (238)
T KOG0048|consen 51 RWTNYLRPDLKRGNFSDEEEDLIIKLHALLG-NRWSLIAGRLPGRTDNEVKNHWNTHLKKK 110 (238)
T ss_pred HhhcccCCCccCCCCCHHHHHHHHHHHHHHC-cHHHHHHhhCCCcCHHHHHHHHHHHHHHH
Confidence 4567899999999999999999999999999 79999994 9999999999887653
No 15
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.23 E-value=1.2e-11 Score=62.18 Aligned_cols=40 Identities=45% Similarity=0.936 Sum_probs=36.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCccccC-----ChHHHHHHHHhhc
Q 048053 16 AWSKEEDDKLRAYILKYGHWNWAQLPK-----SGKSCRLRWMNYL 55 (75)
Q Consensus 16 ~Wt~eED~~L~~~v~~~g~~~W~~Iar-----t~~qcr~Rw~~~L 55 (75)
+||++||..|+.++..||..+|..||+ ++.+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 699999999999999999779999994 9999999998763
No 16
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.50 E-value=3e-08 Score=73.08 Aligned_cols=64 Identities=28% Similarity=0.638 Sum_probs=56.8
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCCCCccccC----ChHHHHHHHHhhcCC--CCCCCCCCHHHHHHHhc
Q 048053 10 RGMKKGAWSKEEDDKLRAYILKYGHWNWAQLPK----SGKSCRLRWMNYLRP--DIKHGNYTKEEETKRKR 74 (75)
Q Consensus 10 ~~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Iar----t~~qcr~Rw~~~L~~--~~~~~~wt~eEd~~L~~ 74 (75)
+.-.+|.||++|+..|...+..+| ..|..|++ -+..|++||.+|..+ .+++++||.||+.+|..
T Consensus 287 ~f~~~~~wt~e~~~eL~~~~~~~~-~~w~~ig~~~~rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~ 356 (512)
T COG5147 287 IFEQRGKWTKEEEQELAKLVVEHG-GSWTEIGKLLGRMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDK 356 (512)
T ss_pred HHhhhccCcccccccccccccccc-chhhHhhhhhccCcHHHHHHHhhhccccCccCCCCCchhhhhhHHH
Confidence 334689999999999999999999 59999995 888999999999999 67788999999988753
No 17
>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=98.34 E-value=9.5e-07 Score=47.96 Aligned_cols=43 Identities=14% Similarity=0.362 Sum_probs=37.7
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCC---cccc------C-ChHHHHHHHHhhc
Q 048053 13 KKGAWSKEEDDKLRAYILKYGHWNW---AQLP------K-SGKSCRLRWMNYL 55 (75)
Q Consensus 13 ~k~~Wt~eED~~L~~~v~~~g~~~W---~~Ia------r-t~~qcr~Rw~~~L 55 (75)
++-.||+||..++++++..+|.++| ..|+ + |..||+.+.+.|.
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 3568999999999999999998799 8886 3 8999999998874
No 18
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.22 E-value=1.6e-06 Score=62.75 Aligned_cols=46 Identities=17% Similarity=0.473 Sum_probs=41.4
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCCccccC-----ChHHHHHHHHhhcC
Q 048053 11 GMKKGAWSKEEDDKLRAYILKYGHWNWAQLPK-----SGKSCRLRWMNYLR 56 (75)
Q Consensus 11 ~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Iar-----t~~qcr~Rw~~~L~ 56 (75)
.+-...||.+|+-.|++++..||.|||..||. +..+|+++|.++..
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHh
Confidence 45678899999999999999999999999994 99999999999643
No 19
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.18 E-value=3.7e-07 Score=67.44 Aligned_cols=51 Identities=25% Similarity=0.489 Sum_probs=46.3
Q ss_pred CCCCCCCccCCCCHHHHHHHHHHHHHhCCCCCcccc----CChHHHHHHHHhhcCC
Q 048053 6 TYDGRGMKKGAWSKEEDDKLRAYILKYGHWNWAQLP----KSGKSCRLRWMNYLRP 57 (75)
Q Consensus 6 ~~~~~~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia----rt~~qcr~Rw~~~L~~ 57 (75)
-+++|.+++.-||.|||++|+.+..... ..|..|| +++.||-+||++.|..
T Consensus 51 e~ldp~i~~tews~eederlLhlakl~p-~qwrtIa~i~gr~~~qc~eRy~~ll~~ 105 (617)
T KOG0050|consen 51 EWLDPAIKKTEWSREEDERLLHLAKLEP-TQWRTIADIMGRTSQQCLERYNNLLDV 105 (617)
T ss_pred HHhCHHHhhhhhhhhHHHHHHHHHHhcC-CccchHHHHhhhhHHHHHHHHHHHHHH
Confidence 3578999999999999999999999998 4999999 5999999999998754
No 20
>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=97.49 E-value=4.4e-05 Score=42.40 Aligned_cols=46 Identities=24% Similarity=0.419 Sum_probs=27.6
Q ss_pred cCCCCHHHHHHHHHHHHHhCC--------CCCccccC------ChHHHHHHHHhhcCCCC
Q 048053 14 KGAWSKEEDDKLRAYILKYGH--------WNWAQLPK------SGKSCRLRWMNYLRPDI 59 (75)
Q Consensus 14 k~~Wt~eED~~L~~~v~~~g~--------~~W~~Iar------t~~qcr~Rw~~~L~~~~ 59 (75)
+.+||.+||+.|+..|..+.. .-|..+++ |-.+-|+||...|.+..
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 568999999999999976632 12666553 66788999999988753
No 21
>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=97.45 E-value=0.0001 Score=47.45 Aligned_cols=46 Identities=30% Similarity=0.699 Sum_probs=35.7
Q ss_pred CccCCCCHHHHHHHHHHHHHh---CC---CCCcc----ccCChHHHHHHHHhhcCC
Q 048053 12 MKKGAWSKEEDDKLRAYILKY---GH---WNWAQ----LPKSGKSCRLRWMNYLRP 57 (75)
Q Consensus 12 ~~k~~Wt~eED~~L~~~v~~~---g~---~~W~~----Iart~~qcr~Rw~~~L~~ 57 (75)
.+...||.|||.+|.+.|-.| |. ..... ++||+..|.-||+.++..
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~RTsAACGFRWNs~VRk 57 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALNRTAAACGFRWNAYVRK 57 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHcccHHHhcchHHHHHHH
Confidence 367799999999999999988 32 01332 336999999999999874
No 22
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.42 E-value=9.6e-05 Score=42.13 Aligned_cols=42 Identities=21% Similarity=0.597 Sum_probs=30.1
Q ss_pred cCCCCHHHHHHHHHHHHH------hC---C--C--CCcccc---------CChHHHHHHHHhhc
Q 048053 14 KGAWSKEEDDKLRAYILK------YG---H--W--NWAQLP---------KSGKSCRLRWMNYL 55 (75)
Q Consensus 14 k~~Wt~eED~~L~~~v~~------~g---~--~--~W~~Ia---------rt~~qcr~Rw~~~L 55 (75)
+..||.+|...|+.++.. ++ . + -|..|| +|+.||+.+|.+..
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 358999999999999877 11 1 1 399999 39999999999864
No 23
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.32 E-value=0.00015 Score=53.31 Aligned_cols=41 Identities=24% Similarity=0.553 Sum_probs=37.1
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCccccC-----ChHHHHHHHHhh
Q 048053 13 KKGAWSKEEDDKLRAYILKYGHWNWAQLPK-----SGKSCRLRWMNY 54 (75)
Q Consensus 13 ~k~~Wt~eED~~L~~~v~~~g~~~W~~Iar-----t~~qcr~Rw~~~ 54 (75)
....||.+|-.+|+++|+.|| .+|.+||+ +..||-.+|.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~yg-DdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYG-DDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhh-hhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 456999999999999999999 59999995 999999999763
No 24
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.25 E-value=0.00028 Score=52.38 Aligned_cols=44 Identities=23% Similarity=0.510 Sum_probs=38.6
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCCCCccccC-----ChHHHHHHHHhh
Q 048053 10 RGMKKGAWSKEEDDKLRAYILKYGHWNWAQLPK-----SGKSCRLRWMNY 54 (75)
Q Consensus 10 ~~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Iar-----t~~qcr~Rw~~~ 54 (75)
....++.||.+|+-+|+++|..|| .+|.+||. |..||-.++...
