Query 018990
Match_columns 348
No_of_seqs 367 out of 1976
Neff 6.0
Searched_HMMs 29240
Date Mon Mar 25 09:10:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018990.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/018990hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1gcc_A Ethylene responsive ele 99.8 1.6E-21 5.3E-26 146.4 6.1 61 44-112 2-62 (63)
2 1gcc_A Ethylene responsive ele 99.8 9.4E-21 3.2E-25 142.1 6.0 60 146-206 2-62 (63)
3 3igm_B PF14_0633 protein; AP2 91.2 0.14 4.8E-06 39.0 3.0 23 40-62 3-25 (77)
4 3igm_B PF14_0633 protein; AP2 82.8 0.7 2.4E-05 35.1 2.5 27 143-171 4-30 (77)
5 1u3e_M HNH homing endonuclease 81.6 0.18 6E-06 43.8 -1.4 88 92-188 55-146 (174)
6 1u3e_M HNH homing endonuclease 60.7 2 6.9E-05 36.9 0.3 37 45-93 109-145 (174)
7 3eik_A Tata-box-binding protei 40.2 67 0.0023 28.9 7.0 132 44-194 76-212 (218)
8 1z1b_A Integrase; protein-DNA 38.9 35 0.0012 31.0 5.1 42 148-194 14-55 (356)
9 1ais_A TBP, protein (tata-bind 31.4 1.3E+02 0.0044 26.0 7.2 134 43-194 41-178 (182)
10 1z1b_A Integrase; protein-DNA 28.6 73 0.0025 28.8 5.4 41 47-100 15-55 (356)
No 1
>1gcc_A Ethylene responsive element binding factor 1; transcription factor, protein-DNA complex, ethylene inducible; HET: DNA; NMR {Arabidopsis thaliana} SCOP: d.10.1.2 PDB: 2gcc_A 3gcc_A
Probab=99.84 E-value=1.6e-21 Score=146.39 Aligned_cols=61 Identities=44% Similarity=0.864 Sum_probs=56.4
Q ss_pred CeEEeEEcCCCCeeEEEEecCcccccccccCCcEEecccCCCHHHHHHHHHHHHHhhcCCccccCCCCc
Q 018990 44 IYRGVTRHRWTGRYEAHLWDKNCWNESQNKKGRQVYLGAYDNEEAAARAYDLAALKYWGHDTILNFPLS 112 (348)
Q Consensus 44 ~yrGV~~~~~~grw~A~I~~~~~w~~~~~~~gk~i~LG~f~teeeAA~AYD~aa~~~~G~~a~~NFp~~ 112 (348)
+||||++++| |||+|+|+++ ..+|+++|||+|+|+||||+|||.|+++++|..+.+|||.+
T Consensus 2 ~yrGV~~r~~-gkw~A~I~~~-------~~~g~r~~LGtf~T~eeAA~AyD~Aa~~~~G~~a~~NFp~~ 62 (63)
T 1gcc_A 2 HYRGVRQRPW-GKFAAEIRDP-------AKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLR 62 (63)
T ss_dssp CCTTEEEETT-TEEEEEEEET-------TTTSEEEEEEEESSHHHHHHHHHHHHHHHHSSCCCCSSCTT
T ss_pred CcccEeeCCC-CcEEEEEccc-------cCCCeEEEeeeCCCHHHHHHHHHHHHHHhcCcccccCCCCc
Confidence 5999999987 9999999876 25689999999999999999999999999999999999964
No 2
>1gcc_A Ethylene responsive element binding factor 1; transcription factor, protein-DNA complex, ethylene inducible; HET: DNA; NMR {Arabidopsis thaliana} SCOP: d.10.1.2 PDB: 2gcc_A 3gcc_A
Probab=99.82 E-value=9.4e-21 Score=142.14 Aligned_cols=60 Identities=43% Similarity=0.670 Sum_probs=54.9
Q ss_pred ccccccccccCceeeeeecccc-CCeEEeecCCCCHHHHHHHHHHHHHHhcCCccccCCCch
Q 018990 146 KYRGVARHHHNGRWEARIGRVF-GNKYLYLGTYATQEEAAQAYDRAAIEYRGLNAVTNFDLS 206 (348)
Q Consensus 146 ~yrGV~~~~~~gkW~A~I~~~~-~~k~~~LGtf~t~eeAA~AYD~aa~~~~G~~a~~NF~~~ 206 (348)
+|+||++ +++|||+|+|+++. +++++|||+|+|+||||+|||.|+++++|..+.+|||.+
T Consensus 2 ~yrGV~~-r~~gkw~A~I~~~~~~g~r~~LGtf~T~eeAA~AyD~Aa~~~~G~~a~~NFp~~ 62 (63)
T 1gcc_A 2 HYRGVRQ-RPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLR 62 (63)
T ss_dssp CCTTEEE-ETTTEEEEEEEETTTTSEEEEEEEESSHHHHHHHHHHHHHHHHSSCCCCSSCTT
T ss_pred CcccEee-CCCCcEEEEEccccCCCeEEEeeeCCCHHHHHHHHHHHHHHhcCcccccCCCCc
Confidence 6999965 57999999999765 479999999999999999999999999999999999974
No 3
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=91.20 E-value=0.14 Score=39.00 Aligned_cols=23 Identities=26% Similarity=0.364 Sum_probs=20.1
Q ss_pred CCCCCeEEeEEcCCCCeeEEEEe
Q 018990 40 QRSSIYRGVTRHRWTGRYEAHLW 62 (348)
Q Consensus 40 ~~sS~yrGV~~~~~~grw~A~I~ 62 (348)
..+|+|.||+|+++.+.|.|+-.
