Query 038571
Match_columns 321
No_of_seqs 123 out of 153
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 12:23:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038571.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038571hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13837 Myb_DNA-bind_4: Myb/S 99.6 6E-16 1.3E-20 121.0 4.7 75 39-120 2-78 (90)
2 KOG4282 Transcription factor G 99.3 1.8E-11 4E-16 118.2 11.4 72 38-118 54-125 (345)
3 PF13873 Myb_DNA-bind_5: Myb/S 98.4 9.5E-07 2.1E-11 68.1 6.1 74 37-112 1-75 (78)
4 PF00249 Myb_DNA-binding: Myb- 97.8 3.2E-05 6.9E-10 54.9 5.1 47 39-106 2-48 (48)
5 PF13921 Myb_DNA-bind_6: Myb-l 97.1 0.00074 1.6E-08 49.4 4.5 41 41-104 1-41 (60)
6 smart00717 SANT SANT SWI3, AD 97.1 0.0012 2.6E-08 44.6 5.1 46 39-106 2-47 (49)
7 PLN03212 Transcription repress 96.8 0.0018 3.9E-08 61.6 5.0 51 36-107 23-73 (249)
8 cd00167 SANT 'SWI3, ADA2, N-Co 96.8 0.0022 4.8E-08 42.7 4.1 44 40-105 1-44 (45)
9 PLN03091 hypothetical protein; 96.3 0.0051 1.1E-07 62.7 5.2 52 34-106 10-61 (459)
10 PF12776 Myb_DNA-bind_3: Myb/S 96.0 0.038 8.2E-07 43.5 7.8 74 40-119 1-75 (96)
11 smart00595 MADF subfamily of S 95.1 0.045 9.7E-07 42.7 5.0 39 76-119 27-65 (89)
12 PF10545 MADF_DNA_bdg: Alcohol 93.6 0.16 3.5E-06 38.3 5.1 40 75-117 25-64 (85)
13 PLN03212 Transcription repress 93.5 0.15 3.2E-06 48.8 5.7 52 35-109 75-126 (249)
14 PLN03091 hypothetical protein; 93.1 0.2 4.2E-06 51.5 6.2 52 37-111 66-117 (459)
15 KOG0048 Transcription factor, 90.1 0.3 6.5E-06 45.6 3.5 54 36-110 7-61 (238)
16 KOG1279 Chromatin remodeling f 84.7 1.3 2.8E-05 46.4 4.7 49 34-105 249-297 (506)
17 KOG0051 RNA polymerase I termi 75.7 5.4 0.00012 42.7 5.8 68 36-110 434-511 (607)
18 COG5259 RSC8 RSC chromatin rem 62.9 12 0.00027 39.1 5.0 48 37-107 278-325 (531)
19 PF09356 Phage_BR0599: Phage c 51.4 7.2 0.00016 31.0 0.9 19 89-107 51-69 (80)
20 COG4985 ABC-type phosphate tra 46.3 35 0.00076 33.1 4.8 48 243-296 162-216 (289)
21 KOG0049 Transcription factor, 46.3 24 0.00051 38.7 4.0 62 35-118 357-418 (939)
22 KOG0051 RNA polymerase I termi 45.0 32 0.00068 37.1 4.7 47 37-107 383-429 (607)
23 KOG0457 Histone acetyltransfer 44.5 45 0.00098 34.6 5.5 47 37-105 71-117 (438)
24 TIGR01557 myb_SHAQKYF myb-like 42.5 58 0.0013 24.3 4.6 43 38-101 3-49 (57)
25 TIGR02894 DNA_bind_RsfA transc 33.5 50 0.0011 30.0 3.5 54 37-107 3-56 (161)
26 PF12108 SF3a60_bindingd: Spli 33.5 46 0.001 21.9 2.4 22 98-119 5-26 (28)
27 PF12881 NUT_N: NUT protein N 33.1 33 0.00072 34.2 2.5 24 109-154 257-280 (328)
28 KOG0050 mRNA splicing protein 32.2 78 0.0017 33.9 5.1 60 38-119 7-66 (617)
29 PF02520 DUF148: Domain of unk 30.8 2.3E+02 0.0051 23.1 6.9 54 263-318 21-74 (113)
30 PF05030 SSXT: SSXT protein (N 25.6 2.3E+02 0.005 22.1 5.5 26 264-289 8-33 (65)
31 KOG0049 Transcription factor, 25.1 1.8E+02 0.0039 32.3 6.4 53 34-107 249-301 (939)
32 KOG3429 Predicted peptidyl-tRN 22.5 66 0.0014 29.5 2.3 29 286-318 99-127 (172)
33 PF06320 GCN5L1: GCN5-like pro 22.2 4.6E+02 0.0099 22.4 7.3 24 296-319 66-89 (121)
34 KOG0048 Transcription factor, 22.0 1.9E+02 0.0041 27.0 5.3 49 35-106 59-107 (238)
35 PRK13923 putative spore coat p 21.9 1.7E+02 0.0036 26.8 4.8 55 36-107 3-57 (170)
36 TIGR00153 conserved hypothetic 21.7 1.8E+02 0.0039 26.5 5.0 52 266-321 50-104 (216)
No 1
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=99.60 E-value=6e-16 Score=120.97 Aligned_cols=75 Identities=31% Similarity=0.511 Sum_probs=54.2
Q ss_pred CCCCHHHHHHHHHHHhh--hhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHHHHHHHH
Q 038571 39 PRWTRQETIVLIQGKRV--VEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLLVDFRKIKRWE 116 (321)
Q Consensus 39 p~WT~~EtLvLI~akre--~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl~dYKkVr~wE 116 (321)
.+||.+||++||+++.+ ++..+..+. .. .....|+.|++.|..+||.|++.||+.||+||...|++++++.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~----~~---~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~k~~~ 74 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGG----KK---RNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKIKDRN 74 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH------SS-----HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCSSSSS
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhc----cc---cchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhcC
Confidence 68999999999999998 444454211 01 1235899999999999999999999999999999999999988
Q ss_pred hhhh
Q 038571 117 SQMK 120 (321)
Q Consensus 117 r~~~ 120 (321)
...+
T Consensus 75 ~~~~ 78 (90)
T PF13837_consen 75 KKSG 78 (90)
T ss_dssp S---
T ss_pred CCCC
Confidence 6553
No 2
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=99.29 E-value=1.8e-11 Score=118.22 Aligned_cols=72 Identities=29% Similarity=0.563 Sum_probs=64.0
Q ss_pred CCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHHHHHHHHh
Q 038571 38 NPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLLVDFRKIKRWES 117 (321)
Q Consensus 38 ~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl~dYKkVr~wEr 117 (321)
.++|+..||++||.+|.+++..|..++ . +.+.|+.|+..|..+||.|++.||+.||+||...||+.+.-..