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie~y~-ddW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIEMYG-DDWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred cccCCCCccHHHHHHHHHHHHHhc-ccHHHHHhccCCCCHHHHHHHHHhc
Confidence 344678999999999999999999 59999994 999999999763
No 25
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=97.22 E-value=0.00016 Score=54.50 Aligned_cols=55 Identities=29% Similarity=0.626 Sum_probs=43.0
Q ss_pred CccCCCCHHHHHHHHHHHH-------Hh------------------CCCCCcccc-----CChHHHHHHHHhhcC-CCCC
Q 048053 12 MKKGAWSKEEDDKLRAYIL-------KY------------------GHWNWAQLP-----KSGKSCRLRWMNYLR-PDIK 60 (75)
Q Consensus 12 ~~k~~Wt~eED~~L~~~v~-------~~------------------g~~~W~~Ia-----rt~~qcr~Rw~~~L~-~~~~ 60 (75)
.++|+||.||.++|+.+|+ ++ ...+|..|+ |+..|||..|...+- |..+
T Consensus 434 ~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n 513 (607)
T KOG0051|consen 434 RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFN 513 (607)
T ss_pred cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhh
Confidence 5999999999999999995 22 224799999 499999999999764 4555
Q ss_pred CCCCCH
Q 048053 61 HGNYTK 66 (75)
Q Consensus 61 ~~~wt~ 66 (75)
...|..
T Consensus 514 ~~~~~~ 519 (607)
T KOG0051|consen 514 KRQESK 519 (607)
T ss_pred cccccc
Confidence 555553
No 26
>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=96.92 E-value=0.00031 Score=37.52 Aligned_cols=20 Identities=35% Similarity=0.699 Sum_probs=17.7
Q ss_pred CCCCCCCccCCCCHHHHHHH
Q 048053 6 TYDGRGMKKGAWSKEEDDKL 25 (75)
Q Consensus 6 ~~~~~~~~k~~Wt~eED~~L 25 (75)
..++|.+.+++||++||++|
T Consensus 41 ~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 41 NHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp HTTSTTSTSSSSSHHHHHHH
T ss_pred HHCcccccCCCcCHHHHhcC
Confidence 35789999999999999987
No 27
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.84 E-value=0.00089 Score=43.54 Aligned_cols=46 Identities=26% Similarity=0.545 Sum_probs=35.0
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCCcccc----------CChHHHHHHHHhhcCC
Q 048053 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQLP----------KSGKSCRLRWMNYLRP 57 (75)
Q Consensus 12 ~~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia----------rt~~qcr~Rw~~~L~~ 57 (75)
.++..||.|||.+|.+.|-.|+...=.+++ +++.+|..||+.++..
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~rt~aac~fRwNs~vrk 58 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALKRTAAACGFRWNSVVRK 58 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHhhhHHHHHhHHHHHHHH
Confidence 467899999999998888888542222333 5999999999887763
No 28
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=96.64 E-value=0.0046 Score=41.12 Aligned_cols=57 Identities=23% Similarity=0.331 Sum_probs=42.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCcccc------C--ChHHHHHHHHhhc-CCCC--------------------CCCCCCH
Q 048053 16 AWSKEEDDKLRAYILKYGHWNWAQLP------K--SGKSCRLRWMNYL-RPDI--------------------KHGNYTK 66 (75)
Q Consensus 16 ~Wt~eED~~L~~~v~~~g~~~W~~Ia------r--t~~qcr~Rw~~~L-~~~~--------------------~~~~wt~ 66 (75)
+|++++|-.|+.+|..-. +-..|+ + |-..+.+||...| +|.+ .+.+||.
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 599999999999997653 333343 3 8888999998866 3332 3568999
Q ss_pred HHHHHHhc
Q 048053 67 EEETKRKR 74 (75)
Q Consensus 67 eEd~~L~~ 74 (75)
+|++.|..
T Consensus 79 ~EE~lL~~ 86 (199)
T PF13325_consen 79 EEEQLLGT 86 (199)
T ss_pred HHHHHHHh
Confidence 99999864
No 29
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.42 E-value=0.0023 Score=35.76 Aligned_cols=42 Identities=26% Similarity=0.451 Sum_probs=33.4
Q ss_pred cCCCCHHHHHHHHHHHHHh-----CC-----------CCCcccc----------CChHHHHHHHHhhc
Q 048053 14 KGAWSKEEDDKLRAYILKY-----GH-----------WNWAQLP----------KSGKSCRLRWMNYL 55 (75)
Q Consensus 14 k~~Wt~eED~~L~~~v~~~-----g~-----------~~W~~Ia----------rt~~qcr~Rw~~~L 55 (75)
+..||++|...|+++|..| |. .-|..|+ +|..|++..|.++.
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 5689999999999999987 20 1377777 38889999998864
No 30
>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=96.20 E-value=0.0075 Score=37.04 Aligned_cols=46 Identities=28% Similarity=0.460 Sum_probs=34.5
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCC---CCCcccc-----------------CChHHHHHHHHhhc
Q 048053 10 RGMKKGAWSKEEDDKLRAYILKYGH---WNWAQLP-----------------KSGKSCRLRWMNYL 55 (75)
Q Consensus 10 ~~~~k~~Wt~eED~~L~~~v~~~g~---~~W~~Ia-----------------rt~~qcr~Rw~~~L 55 (75)
|+-++..||.+||..|+-++.+||. +.|..|- ||+..+..|=...|
T Consensus 45 ~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi 110 (118)
T PF09111_consen 45 PNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLI 110 (118)
T ss_dssp STSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHH
T ss_pred CCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHH
Confidence 3667889999999999999999998 8898887 27777766655443
No 31
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.98 E-value=0.0057 Score=43.66 Aligned_cols=45 Identities=13% Similarity=0.381 Sum_probs=40.0
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCCccccC-----ChHHHHHHHHhhcC
Q 048053 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQLPK-----SGKSCRLRWMNYLR 56 (75)
Q Consensus 12 ~~k~~Wt~eED~~L~~~v~~~g~~~W~~Iar-----t~~qcr~Rw~~~L~ 56 (75)
+--..|+.+|+-+|++.....|-+||..||. +...|+++|..++.
T Consensus 61 I~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 61 IGEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred ccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 3455799999999999999999999999994 88899999998765
No 32
>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=94.24 E-value=0.056 Score=31.18 Aligned_cols=24 Identities=33% Similarity=0.577 Sum_probs=13.3
Q ss_pred CCCccCCCCHHHHHHH--------HHHHHHhC
Q 048053 10 RGMKKGAWSKEEDDKL--------RAYILKYG 33 (75)
Q Consensus 10 ~~~~k~~Wt~eED~~L--------~~~v~~~g 33 (75)
|.-..|-||+++|+.| ..++++||
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG 74 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHG 74 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH-
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC
Confidence 4456899999999998 33556666
No 33
>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=93.72 E-value=0.14 Score=29.23 Aligned_cols=39 Identities=18% Similarity=0.530 Sum_probs=28.3
Q ss_pred CCCHHHHHHHHHHHHHh---C----CCC-----CccccC----------ChHHHHHHHHhh
Q 048053 16 AWSKEEDDKLRAYILKY---G----HWN-----WAQLPK----------SGKSCRLRWMNY 54 (75)
Q Consensus 16 ~Wt~eED~~L~~~v~~~---g----~~~-----W~~Iar----------t~~qcr~Rw~~~ 54 (75)
.||+++++.|++++... | .+. |..|+. +..||++||...
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~l 61 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTL 61 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHH
Confidence 59999999999988654 1 223 555552 888999998754
No 34
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=91.74 E-value=0.19 Score=35.34 Aligned_cols=42 Identities=24% Similarity=0.354 Sum_probs=33.5
Q ss_pred CCCCHHHHHHHHHHHHHh----C-----CCCCccccC---------ChHHHHHHHHhhcC
Q 048053 15 GAWSKEEDDKLRAYILKY----G-----HWNWAQLPK---------SGKSCRLRWMNYLR 56 (75)
Q Consensus 15 ~~Wt~eED~~L~~~v~~~----g-----~~~W~~Iar---------t~~qcr~Rw~~~L~ 56 (75)
..|+.+|-..|+.+.... + ..-|..||+ |+.||+.+|.+...
