Query 039409
Match_columns 224
No_of_seqs 315 out of 1278
Neff 4.4
Searched_HMMs 29240
Date Mon Mar 25 15:59:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039409.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/039409hhsearch_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 99.9 7E-27 2.4E-31 167.9 5.8 61 84-144 2-62 (63)
2 3igm_B PF14_0633 protein; AP2 90.2 0.17 6E-06 37.5 2.7 29 80-111 3-32 (77)
3 1u3e_M HNH homing endonuclease 79.1 0.26 9E-06 39.9 -1.0 38 85-126 109-146 (174)
4 1z1b_A Integrase; protein-DNA 74.2 2.7 9.4E-05 35.4 3.9 41 87-132 15-55 (356)
5 1b69_A Protein (integrase); in 42.2 31 0.001 24.8 4.0 29 81-111 8-36 (69)
6 1x60_A Sporulation-specific N- 39.0 15 0.00052 25.2 2.0 23 108-130 46-68 (79)
7 1uta_A FTSN, MSGA, cell divisi 31.9 23 0.00077 24.7 2.0 23 108-130 46-68 (81)
8 3jtz_A Integrase; four strande 28.3 1.4E+02 0.0046 21.5 5.7 44 88-132 28-75 (88)
9 3bid_A UPF0339 protein NMB1088 24.5 1.6E+02 0.0056 20.3 5.3 36 88-125 5-41 (64)
10 2ftc_I Mitochondrial ribosomal 22.8 1E+02 0.0034 23.8 4.3 36 95-134 79-115 (118)
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=99.93 E-value=7e-27 Score=167.89 Aligned_cols=61 Identities=74% Similarity=1.314 Sum_probs=58.5
Q ss_pred ceeEeEeCCCCcEEEEEeeCCCCCeEEeecCCCcHHHHHHHHHHHHHhccCCCCCCCCChh
Q 039409 84 SYRGVRRRPWGKFAAEIRDSTRHGIRVWLGTFDSAEAAALAYDQAAFSMRGSSAILNFPVE 144 (224)
Q Consensus 84 ~yRGVr~r~~GKW~A~I~~~~~~Gkrv~LGtFdT~EeAArAYD~AA~~~~G~~A~lNFP~~ 144 (224)
+||||++++||||+|+|+++.++|+++|||+|+|+||||+|||.|+++++|..|.||||.+
T Consensus 2 ~yrGV~~r~~gkw~A~I~~~~~~g~r~~LGtf~T~eeAA~AyD~Aa~~~~G~~a~~NFp~~ 62 (63)
T 1gcc_A 2 HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLR 62 (63)
T ss_dssp CCTTEEEETTTEEEEEEEETTTTSEEEEEEEESSHHHHHHHHHHHHHHHHSSCCCCSSCTT
T ss_pred CcccEeeCCCCcEEEEEccccCCCeEEEeeeCCCHHHHHHHHHHHHHHhcCcccccCCCCc
Confidence 6999999999999999999877799999999999999999999999999999999999974
No 2
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=90.16 E-value=0.17 Score=37.47 Aligned_cols=29 Identities=21% Similarity=0.132 Sum_probs=22.9
Q ss_pred CCCCceeEeEeCCC-CcEEEEEeeCCCCCeEEe
Q 039409 80 TKEKSYRGVRRRPW-GKFAAEIRDSTRHGIRVW 111 (224)
Q Consensus 80 ~~~S~yRGVr~r~~-GKW~A~I~~~~~~Gkrv~ 111 (224)
..+|+|.||++.+. +.|.|.-.+ +|++..
T Consensus 3 ~~~Sg~pGVsw~kR~~~WlA~W~e---~g~rrs 32 (77)
T 3igm_B 3 HMSSGYPGVSWNKRMCAWLAFFYD---GASRRS 32 (77)
T ss_dssp -CCSSSTTEEEETTTTEEEEEEEE---TTEEEE
T ss_pred CCCCCCCcEEeecCCceEEEEEec---CCeEee
Confidence 35799999999884 999999988 466543
No 3
>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=79.13 E-value=0.26 Score=39.89 Aligned_cols=38 Identities=11% Similarity=-0.105 Sum_probs=28.5
Q ss_pred eeEeEeCCCCcEEEEEeeCCCCCeEEeecCCCcHHHHHHHHH
Q 039409 85 YRGVRRRPWGKFAAEIRDSTRHGIRVWLGTFDSAEAAALAYD 126 (224)
Q Consensus 85 yRGVr~r~~GKW~A~I~~~~~~Gkrv~LGtFdT~EeAArAYD 126 (224)
++||.+...++|.|.|... +.++||.|+|.+|||++|.