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~-----~----k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~k~~~~ 124 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGK-----L----KGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKEKAKKE 124 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhh-----h----cccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhcccC
Confidence 799999999999999998888876553 1 2359999999999999999999999999999999999988775
Q ss_pred h
Q 038571 118 Q 118 (321)
Q Consensus 118 ~ 118 (321)
.
T Consensus 125 ~ 125 (345)
T KOG4282|consen 125 G 125 (345)
T ss_pred C
Confidence 3
No 3
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=98.36 E-value=9.5e-07 Score=68.09 Aligned_cols=74 Identities=20% Similarity=0.367 Sum_probs=55.0
Q ss_pred CCCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCC-CCChHHHHHHHHHHHHHHHHH
Q 038571 37 RNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGV-NRRPVQCRKRWGNLLVDFRKI 112 (321)
Q Consensus 37 R~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv-~Rs~~QCr~KW~NLl~dYKkV 112 (321)
|.|+||.+|..+||+.......-+...... ..........|..|+..+...|. .|++.||+++|.||...-|+.
T Consensus 1 R~~~fs~~E~~~Lv~~v~~~~~il~~k~~~--~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk~ 75 (78)
T PF13873_consen 1 RKPNFSEEEKEILVELVEKHKDILENKFSD--SVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKKK 75 (78)
T ss_pred CCCCCCHHHHHHHHHHHHHhHHHHhccccc--HHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 789999999999999976554433221101 11122245799999999999877 899999999999999877664
No 4
>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=97.85 E-value=3.2e-05 Score=54.85 Aligned_cols=47 Identities=30% Similarity=0.554 Sum_probs=37.9
Q ss_pred CCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHH
Q 038571 39 PRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLL 106 (321)
Q Consensus 39 p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl 106 (321)
..||..|...|+++....- . ..|..|+.++- ..|++.||+.+|.+|+
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g--------------~----~~W~~Ia~~~~---~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYG--------------K----DNWKKIAKRMP---GGRTAKQCRSRYQNLL 48 (48)
T ss_dssp -SS-HHHHHHHHHHHHHST--------------T----THHHHHHHHHS---SSSTHHHHHHHHHHHT
T ss_pred CCCCHHHHHHHHHHHHHhC--------------C----cHHHHHHHHcC---CCCCHHHHHHHHHhhC
Confidence 5799999999999877331 1 16999999997 6899999999999974
No 5
>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=97.13 E-value=0.00074 Score=49.44 Aligned_cols=41 Identities=37% Similarity=0.746 Sum_probs=32.6
Q ss_pred CCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHH
Q 038571 41 WTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGN 104 (321)
Q Consensus 41 WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~N 104 (321)
||..|...|+.+.... | ..|..|+..|- .|++.||+.||.+
T Consensus 1 WT~eEd~~L~~~~~~~------g-------------~~W~~Ia~~l~----~Rt~~~~~~r~~~ 41 (60)
T PF13921_consen 1 WTKEEDELLLELVKKY------G-------------NDWKKIAEHLG----NRTPKQCRNRWRN 41 (60)
T ss_dssp S-HHHHHHHHHHHHHH------T-------------S-HHHHHHHST----TS-HHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHH------C-------------cCHHHHHHHHC----cCCHHHHHHHHHH
Confidence 9999999999987742 1 16999999973 8999999999999
No 6
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=97.11 E-value=0.0012 Score=44.56 Aligned_cols=46 Identities=35% Similarity=0.694 Sum_probs=38.3
Q ss_pred CCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHH
Q 038571 39 PRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLL 106 (321)
Q Consensus 39 p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl 106 (321)
..||..|...|+.+....-. ..|..|+.++. .|++.+|+.+|.++.
