Query 041119
Match_columns 278
No_of_seqs 260 out of 1312
Neff 4.3
Searched_HMMs 29240
Date Mon Mar 25 06:10:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041119.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/041119hhsearch_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 1.2E-24 4E-29 161.0 5.8 60 60-119 2-62 (63)
2 1u3e_M HNH homing endonuclease 97.8 9.8E-08 3.3E-12 81.1 -8.6 76 22-101 71-146 (174)
3 3igm_B PF14_0633 protein; AP2 88.1 0.28 9.6E-06 37.5 2.6 28 56-85 3-31 (77)
4 1z1b_A Integrase; protein-DNA 77.5 2.3 7.8E-05 37.2 4.5 40 62-105 14-53 (356)
5 3jtz_A Integrase; four strande 77.2 4.4 0.00015 30.8 5.5 44 64-107 28-75 (88)
6 3ju0_A Phage integrase; four s 63.8 11 0.00036 29.7 5.1 48 64-111 28-80 (108)
7 1b69_A Protein (integrase); in 33.7 43 0.0015 24.8 3.8 22 58-79 9-30 (69)
8 1x60_A Sporulation-specific N- 31.3 24 0.00081 25.1 2.0 23 83-105 46-68 (79)
9 2ftc_I Mitochondrial ribosomal 29.2 72 0.0024 25.5 4.7 37 71-109 79-115 (118)
10 1uta_A FTSN, MSGA, cell divisi 28.8 52 0.0018 23.6 3.5 32 74-105 37-68 (81)
11 2bn8_A CEDA, cell division act 20.8 41 0.0014 25.6 1.7 41 57-100 36-76 (87)
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=99.90 E-value=1.2e-24 Score=160.99 Aligned_cols=60 Identities=57% Similarity=0.983 Sum_probs=57.0
Q ss_pred ceeEEEeCCCCcEEEEEecCCC-CeEeecCCCCCHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q 041119 60 VYRGVRMRAWGKWVSEIREPRK-KSRIWLGTFSTPEMAARAHDVAALSIKGASAILNFPKL 119 (278)
Q Consensus 60 ~YRGVr~r~~GKW~AeI~~~~~-~kri~LGtFdT~EeAArAYD~AAikl~G~~A~lNFP~~ 119 (278)
+||||+++++|||+|+|+++.+ ++++|||+|+|+||||+|||+|+++++|..+.+|||+.
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 5999999999999999999874 79999999999999999999999999999999999974
No 2
>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=97.83 E-value=9.8e-08 Score=81.07 Aligned_cols=76 Identities=5% Similarity=-0.064 Sum_probs=59.6
Q ss_pred CCCCCCCCCCCCCCCCCCCCCchHhhccCCCCCCCCCCceeEEEeCCCCcEEEEEecCCCCeEeecCCCCCHHHHHHHHH
Q 041119 22 SLTNPPTGKPVTSDPDPTPTPDAAKKQKKRPRDDSKHPVYRGVRMRAWGKWVSEIREPRKKSRIWLGTFSTPEMAARAHD 101 (278)
Q Consensus 22 sl~~~~tG~p~dNr~~NlR~~t~~~n~rnr~~~s~~~S~YRGVr~r~~GKW~AeI~~~~~~kri~LGtFdT~EeAArAYD 101 (278)
-.++|..|++.+|+++||+.+++.+|.+++...... ..++||...+.++|.+.|.. + +.++||.|++.+|||++|.