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k 114 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKK 114 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence 689999999999987633 1 135999994 99999999988653
No 35
>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=89.77 E-value=0.59 Score=29.82 Aligned_cols=43 Identities=19% Similarity=0.195 Sum_probs=36.3
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCCccccC---------ChHHHHHHHHhhc
Q 048053 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQLPK---------SGKSCRLRWMNYL 55 (75)
Q Consensus 12 ~~k~~Wt~eED~~L~~~v~~~g~~~W~~Iar---------t~~qcr~Rw~~~L 55 (75)
-....=|..|-.-|..+|.+|| .++..+|+ |+.||+.+...+.
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhG-dDy~aMarD~KLN~~Q~T~~qlrrki~~~k 163 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHG-DDYKAMARDRKLNYMQHTPGQLRRKIRKYK 163 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHC-ccHHHHhccCCCCcccCCHHHHHHHHHHhc
Confidence 3556778999999999999999 59999995 9999998887664
No 36
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=89.18 E-value=0.67 Score=37.52 Aligned_cols=45 Identities=22% Similarity=0.318 Sum_probs=36.6
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCCcccc-----------------CChHHHHHHHHhhcC
Q 048053 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQLP-----------------KSGKSCRLRWMNYLR 56 (75)
Q Consensus 12 ~~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia-----------------rt~~qcr~Rw~~~L~ 56 (75)
-++..+|.+||..|+-.+.+||.++|..|- ||+..+..|=...|.
T Consensus 924 ~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~ 985 (1033)
T PLN03142 924 NKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIR 985 (1033)
T ss_pred CCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHH
Confidence 355579999999999999999999999884 388887777766554
No 37
>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=89.13 E-value=0.4 Score=24.08 Aligned_cols=34 Identities=26% Similarity=0.347 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHhCCCCCccccC----ChHHHHHHHHh
Q 048053 20 EEDDKLRAYILKYGHWNWAQLPK----SGKSCRLRWMN 53 (75)
Q Consensus 20 eED~~L~~~v~~~g~~~W~~Iar----t~~qcr~Rw~~ 53 (75)
+=|.+|+.+++..|...+..||+ |+..|..|...
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lglS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELGLSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHTS-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHCcCHHHHHHHHHH
Confidence 45889999999999889999996 99999999865
No 38
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=86.27 E-value=0.87 Score=28.42 Aligned_cols=42 Identities=17% Similarity=0.183 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHhCCCCCccccC----ChHHHHHHHHhhcCCCCC
Q 048053 19 KEEDDKLRAYILKYGHWNWAQLPK----SGKSCRLRWMNYLRPDIK 60 (75)
Q Consensus 19 ~eED~~L~~~v~~~g~~~W~~Iar----t~~qcr~Rw~~~L~~~~~ 60 (75)
.+-|.+|+.+.+..|...|..||+ |+..|+.|+......++-
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lglS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFGVSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCe
Confidence 467999999999999899999997 999999999998776643
No 39
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=86.26 E-value=0.33 Score=39.95 Aligned_cols=29 Identities=28% Similarity=0.469 Sum_probs=26.4
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCcccc
Q 048053 13 KKGAWSKEEDDKLRAYILKYGHWNWAQLP 41 (75)
Q Consensus 13 ~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia 41 (75)
.-.-|..++|..|+-.|-+||.++|..|-
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir 1160 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIR 1160 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhc
Confidence 34579999999999999999999999887
No 40
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=85.50 E-value=0.66 Score=29.35 Aligned_cols=43 Identities=21% Similarity=0.170 Sum_probs=37.3
Q ss_pred CHHHHHHHHHHHHHhCCCCCccccC----ChHHHHHHHHhhcCCCCC
Q 048053 18 SKEEDDKLRAYILKYGHWNWAQLPK----SGKSCRLRWMNYLRPDIK 60 (75)
Q Consensus 18 t~eED~~L~~~v~~~g~~~W~~Iar----t~~qcr~Rw~~~L~~~~~ 60 (75)
-.+-|.+|+.+.+..|.-.|..||+ |+..|+.|+....+..+-
T Consensus 12 lD~~D~~IL~~Lq~d~R~s~~eiA~~lglS~~tv~~Ri~rL~~~GvI 58 (164)
T PRK11169 12 LDRIDRNILNELQKDGRISNVELSKRVGLSPTPCLERVRRLERQGFI 58 (164)
T ss_pred HHHHHHHHHHHhccCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCe
Confidence 3567899999999999889999997 999999999998877653
No 41
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=81.38 E-value=1.8 Score=31.89 Aligned_cols=40 Identities=18% Similarity=0.421 Sum_probs=35.1
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCcccc-----CChHHHHHHHHh
Q 048053 13 KKGAWSKEEDDKLRAYILKYGHWNWAQLP-----KSGKSCRLRWMN 53 (75)
Q Consensus 13 ~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia-----rt~~qcr~Rw~~ 53 (75)
.--+||.+|-++...++..+|. +...|| |+.+|++-.|.+
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP~R~RkqIKaKfi~ 408 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGT-DFSLISSLFPNRERKQIKAKFIK 408 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcc-hHHHHHHhcCchhHHHHHHHHHH
Confidence 3457999999999999999995 999999 488999988866
No 42
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=77.57 E-value=3.9 Score=30.15 Aligned_cols=44 Identities=18% Similarity=0.374 Sum_probs=35.9
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCCcccc-----------CChHHHHHHHHhhc
Q 048053 11 GMKKGAWSKEEDDKLRAYILKYGHWNWAQLP-----------KSGKSCRLRWMNYL 55 (75)
Q Consensus 11 ~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia-----------rt~~qcr~Rw~~~L 55 (75)
.+.-..||.+|-+.|..+.+.|. -.|-.|| ||-...++||..+.
T Consensus 127 ~l~dn~WskeETD~LF~lck~fD-LRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 127 HLNDNSWSKEETDYLFDLCKRFD-LRFFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred hhccccccHHHHHHHHHHHHhcC-eeEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 34557899999999999999998 5899998 26667888887643
No 43
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=70.63 E-value=5 Score=31.29 Aligned_cols=42 Identities=19% Similarity=0.434 Sum_probs=35.6
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCcccc---------------CChHHHHHHHHhhcC
Q 048053 14 KGAWSKEEDDKLRAYILKYGHWNWAQLP---------------KSGKSCRLRWMNYLR 56 (75)
Q Consensus 14 k~~Wt~eED~~L~~~v~~~g~~~W~~Ia---------------rt~~qcr~Rw~~~L~ 56 (75)
|..||..|.+-...+++++| .+..+|- +|-.|.|..|...+.
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 67899999999999999999 6998882 278889988877554
No 44
>PF00674 DUP: DUP family; InterPro: IPR001142 A number of uncharacterised integral membrane proteins from yeast contain an internal duplication due to duplicated genes. Duplicated copies of genes may be classified in two types of cluster organisation. The first type includes genes sharing a significant level of identity in the amino acid sequences of their predicted protein product. They are recovered on two different chromosomes, transcribed in the same orientation and the distance between them is conserved. The second type of cluster is based on one gene unit tandemly repeated. This duplication is itself repeated elsewhere in the genome. The basic gene unit is recovered many times in the genome and is a component of a multigene family of unknown function. These organisations in clusters of genes suggest a 'Lego organisation' of the yeast chromosomes []. The proteins belonging to this family are of unknown function.
Probab=70.59 E-value=5 Score=23.76 Aligned_cols=37 Identities=16% Similarity=0.263 Sum_probs=26.1
Q ss_pred HHHHHHHHHhCC----CCCccccC-------------------ChHHHHHHHHhhcCCCC
Q 048053 23 DKLRAYILKYGH----WNWAQLPK-------------------SGKSCRLRWMNYLRPDI 59 (75)
Q Consensus 23 ~~L~~~v~~~g~----~~W~~Iar-------------------t~~qcr~Rw~~~L~~~~ 59 (75)
.+|+.-|-...+ ..|..||+ .|.+|..-|++++.+..