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~------------------~~w~~Ia~~~~----~rt~~~~~~~~~~~~ 47 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGK------------------NNWEKIAKELP----GRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCc------------------CCHHHHHHHcC----CCCHHHHHHHHHHHc
Confidence 57999999999998663210 27999999986 899999999999875
No 7
>PLN03212 Transcription repressor MYB5; Provisional
Probab=96.79 E-value=0.0018 Score=61.60 Aligned_cols=51 Identities=29% Similarity=0.497 Sum_probs=39.0
Q ss_pred CCCCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHHH
Q 038571 36 ARNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLLV 107 (321)
Q Consensus 36 ~R~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl~ 107 (321)
-+...||..|=-.|+++.... + ...|..|+.++ |..|+++|||.||.|.|.
T Consensus 23 lKRg~WT~EEDe~L~~lV~ky------G------------~~nW~~IAk~~---g~gRT~KQCReRW~N~L~ 73 (249)
T PLN03212 23 MKRGPWTVEEDEILVSFIKKE------G------------EGRWRSLPKRA---GLLRCGKSCRLRWMNYLR 73 (249)
T ss_pred CcCCCCCHHHHHHHHHHHHHh------C------------cccHHHHHHhh---hcCCCcchHHHHHHHhhc
Confidence 345679999999998865522 0 12799999764 567999999999999774
No 8
>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=96.79 E-value=0.0022 Score=42.72 Aligned_cols=44 Identities=34% Similarity=0.768 Sum_probs=35.9
Q ss_pred CCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHH
Q 038571 40 RWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNL 105 (321)
Q Consensus 40 ~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NL 105 (321)
.||..|...|+.+-...- . ..|..|+..+. .|++.||+.+|.++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g--------------~----~~w~~Ia~~~~----~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYG--------------K----NNWEKIAKELP----GRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHC--------------c----CCHHHHHhHcC----CCCHHHHHHHHHHh
Confidence 499999999999866321 0 27999999985 39999999999887
No 9
>PLN03091 hypothetical protein; Provisional
Probab=96.34 E-value=0.0051 Score=62.73 Aligned_cols=52 Identities=29% Similarity=0.480 Sum_probs=39.5
Q ss_pred CCCCCCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHH
Q 038571 34 KTARNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLL 106 (321)
Q Consensus 34 r~~R~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl 106 (321)
.+-|+..||..|=-.|+++.... | ...|..|+..+ |..|+++|||.||.|.|
T Consensus 10 qklrKg~WTpEEDe~L~~~V~ky------G------------~~nWs~IAk~~---g~gRT~KQCRERW~NyL 61 (459)
T PLN03091 10 QKLRKGLWSPEEDEKLLRHITKY------G------------HGCWSSVPKQA---GLQRCGKSCRLRWINYL 61 (459)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHh------C------------cCCHHHHhhhh---ccCcCcchHhHHHHhcc
Confidence 44566789999999998876421 1 12799999764 56899999999999743
No 10
>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=96.05 E-value=0.038 Score=43.51 Aligned_cols=74 Identities=20% Similarity=0.368 Sum_probs=57.1
Q ss_pred CCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHH-hCCCCChHHHHHHHHHHHHHHHHHHHHHhh
Q 038571 40 RWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQ-YGVNRRPVQCRKRWGNLLVDFRKIKRWESQ 118 (321)
Q Consensus 40 ~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~-~Gv~Rs~~QCr~KW~NLl~dYKkVr~wEr~ 118 (321)
+||...+..||.+-.+.-..... .....+ ...-|..|...+.. .|...+..||+.||..|-..|+-++.-...
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~--~~~~~f----k~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~y~~~~~l~~~ 74 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNR--PTNGGF----KKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKDYRIWKELRNH 74 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCC--CCCCCc----CHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 69999999999998755444221 011223 23589999998877 778889999999999999999999988875
Q ss_pred h
Q 038571 119 M 119 (321)
Q Consensus 119 ~ 119 (321)
+
T Consensus 75 s 75 (96)
T PF12776_consen 75 S 75 (96)
T ss_pred C
Confidence 5
No 11
>smart00595 MADF subfamily of SANT domain.
Probab=95.09 E-value=0.045 Score=42.69 Aligned_cols=39 Identities=23% Similarity=0.463 Sum_probs=32.6
Q ss_pred cchHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHHHHHHHHhhh
Q 038571 76 EPKWDSVASYCKQYGVNRRPVQCRKRWGNLLVDFRKIKRWESQM 119 (321)
Q Consensus 76 ~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl~dYKkVr~wEr~~ 119 (321)
...|..|+..|.. +..+|+.||.||-..|.+...-....
T Consensus 27 ~~aW~~Ia~~l~~-----~~~~~~~kw~~LR~~y~~e~~r~~~~ 65 (89)
T smart00595 27 RKAWEEIAEELGL-----SVEECKKRWKNLRDRYRRELKRLQNG 65 (89)
T ss_pred HHHHHHHHHHHCc-----CHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4699999999965 99999999999999999876555433
No 12
>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=93.59 E-value=0.16 Score=38.34 Aligned_cols=40 Identities=28% Similarity=0.496 Sum_probs=34.4
Q ss_pred CcchHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHHHHHHHHh
Q 038571 75 SEPKWDSVASYCKQYGVNRRPVQCRKRWGNLLVDFRKIKRWES 117 (321)
Q Consensus 75 ~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl~dYKkVr~wEr 117 (321)
....|..|+..| |..-+..+|+.+|.+|-..|.+.+.-..