T Consensus 109 ~~g~~~~~~~k~~~vi~~~----~~~~~~~f~s~~eAa~~~G 146 (174)
T 1u3e_M 109 SKAQQIAKIKNQKPIIVIS----PDGIEKEYPSTKCACEELG 146 (174)
T ss_dssp HHHHHHHHHHTCCCEEEEC----TTSCEEEESCHHHHHHHHT
T ss_pred eeeeeeccCCCCceEEEEc----CCceEEeeCCHHHHHHHHC
Confidence 4677552246799999883 3467899999999999864
No 4
>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=74.23 E-value=2.7 Score=35.43 Aligned_cols=41 Identities=20% Similarity=0.126 Sum_probs=30.4
Q ss_pred EeEeCCCCcEEEEEeeCCCCCeEEeecCCCcHHHHHHHHHHHHHhc
Q 039409 87 GVRRRPWGKFAAEIRDSTRHGIRVWLGTFDSAEAAALAYDQAAFSM 132 (224)
Q Consensus 87 GVr~r~~GKW~A~I~~~~~~Gkrv~LGtFdT~EeAArAYD~AA~~~ 132 (224)
||++++.|.|..+... +|+++.+|. |..||..+...+...+
T Consensus 15 ~v~~~~~g~~~~r~~~---~gk~~~~g~--t~~eA~~~a~~~~~~~ 55 (356)
T 1z1b_A 15 NLYIRNNGYYCYRDPR---TGKEFGLGR--DRRIAITEAIQANIEL 55 (356)
T ss_dssp TEEEETTTEEEEECTT---TCCEEEEES--CHHHHHHHHHHHHHHH
T ss_pred cceecCCCeEEEEeec---CCeEEECCC--CHHHHHHHHHHHHHHH
Confidence 5777788999987654 588999996 8888877666554444
No 5
>1b69_A Protein (integrase); integrase, DNA binding, transposition, complex, beta-sheet recognition; HET: DNA; NMR {Enterococcus faecalis} SCOP: d.10.1.1 PDB: 1tn9_A* 1bb8_A 2bb8_A
Probab=42.17 E-value=31 Score=24.78 Aligned_cols=29 Identities=21% Similarity=0.217 Sum_probs=22.7
Q ss_pred CCCceeEeEeCCCCcEEEEEeeCCCCCeEEe
Q 039409 81 KEKSYRGVRRRPWGKFAAEIRDSTRHGIRVW 111 (224)
Q Consensus 81 ~~S~yRGVr~r~~GKW~A~I~~~~~~Gkrv~ 111 (224)
+..-+.|+++++.|+|++.+.+. .|++.+
T Consensus 8 gr~L~~GesqR~dG~Y~yry~d~--~Gkr~~ 36 (69)
T 1b69_A 8 GRILKTGESQRKDGRYLYKYIDS--FGEPQF 36 (69)
T ss_dssp SSCCCTTEEECSSSCEEEEEECT--TSSEEE
T ss_pred CCccCCCeEEccCCcEEEEEEcC--CCCEEE
Confidence 34567899999999999999986 466544
No 6
>1x60_A Sporulation-specific N-acetylmuramoyl-L-alanine amidase; CWLC, CWLCR, peptidoglycan, cell WALL lytic amidase, tandem repeats, hydrolase; NMR {Bacillus subtilis}
Probab=39.04 E-value=15 Score=25.21 Aligned_cols=23 Identities=26% Similarity=0.319 Sum_probs=18.8
Q ss_pred eEEeecCCCcHHHHHHHHHHHHH
Q 039409 108 IRVWLGTFDSAEAAALAYDQAAF 130 (224)
Q Consensus 108 krv~LGtFdT~EeAArAYD~AA~ 130 (224)
-||++|.|.+.++|..+-++...
T Consensus 46 yRV~vGpf~~~~~A~~~~~~L~~ 68 (79)
T 1x60_A 46 YKVQIGAFSSKDNADTLAARAKN 68 (79)
T ss_dssp EEEEEEEESSHHHHHHHHHHHHH
T ss_pred EEEEECCcCCHHHHHHHHHHHHH
Confidence 57999999999999888766443
No 7
>1uta_A FTSN, MSGA, cell division protein FTSN; bacterial cell division protein, RNP domain, transmembrane, inner membrane, repeat; NMR {Escherichia coli} SCOP: d.58.52.1
Probab=31.92 E-value=23 Score=24.66 Aligned_cols=23 Identities=22% Similarity=0.297 Sum_probs=18.8
Q ss_pred eEEeecCCCcHHHHHHHHHHHHH
Q 039409 108 IRVWLGTFDSAEAAALAYDQAAF 130 (224)
Q Consensus 108 krv~LGtFdT~EeAArAYD~AA~ 130 (224)
-||.+|.|.+.++|..+-++...