T Consensus 44 ~kfl~eIi~~~P~~d~~~Wd~IA~~mN~yly~~~~w~t~~~FyDG~~C~~~Fr~~v~~p~ 103 (108)
T PF00674_consen 44 MKFLKEIIEVKPGVDMKKWDIIASRMNQYLYEEGLWNTPYFFYDGKDCYRFFRRLVLKPY 103 (108)
T ss_pred HHHHHHHHhcCCCCCcccHHHHHHHHHHHHHhCCCCCCcCcccCcHHHHHHHHHHhcccc
Confidence 445555555544 38999993 88999999998766543
No 45
>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=68.81 E-value=1.8 Score=24.54 Aligned_cols=33 Identities=24% Similarity=0.513 Sum_probs=23.5
Q ss_pred HHHHHHHHhCC-------CCCccccC----------ChHHHHHHHHhhcC
Q 048053 24 KLRAYILKYGH-------WNWAQLPK----------SGKSCRLRWMNYLR 56 (75)
Q Consensus 24 ~L~~~v~~~g~-------~~W~~Iar----------t~~qcr~Rw~~~L~ 56 (75)
.|..+|...|. +.|..||+ ++.+.+.-|..+|.
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 46677777652 36999994 24678888888875
No 46
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=67.08 E-value=19 Score=21.07 Aligned_cols=61 Identities=16% Similarity=0.350 Sum_probs=38.4
Q ss_pred cCCCCHHHHHHHHHHHHHh----CCC---CCcccc--------C--ChHH-------HHHHHHhhcCCCCCCC---CCCH
Q 048053 14 KGAWSKEEDDKLRAYILKY----GHW---NWAQLP--------K--SGKS-------CRLRWMNYLRPDIKHG---NYTK 66 (75)
Q Consensus 14 k~~Wt~eED~~L~~~v~~~----g~~---~W~~Ia--------r--t~~q-------cr~Rw~~~L~~~~~~~---~wt~ 66 (75)
...||++++-.|++++-.| |.. ++..+- . |..| .+.||.+.... .+.| +++.
T Consensus 4 qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~~k-~~~g~~~~~~~ 82 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAVKK-SKNGKDPSFSK 82 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhhh-cccCcCCCCCC
Confidence 3469999999999988776 532 332222 0 4445 45577776665 2222 6788
Q ss_pred HHHHHHhcC
Q 048053 67 EEETKRKRL 75 (75)
Q Consensus 67 eEd~~L~~l 75 (75)
.-|..+++|
T Consensus 83 ~hd~~~f~L 91 (98)
T PF04504_consen 83 PHDRRLFEL 91 (98)
T ss_pred HhHHHHHHH
Confidence 888877754
No 47
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=66.58 E-value=8.8 Score=22.03 Aligned_cols=40 Identities=23% Similarity=0.170 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHhCCCCCccccC----ChHHHHHHHHhhcCCCC
Q 048053 20 EEDDKLRAYILKYGHWNWAQLPK----SGKSCRLRWMNYLRPDI 59 (75)
Q Consensus 20 eED~~L~~~v~~~g~~~W~~Iar----t~~qcr~Rw~~~L~~~~ 59 (75)
+.|.+++.++...|.-.++.||+ +...|+.|.....+..+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l~~s~~tv~~~l~~L~~~g~ 46 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKVGLSPSTVHNRVKRLEEEGV 46 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCC
Confidence 56889999999998778999996 89999999988776654
No 48
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=63.35 E-value=8 Score=30.81 Aligned_cols=40 Identities=13% Similarity=0.332 Sum_probs=34.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCccccC-----ChHHHHHHHHhh
Q 048053 14 KGAWSKEEDDKLRAYILKYGHWNWAQLPK-----SGKSCRLRWMNY 54 (75)
Q Consensus 14 k~~Wt~eED~~L~~~v~~~g~~~W~~Iar-----t~~qcr~Rw~~~ 54 (75)
...||+.|-.++.+++..|. .++..|++ |-.||-+-|...
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~-KDF~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYS-KDFIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred cccccHHHHHHHHHHHHHhc-ccHHHHHHHhccccHHHHHHHHHHH
Confidence 45799999999999999998 69998884 899998877553
No 49
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=60.56 E-value=6.3 Score=21.83 Aligned_cols=18 Identities=22% Similarity=0.503 Sum_probs=14.7
Q ss_pred HHHHHHHHhCCCCCccccC
Q 048053 24 KLRAYILKYGHWNWAQLPK 42 (75)
Q Consensus 24 ~L~~~v~~~g~~~W~~Iar 42 (75)
.|..+++.|| ++|..|-.
T Consensus 31 vl~~LL~lY~-~nW~lIEe 48 (65)
T PF10440_consen 31 VLKNLLKLYD-GNWELIEE 48 (65)
T ss_pred HHHHHHHHHc-CCchhhhc
Confidence 4778889999 57999974
No 50
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=59.78 E-value=4.7 Score=23.04 Aligned_cols=34 Identities=24% Similarity=0.532 Sum_probs=24.2
Q ss_pred HHHHHHHHhCC-------CCCccccC----------ChHHHHHHHHhhcCC
Q 048053 24 KLRAYILKYGH-------WNWAQLPK----------SGKSCRLRWMNYLRP 57 (75)
Q Consensus 24 ~L~~~v~~~g~-------~~W~~Iar----------t~~qcr~Rw~~~L~~ 57 (75)
+|..+|...|. ..|..||+ .+.+.+..|.++|.|
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 46777777653 46999995 245678888888764
No 51
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=54.72 E-value=13 Score=22.54 Aligned_cols=42 Identities=12% Similarity=0.091 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHhCCCCCccccC----ChHHHHHHHHhhcCCCCC
Q 048053 19 KEEDDKLRAYILKYGHWNWAQLPK----SGKSCRLRWMNYLRPDIK 60 (75)
Q Consensus 19 ~eED~~L~~~v~~~g~~~W~~Iar----t~~qcr~Rw~~~L~~~~~ 60 (75)
.+-|.+++.+.+..+...+..||+ |+..|+.|=.+..+..+-
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~lglS~~~v~~Ri~~L~~~GiI 52 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERVGLSPSTVLRRIKRLEEEGVI 52 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCce
Confidence 356889999999999888888886 999999999888776643
No 52
>smart00595 MADF subfamily of SANT domain.
Probab=54.69 E-value=4.7 Score=22.45 Aligned_cols=19 Identities=32% Similarity=0.940 Sum_probs=13.5
Q ss_pred CCccccC----ChHHHHHHHHhh
Q 048053 36 NWAQLPK----SGKSCRLRWMNY 54 (75)
Q Consensus 36 ~W~~Iar----t~~qcr~Rw~~~ 54 (75)
-|..||. +..+|+.+|.+.
T Consensus 29 aW~~Ia~~l~~~~~~~~~kw~~L 51 (89)
T smart00595 29 AWEEIAEELGLSVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHHCcCHHHHHHHHHHH
Confidence 3666663 888888888765
No 53
>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.
Probab=53.27 E-value=15 Score=22.17 Aligned_cols=17 Identities=24% Similarity=0.272 Sum_probs=12.6
Q ss_pred CCCHHHHHHHHHHHHHh
Q 048053 16 AWSKEEDDKLRAYILKY 32 (75)
Q Consensus 16 ~Wt~eED~~L~~~v~~~ 32 (75)
+||++||-.|-..|..|
T Consensus 1 kfTA~dDY~Lc~~i~~~ 17 (105)
T PF09197_consen 1 KFTADDDYALCKAIKKQ 17 (105)
T ss_dssp ---HHHHHHHHHHHHHH
T ss_pred CCChHHHHHHHHHHHHH
Confidence 48999999999999766
No 54
>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=51.86 E-value=12 Score=18.77 Aligned_cols=35 Identities=14% Similarity=0.184 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHhCCCCCccccC----ChHHHHHHHHhh
Q 048053 19 KEEDDKLRAYILKYGHWNWAQLPK----SGKSCRLRWMNY 54 (75)
Q Consensus 19 ~eED~~L~~~v~~~g~~~W~~Iar----t~~qcr~Rw~~~ 54 (75)
++++..++.+....| -.+..||. |...++.+....