T Consensus 25 r~~aw~~Ia~~l---~~~~~~~~~~~~w~~Lr~~y~~~~~~~~ 64 (85)
T PF10545_consen 25 REEAWQEIAREL---GKEFSVDDCKKRWKNLRDRYRRELKKIK 64 (85)
T ss_pred HHHHHHHHHHHH---ccchhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456999999999 4445689999999999999999988886
No 13
>PLN03212 Transcription repressor MYB5; Provisional
Probab=93.54 E-value=0.15 Score=48.84 Aligned_cols=52 Identities=15% Similarity=0.317 Sum_probs=41.0
Q ss_pred CCCCCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHHHHH
Q 038571 35 TARNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLLVDF 109 (321)
Q Consensus 35 ~~R~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl~dY 109 (321)
.-....||..|-..|+..... .+ .+|..|+.++- .|+.+||+.+|.+++..+
T Consensus 75 ~I~kgpWT~EED~lLlel~~~--------------~G-----nKWs~IAk~Lp----GRTDnqIKNRWns~LrK~ 126 (249)
T PLN03212 75 SVKRGGITSDEEDLILRLHRL--------------LG-----NRWSLIAGRIP----GRTDNEIKNYWNTHLRKK 126 (249)
T ss_pred hcccCCCChHHHHHHHHHHHh--------------cc-----ccHHHHHhhcC----CCCHHHHHHHHHHHHhHH
Confidence 345689999999999876431 11 28999999984 599999999999988743
No 14
>PLN03091 hypothetical protein; Provisional
Probab=93.12 E-value=0.2 Score=51.52 Aligned_cols=52 Identities=17% Similarity=0.378 Sum_probs=42.3
Q ss_pred CCCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHHH
Q 038571 37 RNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLLVDFRK 111 (321)
Q Consensus 37 R~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl~dYKk 111 (321)
....||..|-..||...+.. + .+|..|+.++. .|+.+||+.+|..++..|.+
T Consensus 66 kKgpWT~EED~lLLeL~k~~--------------G-----nKWskIAk~LP----GRTDnqIKNRWnslLKKklr 117 (459)
T PLN03091 66 KRGTFSQQEENLIIELHAVL--------------G-----NRWSQIAAQLP----GRTDNEIKNLWNSCLKKKLR 117 (459)
T ss_pred cCCCCCHHHHHHHHHHHHHh--------------C-----cchHHHHHhcC----CCCHHHHHHHHHHHHHHHHH
Confidence 46789999999999876521 1 28999999983 69999999999999986543
No 15
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=90.10 E-value=0.3 Score=45.60 Aligned_cols=54 Identities=24% Similarity=0.499 Sum_probs=40.5
Q ss_pred CCCCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHH-HHHH
Q 038571 36 ARNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLL-VDFR 110 (321)
Q Consensus 36 ~R~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl-~dYK 110 (321)
.+++.||..|=..||+..+..= .-.|..|+..+ |..|..++||-||-|-| -+.|
T Consensus 7 ~~kGpWt~EED~~L~~~V~~~G------------------~~~W~~i~k~~---gl~R~GKSCRlRW~NyLrP~ik 61 (238)
T KOG0048|consen 7 LVKGPWTQEEDLTQIRSIKSFG------------------KHNGTALPKLA---GLRRCGKSCRLRWTNYLRPDLK 61 (238)
T ss_pred ccCCCCChHHHHHHHHHHHHhC------------------CCCcchhhhhc---CCCccchHHHHHhhcccCCCcc
Confidence 4469999999999999866221 11788888654 56899999999999944 4444
No 16
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=84.72 E-value=1.3 Score=46.38 Aligned_cols=49 Identities=27% Similarity=0.516 Sum_probs=39.3
Q ss_pred CCCCCCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHH
Q 038571 34 KTARNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNL 105 (321)
Q Consensus 34 r~~R~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NL 105 (321)
.....++||.+|||.|+++.- .. .+.|..|+.++. .|+..||-.|.=.|
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie---~y----------------~ddW~kVa~hVg----~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIE---MY----------------GDDWNKVADHVG----TKSQEQCILKFLRL 297 (506)
T ss_pred cccCCCCccHHHHHHHHHHHH---Hh----------------cccHHHHHhccC----CCCHHHHHHHHHhc
Confidence 345679999999999999753 11 148999999998 89999998887554
No 17
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=75.74 E-value=5.4 Score=42.72 Aligned_cols=68 Identities=18% Similarity=0.376 Sum_probs=45.8
Q ss_pred CCCCCCCHHHHHHHHHHHhhhhhh-hccc--------cc-ccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHH
Q 038571 36 ARNPRWTRQETIVLIQGKRVVEDR-IRGF--------RT-STSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNL 105 (321)
Q Consensus 36 ~R~p~WT~~EtLvLI~akre~e~r-~~~~--------r~-~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NL 105 (321)
.....||..|.--||...-++-.. ++.- +. ..+.+.. .=-|-.|++.+. .|+..||+-||..|
T Consensus 434 ~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d---~I~Wt~vse~~~----TR~~~qCr~Kw~kl 506 (607)
T KOG0051|consen 434 RNRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKD---DINWTLVSEMLG----TRSRIQCRYKWYKL 506 (607)
T ss_pred cccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccC---CcchhhhhHhhc----CCCcchHHHHHHHH
Confidence 466789999999999987655441 1110 00 0111111 126999999443 89999999999999