T Consensus 46 yRV~vGpf~s~~~A~~~~~~L~~ 68 (81)
T 1uta_A 46 NRVVIGPVKGKENADSTLNRLKM 68 (81)
T ss_dssp EEEEESSCBTTTHHHHHHHHHHH
T ss_pred EEEEECCcCCHHHHHHHHHHHHH
Confidence 57999999999999888666443
No 8
>3jtz_A Integrase; four stranded beta-sheet, DNA binding protein; 1.30A {Yersinia pestis} PDB: 3rmp_A
Probab=28.26 E-value=1.4e+02 Score=21.55 Aligned_cols=44 Identities=20% Similarity=0.223 Sum_probs=28.6
Q ss_pred eEeCCCC--cEEEEEeeCCCCCeEEeecCCC--cHHHHHHHHHHHHHhc
Q 039409 88 VRRRPWG--KFAAEIRDSTRHGIRVWLGTFD--SAEAAALAYDQAAFSM 132 (224)
Q Consensus 88 Vr~r~~G--KW~A~I~~~~~~Gkrv~LGtFd--T~EeAArAYD~AA~~~ 132 (224)
|+-.+.| .|.-+.+.. .+-+++-||.|+ |.++|...-+.+...+
T Consensus 28 L~V~psG~K~w~~ryr~~-Gk~~~~~LG~yp~~sL~~AR~~a~~~r~~l 75 (88)
T 3jtz_A 28 LLVKPGGSRHWYLKYRIS-GKESRIALGAYPAISLSDARQQREGIRKML 75 (88)
T ss_dssp EEECTTSCEEEEEEEEET-TEEEEEEEEETTTSCHHHHHHHHHHHHHHH
T ss_pred EEEecCCCEEEEEEEEeC-CeEEEEEeECCCCCCHHHHHHHHHHHHHHH
Confidence 4445544 588888763 223568899998 4777777666665554
No 9
>3bid_A UPF0339 protein NMB1088; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.70A {Neisseria meningitidis MC58} SCOP: d.348.1.1
Probab=24.46 E-value=1.6e+02 Score=20.30 Aligned_cols=36 Identities=11% Similarity=0.215 Sum_probs=28.2
Q ss_pred eEeCCCCcEEEEEeeCCCCCeEEeecC-CCcHHHHHHHH
Q 039409 88 VRRRPWGKFAAEIRDSTRHGIRVWLGT-FDSAEAAALAY 125 (224)
Q Consensus 88 Vr~r~~GKW~A~I~~~~~~Gkrv~LGt-FdT~EeAArAY 125 (224)
|.+...|+|.-.+... ||.-|.-+- |.+..+|..+-
T Consensus 5 i~~~~~G~frfrLka~--NGevI~sSe~Y~sk~~a~~gI 41 (64)
T 3bid_A 5 IYKDAKGEYRWRLKAA--NHEIIAQGEGYTSKQNCQHAV 41 (64)
T ss_dssp EEECTTSCEEEEEECT--TSCEEEECCCBSCHHHHHHHH
T ss_pred EEECCCCCEEEEEEeC--CCCEEEECCCcCCHHHHHHHH
Confidence 4455679999999986 788887665 99998887663
No 10
>2ftc_I Mitochondrial ribosomal protein L16, 39S ribosomal protein L13, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_I
Probab=22.76 E-value=1e+02 Score=23.81 Aligned_cols=36 Identities=19% Similarity=0.147 Sum_probs=27.8
Q ss_pred cEEEEEeeCCCCCeEE-eecCCCcHHHHHHHHHHHHHhccC
Q 039409 95 KFAAEIRDSTRHGIRV-WLGTFDSAEAAALAYDQAAFSMRG 134 (224)
Q Consensus 95 KW~A~I~~~~~~Gkrv-~LGtFdT~EeAArAYD~AA~~~~G 134 (224)
-|+|.|.. |+-+ -++...+++.|-.|..+|+.++=+
T Consensus 79 ~wva~Vk~----G~ilfEi~g~~~~~~a~eAlr~a~~KlP~ 115 (118)
T 2ftc_I 79 HYVTPVKA----GRLVVEMGGRCEFEEVQGFLDQVAHKLPF 115 (118)
T ss_pred EEEEEECC----CCEEEEEeccCCHHHHHHHHHHHHhhCCC
Confidence 49999987 5543 455558899999999999998743
Done!