T Consensus 12 ~~~~r~i~~l~~~~g-~s~~eIa~~l~~s~~~v~~~l~ra 50 (54)
T PF08281_consen 12 PERQREIFLLRYFQG-MSYAEIAEILGISESTVKRRLRRA 50 (54)
T ss_dssp -HHHHHHHHHHHTS----HHHHHHHCTS-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHC-cCHHHHHHHHCcCHHHHHHHHHHH
Confidence 566777888887888 59999995 888888776653
No 55
>PF10892 DUF2688: Protein of unknown function (DUF2688); InterPro: IPR024392 Members of this protein family are annotated as KleB, and may play a role in the regulation of transcription in plasmids.
Probab=46.93 E-value=20 Score=19.45 Aligned_cols=15 Identities=20% Similarity=0.231 Sum_probs=11.8
Q ss_pred CCCCHHHHHHHHHHH
Q 048053 15 GAWSKEEDDKLRAYI 29 (75)
Q Consensus 15 ~~Wt~eED~~L~~~v 29 (75)
+=-|||||..+.++.
T Consensus 43 ~CitpEE~~~I~e~~ 57 (60)
T PF10892_consen 43 DCITPEEDREILEAT 57 (60)
T ss_pred ccCCHHHHHHHHHHH
Confidence 446899999988764
No 56
>PF09846 DUF2073: Uncharacterized protein conserved in archaea (DUF2073); InterPro: IPR012017 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=46.88 E-value=19 Score=21.68 Aligned_cols=17 Identities=24% Similarity=0.360 Sum_probs=14.1
Q ss_pred cCCCCHHHHHHHHHHHH
Q 048053 14 KGAWSKEEDDKLRAYIL 30 (75)
Q Consensus 14 k~~Wt~eED~~L~~~v~ 30 (75)
-+-|||+|..+|++...
T Consensus 26 E~GLtPeEe~~LIE~TM 42 (104)
T PF09846_consen 26 EEGLTPEEESKLIEMTM 42 (104)
T ss_pred cCCCChHHHHHHHHHHH
Confidence 35699999999999764
No 57
>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=42.18 E-value=8.9 Score=20.67 Aligned_cols=12 Identities=42% Similarity=0.924 Sum_probs=8.6
Q ss_pred ChHHHHHHHHhh
Q 048053 43 SGKSCRLRWMNY 54 (75)
Q Consensus 43 t~~qcr~Rw~~~ 54 (75)
+..+|+.||.+.
T Consensus 41 ~~~~~~~~w~~L 52 (85)
T PF10545_consen 41 SVDDCKKRWKNL 52 (85)
T ss_pred hHHHHHHHHHHH
Confidence 566788888764
No 58
>TIGR01210 conserved hypothetical protein TIGR01210. This family of exclusively archaeal proteins has no characterized close homologs. Several rounds of PSI-BLAST with a stringent cutoff of 1e-8 shows apparent similarity of the central region of this family to the central regions of the oxygen-independent coproporphyrinogen III dehydrogenase HemN and to other enzymes.
Probab=38.78 E-value=40 Score=23.55 Aligned_cols=49 Identities=20% Similarity=0.412 Sum_probs=38.2
Q ss_pred CCCccCCCCH-HHHHHHHHHHHHhC-CCCCccccCChHHHHHHHHhhcCCC
Q 048053 10 RGMKKGAWSK-EEDDKLRAYILKYG-HWNWAQLPKSGKSCRLRWMNYLRPD 58 (75)
Q Consensus 10 ~~~~k~~Wt~-eED~~L~~~v~~~g-~~~W~~Iart~~qcr~Rw~~~L~~~ 58 (75)
.+..+||.+= +=|..+.+++..|. .++...+..-.-.|++.|..+|...
T Consensus 256 ~~~~rg~~nc~~c~~~~~~~~~~~~~~q~~~~~~~~~c~c~~~w~~~~~~~ 306 (313)
T TIGR01210 256 AGSDRGAHNCGKCDKRVKEAIRKFSLTQDISVLEEVECECIEEWKAYVEVE 306 (313)
T ss_pred CCCcCCCcCcchhhHHHHHHHHHhcccCCHHHHhccCCchHHHHHHHHhcc
Confidence 3456888883 56888999999987 4677777766778999999998753
No 59
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=36.39 E-value=53 Score=24.21 Aligned_cols=25 Identities=28% Similarity=0.424 Sum_probs=19.9
Q ss_pred CCCCcc-CCCCHHHHHHHHHHHHHhC
Q 048053 9 GRGMKK-GAWSKEEDDKLRAYILKYG 33 (75)
Q Consensus 9 ~~~~~k-~~Wt~eED~~L~~~v~~~g 33 (75)
+|+-.- .-||.||=.+|.++..+||
T Consensus 166 nPHNP~Grvwt~eeL~~i~elc~kh~ 191 (388)
T COG1168 166 NPHNPTGRVWTKEELRKIAELCLRHG 191 (388)
T ss_pred CCCCCCCccccHHHHHHHHHHHHHcC
Confidence 454443 4599999999999999995
No 60
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=32.16 E-value=28 Score=19.85 Aligned_cols=20 Identities=25% Similarity=0.448 Sum_probs=17.0
Q ss_pred HHHHHHHHHHhCCCCCccccC
Q 048053 22 DDKLRAYILKYGHWNWAQLPK 42 (75)
Q Consensus 22 D~~L~~~v~~~g~~~W~~Iar 42 (75)
|+.|..+....| .+|..+|+
T Consensus 2 ~~~L~~la~~LG-~~W~~Lar 21 (83)
T cd08319 2 DRELNQLAQRLG-PEWEQVLL 21 (83)
T ss_pred HHHHHHHHHHHh-hhHHHHHH
Confidence 567888899999 59999995
No 61
>PF08074 CHDCT2: CHDCT2 (NUC038) domain; InterPro: IPR012957 The CHDCT2 C-terminal domain is found in PHD/RING fingers and chromo domain-associated CHD-like helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=32.09 E-value=20 Score=23.45 Aligned_cols=26 Identities=31% Similarity=0.518 Sum_probs=23.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCcccc
Q 048053 16 AWSKEEDDKLRAYILKYGHWNWAQLP 41 (75)
Q Consensus 16 ~Wt~eED~~L~~~v~~~g~~~W~~Ia 41 (75)
-|-..-|--|+.+|-.||.+.|..|.
T Consensus 5 iw~r~hdywll~gi~~hgy~rwqdi~ 30 (173)
T PF08074_consen 5 IWHRRHDYWLLAGIVKHGYGRWQDIQ 30 (173)
T ss_pred hhhhhhhHHHHhHHhhccchhHHHHh
Confidence 47778899999999999999999988
No 62
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=31.73 E-value=35 Score=25.89 Aligned_cols=29 Identities=10% Similarity=0.268 Sum_probs=25.0
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCccccC
Q 048053 13 KKGAWSKEEDDKLRAYILKYGHWNWAQLPK 42 (75)
Q Consensus 13 ~k~~Wt~eED~~L~~~v~~~g~~~W~~Iar 42 (75)
-...||.||--++-.++..|| .+..+|-.
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~G-K~F~kIrq 214 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFG-KDFHKIRQ 214 (534)
T ss_pred CcccchHHHHHHHHHHHHHhc-ccHHHHHH
Confidence 456899999999999999999 59988873
No 63
>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=30.12 E-value=57 Score=15.73 Aligned_cols=21 Identities=19% Similarity=0.294 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHhCCCCCccccC
Q 048053 21 EDDKLRAYILKYGHWNWAQLPK 42 (75)
Q Consensus 21 ED~~L~~~v~~~g~~~W~~Iar 42 (75)
|-+.|..++..++ ++-...|+
T Consensus 6 E~~~i~~aL~~~~-gn~~~aA~ 26 (42)
T PF02954_consen 6 EKQLIRQALERCG-GNVSKAAR 26 (42)
T ss_dssp HHHHHHHHHHHTT-T-HHHHHH
T ss_pred HHHHHHHHHHHhC-CCHHHHHH
Confidence 6678888898988 67777775
No 64
>PF05546 She9_MDM33: She9 / Mdm33 family; InterPro: IPR008839 Members of this family are mitochondrial inner membrane proteins with a role in inner mitochondrial membrane organisation and biogenesis []. The yeast Mdm33 protein assembles into an oligomeric complex in the inner membrane where it performs homotypic protein-protein interactions. It has been suggested that Mdm33 plays a distinct role, possibly involved in fission of the mitochondrial inner membrane [].