Q ss_pred HHHHH
Q 038571 106 LVDFR 110 (321)
Q Consensus 106 l~dYK 110 (321)
+..+=
T Consensus 507 ~~~~s 511 (607)
T KOG0051|consen 507 TTSPS 511 (607)
T ss_pred HhhHH
Confidence 98753
No 18
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=62.90 E-value=12 Score=39.12 Aligned_cols=48 Identities=29% Similarity=0.600 Sum_probs=37.4
Q ss_pred CCCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHHH
Q 038571 37 RNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLLV 107 (321)
Q Consensus 37 R~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl~ 107 (321)
+-.+|+.+|++.|+++..+- .+-|..||.+-. .++..||--+.=+|=.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~y-------------------gDdW~kVA~HVg----tKt~EqCIl~FL~LPi 325 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMY-------------------GDDWDKVARHVG----TKTKEQCILHFLQLPI 325 (531)
T ss_pred ccccccHHHHHHHHHHHHHh-------------------hhhHHHHHHHhC----CCCHHHHHHHHHcCCc
Confidence 66799999999999986522 137999998865 8999999766655443
No 19
>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=51.37 E-value=7.2 Score=30.99 Aligned_cols=19 Identities=26% Similarity=0.551 Sum_probs=17.8
Q ss_pred hCCCCChHHHHHHHHHHHH
Q 038571 89 YGVNRRPVQCRKRWGNLLV 107 (321)
Q Consensus 89 ~Gv~Rs~~QCr~KW~NLl~ 107 (321)
.||+++...|+.|+.|+++
T Consensus 51 ~GCDkt~~tC~~kF~N~~N 69 (80)
T PF09356_consen 51 PGCDKTFATCRAKFNNALN 69 (80)
T ss_pred eCCCCCHHHHHHHhCCccc
Confidence 7999999999999999875
No 20
>COG4985 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]
Probab=46.34 E-value=35 Score=33.09 Aligned_cols=48 Identities=31% Similarity=0.342 Sum_probs=35.7
Q ss_pred chhhhhhhcccCcCcccccchhHHHHHHHhhhhhHHHHHHHHh-------hhhhhhhHHHH
Q 038571 243 TTQERWKRRRLSSCVSKETNMGDLLFKVLERNSSMLNTQLEAQ-------NINCQLDREQK 296 (321)
Q Consensus 243 ~~~~~~KR~r~~~~~~~e~~l~~~lievLern~~ml~aQLEAQ-------n~n~qlDReqr 296 (321)
.-++-+||..-. ++|-+|+-++-++-.+||+.|||+- -+|.+||-+-+
T Consensus 162 l~~eLqkr~~~v------~~l~~q~~k~~~~qv~~in~qlErLRL~krrlQl~g~Ld~~~q 216 (289)
T COG4985 162 LERELQKRLLEV------ETLRDQVDKMVEQQVRVINSQLERLRLEKRRLQLNGQLDDEFQ 216 (289)
T ss_pred HHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccHHHH
Confidence 345666666655 6788899999999999999999993 34557776544
No 21
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=46.30 E-value=24 Score=38.70 Aligned_cols=62 Identities=31% Similarity=0.569 Sum_probs=44.4
Q ss_pred CCCCCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHHHHHH
Q 038571 35 TARNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLLVDFRKIKR 114 (321)
Q Consensus 35 ~~R~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl~dYKkVr~ 114 (321)
.-..+.||.+|-+.|+.+..+--. .-|--|.+. ==+||-.|||++.-|.+..-.|+-.
T Consensus 357 sikhg~wt~~ED~~L~~AV~~Yg~------------------kdw~k~R~~----vPnRSdsQcR~RY~nvL~~s~K~~r 414 (939)
T KOG0049|consen 357 SVKHGRWTDQEDVLLVCAVSRYGA------------------KDWAKVRQA----VPNRSDSQCRERYTNVLNRSAKVER 414 (939)
T ss_pred cccCCCCCCHHHHHHHHHHHHhCc------------------cchhhHHHh----cCCccHHHHHHHHHHHHHHhhccCc
Confidence 345689999999999998652211 135444322 2279999999999999998888877
Q ss_pred HHhh
Q 038571 115 WESQ 118 (321)
Q Consensus 115 wEr~ 118 (321)
|.-+
T Consensus 415 W~l~ 418 (939)
T KOG0049|consen 415 WTLV 418 (939)
T ss_pred eeec
Confidence 7643
No 22
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=45.04 E-value=32 Score=37.13 Aligned_cols=47 Identities=23% Similarity=0.519 Sum_probs=34.5
Q ss_pred CCCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHHH
Q 038571 37 RNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLLV 107 (321)
Q Consensus 37 R~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl~ 107 (321)
-.+.||..|.-.|-..-.+. +..|..|...|- |.|.-|+++|.+.+.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~-------------------g~~W~~Ig~~lg-----r~P~~crd~wr~~~~ 429 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEH-------------------GNDWKEIGKALG-----RMPMDCRDRWRQYVK 429 (607)
T ss_pred ccCCCCcchHHHHHHHHHHh-------------------cccHHHHHHHHc-----cCcHHHHHHHHHhhc
Confidence 35678888877665432211 127999998876 999999999999775
No 23
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=44.50 E-value=45 Score=34.61 Aligned_cols=47 Identities=21% Similarity=0.590 Sum_probs=36.1
Q ss_pred CCCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHH
Q 038571 37 RNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNL 105 (321)
Q Consensus 37 R~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NL 105 (321)
-.|.||..|=+.||.+-. .+ +++ -|..||+++- .|+..+|++-..+.