T Consensus 3 ~~~Sg~pGVsw~kR~~~WlA~W~ 25 (77)
T 3igm_B 3 HMSSGYPGVSWNKRMCAWLAFFY 25 (77)
T ss_dssp -CCSSSTTEEEETTTTEEEEEEE
T ss_pred CCCCCCCcEEeecCCceEEEEEe
Confidence 45899999999999999999864
No 4
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=82.75 E-value=0.7 Score=35.14 Aligned_cols=27 Identities=26% Similarity=0.228 Sum_probs=22.0
Q ss_pred CccccccccccccCceeeeeeccccCCeE
Q 018990 143 GVSKYRGVARHHHNGRWEARIGRVFGNKY 171 (348)
Q Consensus 143 ~~S~yrGV~~~~~~gkW~A~I~~~~~~k~ 171 (348)
..|+|.||+|+++.+.|.|.-. .+|++
T Consensus 4 ~~Sg~pGVsw~kR~~~WlA~W~--e~g~r 30 (77)
T 3igm_B 4 MSSGYPGVSWNKRMCAWLAFFY--DGASR 30 (77)
T ss_dssp CCSSSTTEEEETTTTEEEEEEE--ETTEE
T ss_pred CCCCCCcEEeecCCceEEEEEe--cCCeE
Confidence 4689999999999999999986 34543
No 5
>1u3e_M HNH homing endonuclease; HNH catalytic motif, helix-turn-helix DNA binding domain, PR complex, DNA binding protein-DNA complex; 2.92A {Bacillus phage SPO1} SCOP: d.4.1.3 d.285.1.1
Probab=81.57 E-value=0.18 Score=43.80 Aligned_cols=88 Identities=7% Similarity=-0.001 Sum_probs=52.7
Q ss_pred HHHHHHHhhcCCcc---ccCCCCcc-hhHHHHHhhccchhhhhcccccccCCccCCccccccccccccCceeeeeecccc
Q 018990 92 AYDLAALKYWGHDT---ILNFPLSN-YEEELVEMEGQSKEEYIGSLRRKSSGFSRGVSKYRGVARHHHNGRWEARIGRVF 167 (348)
Q Consensus 92 AYD~aa~~~~G~~a---~~NFp~~~-y~~el~~l~~~s~eE~i~sLRr~s~g~~~~~S~yrGV~~~~~~gkW~A~I~~~~ 167 (348)
++-+.+..|.|... ..++-..+ .+..+..|+-++..|......+... . ..++||.+ ...++|.+.|. .