Probab=28.91 E-value=61 Score=21.86 Aligned_cols=20 Identities=15% Similarity=0.375 Sum_probs=17.3
Q ss_pred ccCCCCHHHHHHHHHHHHHh
Q 048053 13 KKGAWSKEEDDKLRAYILKY 32 (75)
Q Consensus 13 ~k~~Wt~eED~~L~~~v~~~ 32 (75)
+|..|||.+.+++..++..-
T Consensus 82 RK~sWs~~DleRFT~Lyr~d 101 (207)
T PF05546_consen 82 RKHSWSPADLERFTELYRND 101 (207)
T ss_pred cccCCChHHHHHHHHHHHhh
Confidence 68899999999999998754
No 65
>PF09356 Phage_BR0599: Phage conserved hypothetical protein BR0599; InterPro: IPR018964 This entry describes the C-terminal region of a family of proteins found almost exclusively in phage or in prophage regions of bacterial genomes, including the phage-like Rhodobacter capsulatus (Rhodopseudomonas capsulata) gene transfer agent, which packages DNA. An apparent exception is Wolbachia pipientis wMel, a bacterial endosymbiont of the fruit fly, which has several candidate phage-related genes physically separate from obvious prophage regions.
Probab=27.50 E-value=33 Score=19.36 Aligned_cols=14 Identities=29% Similarity=0.534 Sum_probs=12.7
Q ss_pred ChHHHHHHHHhhcC
Q 048053 43 SGKSCRLRWMNYLR 56 (75)
Q Consensus 43 t~~qcr~Rw~~~L~ 56 (75)
+...|+.||.|.++
T Consensus 56 t~~tC~~kF~N~~N 69 (80)
T PF09356_consen 56 TFATCRAKFNNALN 69 (80)
T ss_pred CHHHHHHHhCCccc
Confidence 88899999999876
No 66
>PF09019 EcoRII-C: EcoRII C terminal; InterPro: IPR015109 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents the C-terminal catalytic domain of the type II restriction endonuclease EcoRII, which has a restriction endonuclease-like fold with a central five-stranded mixed beta-sheet surrounded on both sides by alpha-helices. EcoRII cleaves DNA specifically at single 5' CCWGG sites []. ; GO: 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system; PDB: 3HQG_A 1NA6_A 2GB7_C 2FQZ_A 3BM3_B.
Probab=27.32 E-value=11 Score=24.39 Aligned_cols=12 Identities=25% Similarity=0.553 Sum_probs=8.9
Q ss_pred HHHHHHHHhhcC
Q 048053 45 KSCRLRWMNYLR 56 (75)
Q Consensus 45 ~qcr~Rw~~~L~ 56 (75)
..||+||+..|.
T Consensus 96 TTlkdRWrQVl~ 107 (164)
T PF09019_consen 96 TTLKDRWRQVLN 107 (164)
T ss_dssp SS-TTGCGHHHH
T ss_pred ccHHHHHHHHHH
Confidence 469999998875
No 67
>PF11216 DUF3012: Protein of unknown function (DUF3012); InterPro: IPR021379 This family of proteins with unknown function is restricted to Gammaproteobacteria.
Probab=26.79 E-value=36 Score=16.23 Aligned_cols=12 Identities=33% Similarity=0.742 Sum_probs=9.4
Q ss_pred CccCCCCHHHHH
Q 048053 12 MKKGAWSKEEDD 23 (75)
Q Consensus 12 ~~k~~Wt~eED~ 23 (75)
..||-||.+|-.
T Consensus 13 kpK~dWtanea~ 24 (32)
T PF11216_consen 13 KPKGDWTANEAA 24 (32)
T ss_pred CCcccCcHhHHH
Confidence 468999998854
No 68
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=25.54 E-value=96 Score=23.05 Aligned_cols=37 Identities=19% Similarity=0.262 Sum_probs=30.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCCccccC------ChHHHHHHHH
Q 048053 15 GAWSKEEDDKLRAYILKYGHWNWAQLPK------SGKSCRLRWM 52 (75)
Q Consensus 15 ~~Wt~eED~~L~~~v~~~g~~~W~~Iar------t~~qcr~Rw~ 52 (75)
..||.+|-..+-+.++.|| .+...|-+ +-..|-.-|.
T Consensus 278 ~~wsEeEcr~FEegl~~yG-KDF~lIr~nkvrtRsvgElVeyYY 320 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYG-KDFHLIRANKVRTRSVGELVEYYY 320 (445)
T ss_pred ccCCHHHHHHHHHHHHHhc-ccHHHHHhcccccchHHHHHHHHH
Confidence 4799999999999999999 69999983 5556666553
No 69
>COG3795 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.29 E-value=35 Score=21.20 Aligned_cols=18 Identities=56% Similarity=0.754 Sum_probs=16.1
Q ss_pred CCCCHHHHHHHHHHHHHh
Q 048053 15 GAWSKEEDDKLRAYILKY 32 (75)
Q Consensus 15 ~~Wt~eED~~L~~~v~~~ 32 (75)
..||.++|+.|++..-.|
T Consensus 15 ~a~~~e~daalm~~~~~y 32 (123)
T COG3795 15 AAWSVEEDAALMAALGKY 32 (123)
T ss_pred hcCCcCccHHHHHHHHHH
Confidence 579999999999988877
No 70
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=25.28 E-value=1.4e+02 Score=23.27 Aligned_cols=44 Identities=9% Similarity=0.371 Sum_probs=37.2
Q ss_pred CCCCccCCCCHHHHHHHHHHHHHhCCCCCcccc-----CChHHHHHHHHh
Q 048053 9 GRGMKKGAWSKEEDDKLRAYILKYGHWNWAQLP-----KSGKSCRLRWMN 53 (75)
Q Consensus 9 ~~~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia-----rt~~qcr~Rw~~ 53 (75)
.+....++||..|-++...+....|. +.+.|+ |+..|++..|..