T Consensus 71 ~~~~WtadEEilLLea~~----t~--------G~G------NW~dIA~hIG----tKtkeeck~hy~k~ 117 (438)
T KOG0457|consen 71 LDPSWTADEEILLLEAAE----TY--------GFG------NWQDIADHIG----TKTKEECKEHYLKH 117 (438)
T ss_pred CCCCCChHHHHHHHHHHH----Hh--------CCC------cHHHHHHHHc----ccchHHHHHHHHHH
Confidence 358999999999998743 11 133 5999999986 79999998866553
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=42.48 E-value=58 Score=24.34 Aligned_cols=43 Identities=16% Similarity=0.256 Sum_probs=31.0
Q ss_pred CCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchH---HHHHHHHHHhCCCC-ChHHHHHH
Q 038571 38 NPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKW---DSVASYCKQYGVNR-RPVQCRKR 101 (321)
Q Consensus 38 ~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW---~~Vs~~c~~~Gv~R-s~~QCr~K 101 (321)
.-.||..|...++.+.... |+ ..| +.|++.|. +.| +..||+..
T Consensus 3 r~~WT~eeh~~Fl~ai~~~------G~------------g~~a~pk~I~~~~~---~~~lT~~qV~SH 49 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKL------GG------------PDWATPKRILELMV---VDGLTRDQVASH 49 (57)
T ss_pred CCCCCHHHHHHHHHHHHHh------CC------------CcccchHHHHHHcC---CCCCCHHHHHHH
Confidence 4579999999999987643 11 147 77877665 456 89999864
No 25
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=33.55 E-value=50 Score=30.02 Aligned_cols=54 Identities=22% Similarity=0.416 Sum_probs=39.4
Q ss_pred CCCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHHH
Q 038571 37 RNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLLV 107 (321)
Q Consensus 37 R~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl~ 107 (321)
|.--||..|=+.|.+..- ..++.|+ +. =.-.++|...+. |++.-|.=+|...+.
T Consensus 3 RQDAWT~eeDlLLAEtVL---rhIReG~----TQ-----L~AFeEvg~~L~-----RTsAACGFRWNs~VR 56 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVL---RHIREGS----TQ-----LSAFEEVGRALN-----RTAAACGFRWNAYVR 56 (161)
T ss_pred cccccccHHHHHHHHHHH---HHHhcch----HH-----HHHHHHHHHHHc-----ccHHHhcchHHHHHH
Confidence 555699999999988633 4444332 11 125788888875 999999999999776
No 26
>PF12108 SF3a60_bindingd: Splicing factor SF3a60 binding domain; InterPro: IPR021966 This domain is found in eukaryotes. This domain is about 30 amino acids in length. This domain has a single completely conserved residue Y that may be functionally important. SF3a60 makes up the SF3a complex with SF3a66 and SF3a120. This domain is the binding site of SF3a60 for SF3a120. The SF3a complex is part of the spliceosome, a protein complex involved in splicing mRNA after transcription. ; PDB: 2DT7_A.
Probab=33.48 E-value=46 Score=21.91 Aligned_cols=22 Identities=9% Similarity=0.311 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhh
Q 038571 98 CRKRWGNLLVDFRKIKRWESQM 119 (321)
Q Consensus 98 Cr~KW~NLl~dYKkVr~wEr~~ 119 (321)
..+-|++....+|.||++.++.
T Consensus 5 ~~d~f~eFY~rlk~Ike~Hrr~ 26 (28)
T PF12108_consen 5 GGDPFSEFYERLKEIKEYHRRY 26 (28)
T ss_dssp S--HHHHHHHHHHHHHHHHHS-
T ss_pred CCChHHHHHHHHHHHHHHHHhC
Confidence 4567999999999999999875
No 27
>PF12881 NUT_N: NUT protein N terminus; InterPro: IPR024309 This domain is found in the N-terminal region of Nuclear Testis (NUT) proteins. It is also found in FAM22, which are a family of uncharacterised mammalian proteins.