T Consensus 55 vHrlVa~~f~~~~~~~~~v~H~dg~k~nn~~~NL~~~t~~eN~~~~~~~~~---~--~~~~g~~~-~~~~k~~~vi~--~ 126 (174)
T 1u3e_M 55 VHRLVAIHFCEGYEEGLVVDHKDGNKDNNLSTNLRWVTQKINVENQMSRGT---L--NVSKAQQI-AKIKNQKPIIV--I 126 (174)
T ss_dssp HHHHHHHHHCTTCCTTCEEEETTSCTTCCCGGGEEEECHHHHHHHHHHHTC---C--CCHHHHHH-HHHHTCCCEEE--E
T ss_pred eHHHHHHHhcCCCCCCCEEEcCCCCCCCCCHHHcEECCHHHHhhcccccCc---c--cceeeeee-ccCCCCceEEE--E
Confidence 34455666666532 22332211 2234666777777776554332220 1 12468866 55678999986 4
Q ss_pred CCeEEeecCCCCHHHHHHHHH
Q 018990 168 GNKYLYLGTYATQEEAAQAYD 188 (348)
Q Consensus 168 ~~k~~~LGtf~t~eeAA~AYD 188 (348)
. +..+||.|+|.+|||++|.
T Consensus 127 ~-~~~~~~~f~s~~eAa~~~G 146 (174)
T 1u3e_M 127 S-PDGIEKEYPSTKCACEELG 146 (174)
T ss_dssp C-TTSCEEEESCHHHHHHHHT
T ss_pred c-CCceEEeeCCHHHHHHHHC
Confidence 4 5678999999999999964
No 6
>1u3e_M HNH homing endonuclease; HNH catalytic motif, helix-turn-helix DNA binding domain, PR complex, DNA binding protein-DNA complex; 2.92A {Bacillus phage SPO1} SCOP: d.4.1.3 d.285.1.1
Probab=60.66 E-value=2 Score=36.94 Aligned_cols=37 Identities=5% Similarity=-0.059 Sum_probs=25.1
Q ss_pred eEEeEEcCCCCeeEEEEecCcccccccccCCcEEecccCCCHHHHHHHH
Q 018990 45 YRGVTRHRWTGRYEAHLWDKNCWNESQNKKGRQVYLGAYDNEEAAARAY 93 (348)
Q Consensus 45 yrGV~~~~~~grw~A~I~~~~~w~~~~~~~gk~i~LG~f~teeeAA~AY 93 (348)
++||.+ ...++|.+.| .++ +.++||.|++.+|||++|
T Consensus 109 ~~g~~~-~~~~k~~~vi----------~~~-~~~~~~~f~s~~eAa~~~ 145 (174)
T 1u3e_M 109 SKAQQI-AKIKNQKPII----------VIS-PDGIEKEYPSTKCACEEL 145 (174)
T ss_dssp HHHHHH-HHHHTCCCEE----------EEC-TTSCEEEESCHHHHHHHH
T ss_pred eeeeee-ccCCCCceEE----------EEc-CCceEEeeCCHHHHHHHH
Confidence 355654 2234566665 344 556789999999999986
No 7
>3eik_A Tata-box-binding protein; DNA-binding, initiation factor, nucleus, transcription; 1.90A {Encephalitozoon cuniculi} PDB: 3oci_A 3oc3_C
Probab=40.20 E-value=67 Score=28.88 Aligned_cols=132 Identities=14% Similarity=0.109 Sum_probs=77.9
Q ss_pred CeEEeEEcCCCCeeEEEEecCcccccccccCCcEEecccCCCHHHHHHHHHHHHHhhcCCccccCCCCcchhHH-HHH--
Q 018990 44 IYRGVTRHRWTGRYEAHLWDKNCWNESQNKKGRQVYLGAYDNEEAAARAYDLAALKYWGHDTILNFPLSNYEEE-LVE-- 120 (348)
Q Consensus 44 ~yrGV~~~~~~grw~A~I~~~~~w~~~~~~~gk~i~LG~f~teeeAA~AYD~aa~~~~G~~a~~NFp~~~y~~e-l~~-- 120 (348)
+|-||..+-..-+-.+-|| ..||-+-.|. .++++|..|.++.+..+....-...|+ ++... +-.