T Consensus 404 sk~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 404 SKKLETDKWDASETELFYKALSERGS-DFSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred cCccccCcccchhhHHhhhHHhhhcc-cccccccccccccHHHHHHHHhh
Confidence 45567889999999999999999994 999999 488888887754
No 71
>KOG0798 consensus Uncharacterized conserved protein [Cell cycle control, cell division, chromosome partitioning]
Probab=25.02 E-value=29 Score=25.41 Aligned_cols=42 Identities=17% Similarity=0.233 Sum_probs=34.9
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCccccCChHHHHHHHHhhc
Q 048053 14 KGAWSKEEDDKLRAYILKYGHWNWAQLPKSGKSCRLRWMNYL 55 (75)
Q Consensus 14 k~~Wt~eED~~L~~~v~~~g~~~W~~Iart~~qcr~Rw~~~L 55 (75)
+..||-|+=+=+++-+...|...|.-|.....+||.++...+
T Consensus 338 r~~W~~edl~Pyi~~l~~~~~~~~~~v~~~~~~~r~~~~k~~ 379 (380)
T KOG0798|consen 338 RSRWTMEDLEPYIEDLSRNGYMIDFGVSKYIRPCRNQELKVL 379 (380)
T ss_pred HhhhhHHHhhHHHHHHhhcchhhhhHHHHHhHHHHhccceec
Confidence 568999888888888888887788888888889999887654
No 72
>PF00605 IRF: Interferon regulatory factor transcription factor; InterPro: IPR001346 Viral infections induce the expression of type I interferons (IFN-alpha and IFN-beta) genes. The induction is due to the transcriptional activation of the IFN genes. Interferon regulatory factor I (IRF-1) is one of the transcription factors responsible for that activation. IRF-1 binds to an upstream regulatory cis element, known as the interferon consensus sequence (ICS), which is found in the promoters of type I IFN and IFN-inducible MHC class I genes. Interferon regulatory factor 2 (IRF-2) is a protein that also interacts with the ICS, but that does not function as an activator; rather, it suppresses the function of IRF-1 under certain circumstances []. These proteins share a highly conserved N-terminal domain of about 100 amino acid residues which is involved in DNA-binding and which contain five conserved tryptophans. This domain is known as a 'tryptophan pentad repeat' or a 'tryptophan cluster' and is also present in: Interferon consensus sequence binding protein (ICSBP) [], a transcription factor expressed predominantly in lymphoid tissues and induced by IFN-gamma that also binds to the ICS. Transcriptional regulator ISGF3 gamma subunit []. ISGF3 is responsible for the initial stimulation of interferon-alpha-responsive genes. It recognises and binds to the interferon-stimulated response element (ISRE) within the regulatory sequences of target genes. Interferon regulatory factor 3 (IRF-3). Interferon regulatory factor 4 (IRF-4) which binds to the interferon- stimulated response element (ISRE) of the MHC class I promoter. Interferon regulatory factor 5 (IRF-5). Interferon regulatory factor 6 (IRF-6). Interferon regulatory factor 7 (IRF-7). Gamma Herpesviruses vIRF-1, -2 and -3, proteins with homology to the cellular transcription factors of the IRF family []. Neither vIRF-1 nor vIRF-2 bind to DNA with the same specificity as cellular IRFs, indicating that if vIRFs are DNA-binding proteins, their binding has a pattern distinct from that of the cellular IRFs. Whether vIRF-3 can bind DNA with the same specificity as cellular IRFs is not known. The IRF tryptophan pentad repeat DNA-binding domain has an alpha/beta architecture comprising a cluster of three alpha-helices (alpha1-alpha3) flanked on one side by a mixed four-stranded beta-sheet (beta1-beta4). It forms a helix-turn-helix motif that binds to ISRE consensus sequences found in target promoters. Three of the tryptophan residues contact DNA by recognising a GAAA sequence []. This entry represents the IRF tryptophan pentad repeat DNA-binding domain.; GO: 0000975 regulatory region DNA binding; PDB: 2IRF_H 1IRF_A 1IRG_A 2DLL_A 3QU3_C 2PI0_D 2O6G_G 1T2K_A 2O61_A 3QU6_C ....
Probab=23.33 E-value=1.1e+02 Score=18.40 Aligned_cols=45 Identities=16% Similarity=0.155 Sum_probs=35.1
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCCccc-cC-ChHHHHHHHHhhcCC
Q 048053 12 MKKGAWSKEEDDKLRAYILKYGHWNWAQL-PK-SGKSCRLRWMNYLRP 57 (75)
Q Consensus 12 ~~k~~Wt~eED~~L~~~v~~~g~~~W~~I-ar-t~~qcr~Rw~~~L~~ 57 (75)
..+..|+.++|..|..+-..+. +.+..= .+ .+..++.+++..|+.
T Consensus 37 ~~r~~~~~~~D~~iFkaWA~~~-Gk~~~g~~~~dp~~wKtnfRcALnk 83 (109)
T PF00605_consen 37 AGRQDWDQEEDAKIFKAWAVHR-GKYRPGIDKPDPSTWKTNFRCALNK 83 (109)
T ss_dssp TTSTTSSHCGGGHHHHHHHHHT-TSS-CTTCSSHHHHHHHHHHHHHHH
T ss_pred CCCCCccccchHHHHHHHHHHh-cccCCCCCCCCHHHHHHHHHHHHhC
Confidence 3567799999999999999997 577655 22 788899999988863
No 73
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=23.00 E-value=87 Score=15.32 Aligned_cols=35 Identities=11% Similarity=0.083 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHhCCCCCccccC----ChHHHHHHHHhhc
Q 048053 20 EEDDKLRAYILKYGHWNWAQLPK----SGKSCRLRWMNYL 55 (75)
Q Consensus 20 eED~~L~~~v~~~g~~~W~~Iar----t~~qcr~Rw~~~L 55 (75)
+++..++.+.-..| ..+..||. |...++.+....|
T Consensus 7 ~~er~vi~~~y~~~-~t~~eIa~~lg~s~~~V~~~~~~al 45 (50)
T PF04545_consen 7 PREREVIRLRYFEG-LTLEEIAERLGISRSTVRRILKRAL 45 (50)
T ss_dssp HHHHHHHHHHHTST--SHHHHHHHHTSCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCC-CCHHHHHHHHCCcHHHHHHHHHHHH
Confidence 44555666555444 58888985 6666666655443
No 74
>cd08803 Death_ank3 Death domain of Ankyrin-3. Death Domain (DD) of the human protein ankyrin-3 (ANK-3) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-3, also called anykyrin-G (for general or giant), is found in neurons and at least one splice variant has been shown to be essential for propagation of action potentials as a binding partner to neurofascin and voltage-gated sodium channels. It is required for maintaining axo-dendritic polarity, and may be a genetic risk factor associated with bipolar disorder. ANK-3 may also play roles in other cell types. Mutations affecting ANK-3 pathways for Na channel localization are associated with Brugada syndrome, a potentially fata arrythmia. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by se
Probab=22.99 E-value=62 Score=18.42 Aligned_cols=20 Identities=20% Similarity=0.501 Sum_probs=16.4
Q ss_pred HHHHHHHHHHhCCCCCccccC
Q 048053 22 DDKLRAYILKYGHWNWAQLPK 42 (75)
Q Consensus 22 D~~L~~~v~~~g~~~W~~Iar 42 (75)
|.+|..+....| .+|..+|+
T Consensus 4 d~~l~~ia~~LG-~dW~~LA~ 23 (84)
T cd08803 4 DIRMAIVADHLG-LSWTELAR 23 (84)
T ss_pred HHHHHHHHHHhh-ccHHHHHH
Confidence 567777888889 59999996
No 75
>PF08870 DUF1832: Domain of unknown function (DUF1832); InterPro: IPR014969 This entry describes the DndE protein encoded by an operon associated with a sulphur-containing modification to DNA []. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndE is a putative carboxylase homologous to NCAIR synthetases.
Probab=22.77 E-value=68 Score=19.31 Aligned_cols=25 Identities=24% Similarity=0.397 Sum_probs=21.5
Q ss_pred CHHHHHHHHHHHHHhCCCCCccccC
Q 048053 18 SKEEDDKLRAYILKYGHWNWAQLPK 42 (75)
Q Consensus 18 t~eED~~L~~~v~~~g~~~W~~Iar 42 (75)
|.+-+++|..+-...|...|..+||
T Consensus 5 S~~~~~~L~~Lk~~tgi~~~Nil~R 29 (113)
T PF08870_consen 5 SKKAKEQLKKLKRRTGITPWNILCR 29 (113)
T ss_pred CHHHHHHHHHHHHhcCCCcccHHHH
Confidence 6677889999999999889998886
No 76
>PRK03906 mannonate dehydratase; Provisional
Probab=22.37 E-value=85 Score=22.91 Aligned_cols=28 Identities=25% Similarity=0.369 Sum_probs=25.0
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCccccC
Q 048053 14 KGAWSKEEDDKLRAYILKYGHWNWAQLPK 42 (75)
Q Consensus 14 k~~Wt~eED~~L~~~v~~~g~~~W~~Iar 42 (75)
...||.+|=..+++.|+.+| -.|..|..