Probab=33.10 E-value=33 Score=34.23 Aligned_cols=24 Identities=21% Similarity=0.607 Sum_probs=20.7
Q ss_pred HHHHHHHHhhhhcccccccccCHHHHhhcCCCCCchHHHHHHHHhh
Q 038571 109 FRKIKRWESQMKEEKQSFWVMRNESRKQMKLPGYFDREVYDVLDGV 154 (321)
Q Consensus 109 YKkVr~wEr~~~~~~~SYW~M~~~eRke~~LP~~Fd~EVydaLd~~ 154 (321)
.+.|++|++.+ |||+=||..|.+-
T Consensus 257 ~ra~qEW~~~S----------------------nfdRmifyemaek 280 (328)
T PF12881_consen 257 WRAVQEWQHTS----------------------NFDRMIFYEMAEK 280 (328)
T ss_pred HHHHHHhhccc----------------------cccHHHHHHHHHH
Confidence 46899999875 9999999999884
No 28
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=32.23 E-value=78 Score=33.88 Aligned_cols=60 Identities=23% Similarity=0.474 Sum_probs=43.1
Q ss_pred CCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHHHHHHHHh
Q 038571 38 NPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLLVDFRKIKRWES 117 (321)
Q Consensus 38 ~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl~dYKkVr~wEr 117 (321)
.+.|+..|--+|=.+-. . ...+.|..|+..+.+ -++.||.-+|.--+..-=+.-+|.+
T Consensus 7 ggvwrntEdeilkaav~--k----------------yg~nqws~i~sll~~----kt~rqC~~rw~e~ldp~i~~tews~ 64 (617)
T KOG0050|consen 7 GGVWRNTEDEVLKAAVM--K----------------YGKNQWSRIASLLNR----KTARQCKARWEEWLDPAIKKTEWSR 64 (617)
T ss_pred cceecccHHHHHHHHHH--H----------------cchHHHHHHHHHHhh----cchhHHHHHHHHHhCHHHhhhhhhh
Confidence 35688888777654422 1 113589999999984 5899999999988877666677776
Q ss_pred hh
Q 038571 118 QM 119 (321)
Q Consensus 118 ~~ 119 (321)
.-
T Consensus 65 ee 66 (617)
T KOG0050|consen 65 EE 66 (617)
T ss_pred hH
Confidence 43
No 29
>PF02520 DUF148: Domain of unknown function DUF148; InterPro: IPR003677 This entry represents the domain DUF148, which has no known function.
Probab=30.78 E-value=2.3e+02 Score=23.12 Aligned_cols=54 Identities=15% Similarity=0.180 Sum_probs=24.7
Q ss_pred hhHHHHHHHhhhhhHHHHHHHHhhhhhhhhHHHHHHhhhHHHHHHHHHHHHHHHhh
Q 038571 263 MGDLLFKVLERNSSMLNTQLEAQNINCQLDREQKKEHSDNLIAAMNKLTDALLRIG 318 (321)
Q Consensus 263 l~~~lievLern~~ml~aQLEAQn~n~qlDReqrkdq~~~LiavL~kLadAl~rIA 318 (321)
+..+|-+-.+.++ |.+++.+=..+.+...++.++...+.|+-|..+-..|..|.
T Consensus 21 ~~~~l~~Wa~~~~--v~~~~~~f~~~~~~~~~~~~~~~~~vi~~L~~a~~~l~~I~ 74 (113)
T PF02520_consen 21 IEEQLDEWAEKYG--VQDQYNEFKAQVQAQKEEVRKNVTAVISNLSSAFAKLSAIL 74 (113)
T ss_pred HHHHHHHHHHHCC--cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555 55555444443333334444444444444444444444443
No 30
>PF05030 SSXT: SSXT protein (N-terminal region); InterPro: IPR007726 SSXT (also known as SYT or SS18) appears to function synergistically with RBM14 as a transcriptional coactivator []. The SSXT protein is involved in synovial sarcoma in humans. A SYT-SSX fusion gene resulting from the chromosomal translocation t(X;18) (p11;q11) is characteristic of synovial sarcomas. This translocation fuses the SSXT (SYT) gene from chromosome 18 to either of two homologous genes at Xp11, SSX1 or SSX2 []. This entry also includes SS18-like protein 1, a transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons [],[].
Probab=25.59 E-value=2.3e+02 Score=22.10 Aligned_cols=26 Identities=23% Similarity=0.295 Sum_probs=21.7
Q ss_pred hHHHHHHHhhhhhHHHHHHHHhhhhh
Q 038571 264 GDLLFKVLERNSSMLNTQLEAQNINC 289 (321)
Q Consensus 264 ~~~lievLern~~ml~aQLEAQn~n~ 289 (321)
..++-+.|+.|..+|.+=+|=||.--
T Consensus 8 ~~~IQk~LdEN~~LI~~I~e~qn~Gr 33 (65)
T PF05030_consen 8 TEQIQKMLDENDQLIQCIQEYQNKGR 33 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 35788899999999999999988543
No 31
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=25.12 E-value=1.8e+02 Score=32.27 Aligned_cols=53 Identities=19% Similarity=0.329 Sum_probs=36.9
Q ss_pred CCCCCCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHHH
Q 038571 34 KTARNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLLV 107 (321)
Q Consensus 34 r~~R~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl~ 107 (321)
++-++-.|+..|.-.|.+.-. . .+ ..-|..|+..+ |-+||..||-.|+..-+.
T Consensus 249 P~~nk~~WS~EE~E~L~AiA~-A-~~----------------~~~W~~IA~~L---gt~RS~yQC~~kF~t~~~ 301 (939)
T KOG0049|consen 249 PKWNKEHWSNEEVEKLKALAE-A-PK----------------FVSWPMIALNL---GTNRSSYQCMEKFKTEVS 301 (939)
T ss_pred CccchhccChHHHHHHHHHHh-c-cc----------------cccHHHHHHHh---CCCcchHHHHHHHHHHHH
Confidence 566778899888776665422 1 11 23799999864 778999999887765443
No 32
>KOG3429 consensus Predicted peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=22.50 E-value=66 Score=29.49 Aligned_cols=29 Identities=28% Similarity=0.343 Sum_probs=23.8
Q ss_pred hhhhhhhHHHHHHhhhHHHHHHHHHHHHHHHhh
Q 038571 286 NINCQLDREQKKEHSDNLIAAMNKLTDALLRIG 318 (321)
Q Consensus 286 n~n~qlDReqrkdq~~~LiavL~kLadAl~rIA 318 (321)
-|-++..|.|.+ .|..||+||.|.|+.++
T Consensus 99 vI~Sd~TRsq~~----NiaDcleKlr~~I~~~~ 127 (172)
T KOG3429|consen 99 VIYSDKTRSQHK----NIADCLEKLRDIIRAAE 127 (172)
T ss_pred EEecchhHHhhc----cHHHHHHHHHHHHHHHh
Confidence 345577788776 89999999999999876
No 33
>PF06320 GCN5L1: GCN5-like protein 1 (GCN5L1); InterPro: IPR009395 This family consists of several eukaryotic GCN5-like protein 1 (GCN5L1) sequences. The function of this family is unknown [,].