T Consensus 76 ~Fpglv~Rl~~Pk~t~LIF----------~SGKiV~TGA-kS~e~a~~A~~ki~~~L~~lG~~v~~~--~fkIqNIvas~ 142 (218)
T 3eik_A 76 RFAAVIMRIREPKTTALIF----------ASGKMVITGA-KSEKSSRMAAQRYAKIIHKLGFNATFD--DFKIQNIVSSC 142 (218)
T ss_dssp TCSSEEEEETTTTEEEEEC----------TTSEEEEEEE-SSHHHHHHHHHHHHHHHHHTTCCCCCE--EEEEEEEEEEE
T ss_pred cCceEEEEecCCcEEEEEE----------CCCeEEEEec-CCHHHHHHHHHHHHHHHHHcCCCcccc--cceEEEEEEEE
Confidence 6888887777778888887 4578887775 568999999998887764322112221 00000 000
Q ss_pred -h-hccchhhhhcccccccCCccCCccccccccccccCceeeeeeccccCCeEEeecCCCCHHHHHHHHHHHHHHh
Q 018990 121 -M-EGQSKEEYIGSLRRKSSGFSRGVSKYRGVARHHHNGRWEARIGRVFGNKYLYLGTYATQEEAAQAYDRAAIEY 194 (348)
Q Consensus 121 -l-~~~s~eE~i~sLRr~s~g~~~~~S~yrGV~~~~~~gkW~A~I~~~~~~k~~~LGtf~t~eeAA~AYD~aa~~~ 194 (348)
+ -.+..+.+....+... .-....|.||.++-..-|=..-|- ..||-+..|. .+++|+..|++..--.|
T Consensus 143 dl~f~I~Le~la~~~~~~~---~YEPE~fPGliyR~~~pkvt~lIF--~SGKiviTGa-ks~~d~~~A~~~I~p~L 212 (218)
T 3eik_A 143 DIKFSIRLEGLAYAHSNYC---SYEPELFPGLIYRMVKPKIVLLIF--VSGKIVLTGA-KVRDDIYQAFNNIYPVL 212 (218)
T ss_dssp ECSSCBCHHHHHHHSTTTE---ECCTTTSSSEEEEETTTTEEEEEC--TTSEEEEEEE-SSHHHHHHHHHHHHHHH
T ss_pred ECCCcCcHHHHHHhccCCc---EECCccCceEEEEcCCCCEEEEEe--CCCeEEEEec-CCHHHHHHHHHHHHHHH
Confidence 0 0111112111111111 123456888866555556667774 5778777776 78999999998765443
No 8
>1z1b_A Integrase; protein-DNA complex, DNA binding protein/DNA complex; HET: PTR; 3.80A {Enterobacteria phage lambda} SCOP: d.10.1.4 d.163.1.1 PDB: 1z1g_A 1kjk_A 2wcc_3*
Probab=38.87 E-value=35 Score=31.01 Aligned_cols=42 Identities=24% Similarity=0.136 Sum_probs=30.1
Q ss_pred ccccccccCceeeeeeccccCCeEEeecCCCCHHHHHHHHHHHHHHh
Q 018990 148 RGVARHHHNGRWEARIGRVFGNKYLYLGTYATQEEAAQAYDRAAIEY 194 (348)
Q Consensus 148 rGV~~~~~~gkW~A~I~~~~~~k~~~LGtf~t~eeAA~AYD~aa~~~ 194 (348)
.|| +.+..|.|+.++. .+|+++.+|. |..||..+...+...+
T Consensus 14 ~~v-~~~~~g~~~~r~~--~~gk~~~~g~--t~~eA~~~a~~~~~~~ 55 (356)
T 1z1b_A 14 PNL-YIRNNGYYCYRDP--RTGKEFGLGR--DRRIAITEAIQANIEL 55 (356)
T ss_dssp TTE-EEETTTEEEEECT--TTCCEEEEES--CHHHHHHHHHHHHHHH
T ss_pred ccc-eecCCCeEEEEee--cCCeEEECCC--CHHHHHHHHHHHHHHH
Confidence 466 3456789988875 5788899996 8888877766554444
No 9
>1ais_A TBP, protein (tata-binding protein); hyperthermophIle, ribosome binding, complex (ribosome binding/ DNA); HET: DNA 5IU; 2.10A {Pyrococcus woesei} SCOP: d.129.1.1 d.129.1.1 PDB: 1d3u_A* 1pcz_A
Probab=31.40 E-value=1.3e+02 Score=26.05 Aligned_cols=134 Identities=13% Similarity=0.053 Sum_probs=74.6
Q ss_pred CCeEEeEEcCCCCeeEEEEecCcccccccccCCcEEecccCCCHHHHHHHHHHHHHhhcCCcc----ccCCCCcchhHHH
Q 018990 43 SIYRGVTRHRWTGRYEAHLWDKNCWNESQNKKGRQVYLGAYDNEEAAARAYDLAALKYWGHDT----ILNFPLSNYEEEL 118 (348)
Q Consensus 43 S~yrGV~~~~~~grw~A~I~~~~~w~~~~~~~gk~i~LG~f~teeeAA~AYD~aa~~~~G~~a----~~NFp~~~y~~el 118 (348)
.+|-||..+-..-+-.+-|| ..||-+--| ..++++|..|..+.+..+....- ..||....--...