T Consensus 37 g~~W~~~~i~~~~~~ie~~G-l~~~vvEs 64 (385)
T PRK03906 37 GEVWPVEEILARKAEIEAAG-LEWSVVES 64 (385)
T ss_pred CCCCCHHHHHHHHHHHHHcC-CeEEEEeC
Confidence 46899999999999999999 59999863
No 77
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=22.00 E-value=1.2e+02 Score=19.08 Aligned_cols=33 Identities=18% Similarity=0.249 Sum_probs=25.8
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCCccccC-ChHH
Q 048053 13 KKGAWSKEEDDKLRAYILKYGHWNWAQLPK-SGKS 46 (75)
Q Consensus 13 ~k~~Wt~eED~~L~~~v~~~g~~~W~~Iar-t~~q 46 (75)
..|+++++|++.+++.++..++ +--.|+- +++|
T Consensus 81 ~~g~f~~~~~~~i~~~I~~~~p-div~vglG~PkQ 114 (172)
T PF03808_consen 81 HHGYFDEEEEEAIINRINASGP-DIVFVGLGAPKQ 114 (172)
T ss_pred cCCCCChhhHHHHHHHHHHcCC-CEEEEECCCCHH
Confidence 4677899999999999999986 6655663 5555
No 78
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=21.53 E-value=1.3e+02 Score=19.36 Aligned_cols=32 Identities=22% Similarity=0.126 Sum_probs=24.8
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCccccC-ChHH
Q 048053 14 KGAWSKEEDDKLRAYILKYGHWNWAQLPK-SGKS 46 (75)
Q Consensus 14 k~~Wt~eED~~L~~~v~~~g~~~W~~Iar-t~~q 46 (75)
.|.++++|++.+.+.++..++ +---|+- +|+|
T Consensus 81 ~g~f~~~~~~~i~~~I~~s~~-dil~VglG~PkQ 113 (177)
T TIGR00696 81 FGPLEPEERKAALAKIARSGA-GIVFVGLGCPKQ 113 (177)
T ss_pred CCCCChHHHHHHHHHHHHcCC-CEEEEEcCCcHh
Confidence 688999999999999999985 5555553 6665
No 79
>PF08417 PaO: Pheophorbide a oxygenase; InterPro: IPR013626 This domain is found in bacterial and plant proteins to the C terminus of a Rieske 2Fe-2S domain (IPR005806 from INTERPRO). One of the proteins the domain is found in is Pheophorbide a oxygenase (PaO) which seems to be a key regulator of chlorophyll catabolism. Arabidopsis PaO (AtPaO) is a Rieske-type 2Fe-2S enzyme that is identical to Arabidopsis accelerated cell death 1 and homologous to lethal leaf spot 1 (LLS1) of maize [], in which the domain described here is also found. ; GO: 0010277 chlorophyllide a oxygenase [overall] activity, 0055114 oxidation-reduction process
Probab=21.27 E-value=1.2e+02 Score=17.07 Aligned_cols=20 Identities=25% Similarity=0.255 Sum_probs=12.8
Q ss_pred HHHHHHHHHHH----HhCCCCCcc
Q 048053 20 EEDDKLRAYIL----KYGHWNWAQ 39 (75)
Q Consensus 20 eED~~L~~~v~----~~g~~~W~~ 39 (75)
+||..|+..-+ ..|.++|.+
T Consensus 69 d~Dl~lLh~Qe~~l~~~g~~~W~~ 92 (92)
T PF08417_consen 69 DQDLYLLHGQERRLAREGADNWQK 92 (92)
T ss_pred HHHHHHHHHHHHHHHHhccCcCCC
Confidence 67777766443 337778864
No 80
>KOG2941 consensus Beta-1,4-mannosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=21.19 E-value=45 Score=24.74 Aligned_cols=21 Identities=24% Similarity=0.458 Sum_probs=16.7
Q ss_pred ccCCCCHHHHH-HHHHHHHHhC
Q 048053 13 KKGAWSKEEDD-KLRAYILKYG 33 (75)
Q Consensus 13 ~k~~Wt~eED~-~L~~~v~~~g 33 (75)
....|||+||= +|+++...|+
T Consensus 260 sSTswTpDEdf~ILL~AL~~y~ 281 (444)
T KOG2941|consen 260 SSTSWTPDEDFGILLEALVIYE 281 (444)
T ss_pred ecCCCCCcccHHHHHHHHHhhh
Confidence 56789999996 6778888775
No 81
>KOG3200 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.81 E-value=69 Score=21.50 Aligned_cols=25 Identities=20% Similarity=0.258 Sum_probs=18.9
Q ss_pred CCHHHHHHHHHHHHHhCCCCCcccc
Q 048053 17 WSKEEDDKLRAYILKYGHWNWAQLP 41 (75)
Q Consensus 17 Wt~eED~~L~~~v~~~g~~~W~~Ia 41 (75)
=|.||+.+++..+..-...+|..++
T Consensus 21 It~EEe~~~lshIe~ap~pkW~~L~ 45 (224)
T KOG3200|consen 21 ITEEEENLYLSHIENAPQPKWRVLA 45 (224)
T ss_pred cChHHHHHHHHHHhcCCCchhHHHH
Confidence 4677888888877766556898887
No 82
>KOG2925 consensus Predicted translation initiation factor related to eIF-1A [Translation, ribosomal structure and biogenesis]
Probab=20.80 E-value=1e+02 Score=20.05 Aligned_cols=40 Identities=15% Similarity=0.211 Sum_probs=30.3
Q ss_pred CCCCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCCcccc
Q 048053 1 MVRAPTYDGRGMKKGAWSKEEDDKLRAYILKYGHWNWAQLP 41 (75)
Q Consensus 1 m~r~~~~~~~~~~k~~Wt~eED~~L~~~v~~~g~~~W~~Ia 41 (75)
|.+...|.....--..++.++++.+.+.|+.-|. +-..|-
T Consensus 1 ~atkkry~~q~v~de~~~le~~q~IaqVvqlrGs-nlheV~ 40 (167)
T KOG2925|consen 1 MATKKRYLKQAVSDEDFTLEECQSIAQVVQLRGS-NLHEVM 40 (167)
T ss_pred CccchhhhcccccCCCcchhhhhhHHHHHhcCCc-chhhhh
Confidence 5566667777777889999999999999988773 544443
No 83
>PF05924 SAMP: SAMP Motif; InterPro: IPR009224 This short region is found repeated in the mid region of the adenomatous polyposis proteins (APCs). This motif binds axin [].; GO: 0008013 beta-catenin binding, 0016055 Wnt receptor signaling pathway; PDB: 1EMU_B 2RQU_B.
Probab=20.46 E-value=95 Score=13.21 Aligned_cols=10 Identities=40% Similarity=0.451 Sum_probs=5.9
Q ss_pred HHHHHHHHHH
Q 048053 21 EDDKLRAYIL 30 (75)
Q Consensus 21 ED~~L~~~v~ 30 (75)
||++|.+.+.
T Consensus 2 ~deiL~~CI~ 11 (20)
T PF05924_consen 2 EDEILQECIG 11 (20)
T ss_dssp -HHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 5677776654
No 84
>TIGR01765 tspaseT_teng_N transposase, putative, N-terminal domain. This model represents the N-terminal region of a family of putative transposases found in the largest copy number in Thermoanaerobacter tengcongensis. The three homologs in Bacillus anthracis are each split into two ORFs and This model represents the upstream ORF.
Probab=20.18 E-value=1.1e+02 Score=16.53 Aligned_cols=18 Identities=17% Similarity=0.340 Sum_probs=14.8
Q ss_pred CCCHHHHHHHHHHHHHhC
Q 048053 16 AWSKEEDDKLRAYILKYG 33 (75)
Q Consensus 16 ~Wt~eED~~L~~~v~~~g 33 (75)
..++|+++.|...+..|.
T Consensus 7 ~~~~e~~~~L~~tm~~f~ 24 (73)
T TIGR01765 7 NFEDKEKEYLLDLIRAFS 24 (73)
T ss_pred ecChhhHHHHHHHHHHHH
Confidence 367888999999998885
No 85
>TIGR00695 uxuA mannonate dehydratase. This Fe2+-requiring enzyme plays a role in D-glucuronate catabolism in Escherichia coli. Mannonate dehydratase converts D-mannonate to 2-dehydro-3-deoxy-D-gluconate. An apparent equivalog is found in a glucuronate utilization operon in Bacillus stearothermophilus T-6.
Probab=20.07 E-value=1e+02 Score=22.73 Aligned_cols=28 Identities=32% Similarity=0.617 Sum_probs=24.8
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCCccccC
Q 048053 14 KGAWSKEEDDKLRAYILKYGHWNWAQLPK 42 (75)
Q Consensus 14 k~~Wt~eED~~L~~~v~~~g~~~W~~Iar 42 (75)
...||.+|=..+++.++.+| -.|..|..
T Consensus 37 gevW~~~~i~~~k~~ie~~G-L~~~vvEs 64 (394)
T TIGR00695 37 GEVWEKEEIRKRKEYIESAG-LHWSVVES 64 (394)
T ss_pred CCCCCHHHHHHHHHHHHHcC-CeEEEEeC
Confidence 35899999999999999999 59999863
Done!