Probab=22.23 E-value=4.6e+02 Score=22.39 Aligned_cols=24 Identities=25% Similarity=0.500 Sum_probs=20.7
Q ss_pred HHHhhhHHHHHHHHHHHHHHHhhh
Q 038571 296 KKEHSDNLIAAMNKLTDALLRIGN 319 (321)
Q Consensus 296 rkdq~~~LiavL~kLadAl~rIAD 319 (321)
=..|.+.++...+++.++|..|.|
T Consensus 66 l~kqt~qw~~~~~~~~~~LKEiGD 89 (121)
T PF06320_consen 66 LAKQTDQWLKLVDSFNDALKEIGD 89 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcc
Confidence 356788899999999999999987
No 34
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=22.03 E-value=1.9e+02 Score=27.01 Aligned_cols=49 Identities=14% Similarity=0.385 Sum_probs=36.3
Q ss_pred CCCCCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHH
Q 038571 35 TARNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLL 106 (321)
Q Consensus 35 ~~R~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl 106 (321)
.=....||..|-.+||++-+.. + .||..||.++- -|+-+..+--|..-+
T Consensus 59 ~ikrg~fT~eEe~~Ii~lH~~~--------------G-----NrWs~IA~~LP----GRTDNeIKN~Wnt~l 107 (238)
T KOG0048|consen 59 DLKRGNFSDEEEDLIIKLHALL--------------G-----NRWSLIAGRLP----GRTDNEVKNHWNTHL 107 (238)
T ss_pred CccCCCCCHHHHHHHHHHHHHH--------------C-----cHHHHHHhhCC----CcCHHHHHHHHHHHH
Confidence 3446899999999999985522 2 28999999987 588877766664433
No 35
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=21.88 E-value=1.7e+02 Score=26.85 Aligned_cols=55 Identities=22% Similarity=0.371 Sum_probs=34.3
Q ss_pred CCCCCCCHHHHHHHHHHHhhhhhhhcccccccccccCCCCcchHHHHHHHHHHhCCCCChHHHHHHHHHHHH
Q 038571 36 ARNPRWTRQETIVLIQGKRVVEDRIRGFRTSTSAFRSDHSEPKWDSVASYCKQYGVNRRPVQCRKRWGNLLV 107 (321)
Q Consensus 36 ~R~p~WT~~EtLvLI~akre~e~r~~~~r~~~~~~~s~~~~~kW~~Vs~~c~~~Gv~Rs~~QCr~KW~NLl~ 107 (321)
.|.--||..|=+.|.+..- + .++.|. .. -.--+.|..++. |++.+|..+|...+.
T Consensus 3 ~rqdawt~e~d~llae~vl--~-~i~eg~----tq-----l~afe~~g~~L~-----rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVL--R-HIREGG----TQ-----LKAFEEVGDALK-----RTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHHHHHH--H-HHhccc----hH-----HHHHHHHHHHHh-----hhHHHHHhHHHHHHH
Confidence 3566799999988855422 2 222221 11 124556666665 999999999966544
No 36
>TIGR00153 conserved hypothetical protein TIGR00153. An apparent homolog with a suggested function is Pit accessory protein from Sinorhizobium meliloti, which may be involved in phosphate (Pi) transport.
Probab=21.66 E-value=1.8e+02 Score=26.45 Aligned_cols=52 Identities=12% Similarity=0.114 Sum_probs=39.5
Q ss_pred HHHHHHhhhhhHHHHHHHHhhhhh---hhhHHHHHHhhhHHHHHHHHHHHHHHHhhhcC
Q 038571 266 LLFKVLERNSSMLNTQLEAQNINC---QLDREQKKEHSDNLIAAMNKLTDALLRIGNKL 321 (321)
Q Consensus 266 ~lievLern~~ml~aQLEAQn~n~---qlDReqrkdq~~~LiavL~kLadAl~rIADKL 321 (321)
.-|..||+-+..|...+..+.-.. =+|||..- .|+-.|+.++|.+..+|..|
T Consensus 50 ~~I~~lE~eaD~i~~~i~~~L~~~fitP~dReDi~----~L~~~lD~I~D~i~~~a~~l 104 (216)
T TIGR00153 50 KEIIEIEHEADEIKREIRLNLEKGAFLPNDRRDLL----ELAELLDEILDSLEHAAMLY 104 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHhCcccccCcCcHHHHH----HHHHHHHHHHHHHHHHHHHH
Confidence 345567888888888777665443 67888886 89999999999998888653
Done!