T Consensus 41 ~~fpgli~Rl~~P~~t~lIF----------~SGKiv~TG-akS~~~~~~a~~~i~~~L~~lG~~~~~~~~~~I~NIVas~ 109 (182)
T 1ais_A 41 EEFPGIICHLDDPKVALLIF----------SSGKLVVTG-AKSVQDIERAVAKLAQKLKSIGVKFKRAPQIDVQNMVFSG 109 (182)
T ss_dssp TTCSSEEEECSSSCCEEEEC----------TTSEEEEEE-ESSHHHHHHHHHHHHHHHHHTTCCCSSSCEEEEEEEEEEE
T ss_pred CccccEEEEcCCCcEEEEEe----------CCCeEEEec-CCCHHHHHHHHHHHHHHHHHcCCCcccccceEEEEEEEEE
Confidence 36888988877677788887 446766666 46788999988887766532211 1122110000000
Q ss_pred HHhhccchhhhhcccccccCCccCCccccccccccccCceeeeeeccccCCeEEeecCCCCHHHHHHHHHHHHHHh
Q 018990 119 VEMEGQSKEEYIGSLRRKSSGFSRGVSKYRGVARHHHNGRWEARIGRVFGNKYLYLGTYATQEEAAQAYDRAAIEY 194 (348)
Q Consensus 119 ~~l~~~s~eE~i~sLRr~s~g~~~~~S~yrGV~~~~~~gkW~A~I~~~~~~k~~~LGtf~t~eeAA~AYD~aa~~~ 194 (348)
.--..+..+++...++ .+ .-....|.||.++-..-+-.+-|. ..||-+..|. .++||+..|.+.....+
T Consensus 110 ~l~~~i~L~~la~~~~-~~---~YePe~fpgli~R~~~pk~~~lIF--~SGKiviTGa-ks~~~~~~a~~~i~~~L 178 (182)
T 1ais_A 110 DIGREFNLDVVALTLP-NC---EYEPEQFPGVIYRVKEPKSVILLF--SSGKIVCSGA-KSEADAWEAVRKLLREL 178 (182)
T ss_dssp ECSSCCCHHHHHHHST-TE---ECCTTTCSSEEEEETTTTEEEEEC--TTSEEEEEEE-SSHHHHHHHHHHHHHHH
T ss_pred EcCCccCHHHHHhhCC-CC---EECCccCceEEEEeCCCcEEEEEe--cCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 0000111111111111 11 223457888865555556677774 5677776665 57889999988766554
No 10
>1z1b_A Integrase; protein-DNA complex, DNA binding protein/DNA complex; HET: PTR; 3.80A {Enterobacteria phage lambda} SCOP: d.10.1.4 d.163.1.1 PDB: 1z1g_A 1kjk_A 2wcc_3*
Probab=28.63 E-value=73 Score=28.80 Aligned_cols=41 Identities=17% Similarity=0.200 Sum_probs=27.8
Q ss_pred EeEEcCCCCeeEEEEecCcccccccccCCcEEecccCCCHHHHHHHHHHHHHhh
Q 018990 47 GVTRHRWTGRYEAHLWDKNCWNESQNKKGRQVYLGAYDNEEAAARAYDLAALKY 100 (348)
Q Consensus 47 GV~~~~~~grw~A~I~~~~~w~~~~~~~gk~i~LG~f~teeeAA~AYD~aa~~~ 100 (348)
||++++ .|.|..+. ..+||++.+|. |..||-.+...+...+
T Consensus 15 ~v~~~~-~g~~~~r~----------~~~gk~~~~g~--t~~eA~~~a~~~~~~~ 55 (356)
T 1z1b_A 15 NLYIRN-NGYYCYRD----------PRTGKEFGLGR--DRRIAITEAIQANIEL 55 (356)
T ss_dssp TEEEET-TTEEEEEC----------TTTCCEEEEES--CHHHHHHHHHHHHHHH
T ss_pred cceecC-CCeEEEEe----------ecCCeEEECCC--CHHHHHHHHHHHHHHH
Confidence 465554 47888665 35788999996 8888777665554444
Done!