T Consensus 71 ~~v~H~dg~k~nn~~~NL~~~t~~eN~~~~~~~~~~-~~~~g~~~~~~~k~~~vi~~--~-~~~~~~~f~s~~eAa~~~G 146 (174)
T 1u3e_M 71 LVVDHKDGNKDNNLSTNLRWVTQKINVENQMSRGTL-NVSKAQQIAKIKNQKPIIVI--S-PDGIEKEYPSTKCACEELG 146 (174)
T ss_dssp CEEEETTSCTTCCCGGGEEEECHHHHHHHHHHHTCC-CCHHHHHHHHHHTCCCEEEE--C-TTSCEEEESCHHHHHHHHT
T ss_pred CEEEcCCCCCCCCCHHHcEECCHHHHhhcccccCcc-cceeeeeeccCCCCceEEEE--c-CCceEEeeCCHHHHHHHHC
Confidence 478899999999999999999999998776543322 12467754334678899988 4 5678999999999999964
No 3
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=88.11 E-value=0.28 Score=37.54 Aligned_cols=28 Identities=21% Similarity=0.304 Sum_probs=21.7
Q ss_pred CCCCceeEEEeC-CCCcEEEEEecCCCCeEe
Q 041119 56 SKHPVYRGVRMR-AWGKWVSEIREPRKKSRI 85 (278)
Q Consensus 56 ~~~S~YRGVr~r-~~GKW~AeI~~~~~~kri 85 (278)
..+|+|+||.+. +.+.|.|.-.+ +|+|.
T Consensus 3 ~~~Sg~pGVsw~kR~~~WlA~W~e--~g~rr 31 (77)
T 3igm_B 3 HMSSGYPGVSWNKRMCAWLAFFYD--GASRR 31 (77)
T ss_dssp -CCSSSTTEEEETTTTEEEEEEEE--TTEEE
T ss_pred CCCCCCCcEEeecCCceEEEEEec--CCeEe
Confidence 457899999886 57999999998 56543
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=77.54 E-value=2.3 Score=37.20 Aligned_cols=40 Identities=15% Similarity=0.125 Sum_probs=29.2
Q ss_pred eEEEeCCCCcEEEEEecCCCCeEeecCCCCCHHHHHHHHHHHHH
Q 041119 62 RGVRMRAWGKWVSEIREPRKKSRIWLGTFSTPEMAARAHDVAAL 105 (278)
Q Consensus 62 RGVr~r~~GKW~AeI~~~~~~kri~LGtFdT~EeAArAYD~AAi 105 (278)
.||+.++.|+|+.++.. +||++.+|. |..||..+...+..
T Consensus 14 ~~v~~~~~g~~~~r~~~--~gk~~~~g~--t~~eA~~~a~~~~~ 53 (356)
T 1z1b_A 14 PNLYIRNNGYYCYRDPR--TGKEFGLGR--DRRIAITEAIQANI 53 (356)
T ss_dssp TTEEEETTTEEEEECTT--TCCEEEEES--CHHHHHHHHHHHHH
T ss_pred ccceecCCCeEEEEeec--CCeEEECCC--CHHHHHHHHHHHHH
Confidence 35777777899887655 778899996 88888766555433
No 5
>3jtz_A Integrase; four stranded beta-sheet, DNA binding protein; 1.30A {Yersinia pestis} PDB: 3rmp_A
Probab=77.25 E-value=4.4 Score=30.77 Aligned_cols=44 Identities=23% Similarity=0.351 Sum_probs=31.8
Q ss_pred EEeCCCC--cEEEEEecCCCCeEeecCCCC--CHHHHHHHHHHHHHHh
Q 041119 64 VRMRAWG--KWVSEIREPRKKSRIWLGTFS--TPEMAARAHDVAALSI 107 (278)
Q Consensus 64 Vr~r~~G--KW~AeI~~~~~~kri~LGtFd--T~EeAArAYD~AAikl 107 (278)
|+..+.| .|+-+.+..++.+++-||.|+ |.++|....+.+...+
T Consensus 28 L~V~psG~K~w~~ryr~~Gk~~~~~LG~yp~~sL~~AR~~a~~~r~~l 75 (88)
T 3jtz_A 28 LLVKPGGSRHWYLKYRISGKESRIALGAYPAISLSDARQQREGIRKML 75 (88)
T ss_dssp EEECTTSCEEEEEEEEETTEEEEEEEEETTTSCHHHHHHHHHHHHHHH
T ss_pred EEEecCCCEEEEEEEEeCCeEEEEEeECCCCCCHHHHHHHHHHHHHHH
Confidence 4555554 499888875566789999997 5888887777665555
No 6
>3ju0_A Phage integrase; four stranded beta-sheet, DNA binding protein; 1.60A {Pectobacterium atrosepticum}
Probab=63.80 E-value=11 Score=29.75 Aligned_cols=48 Identities=21% Similarity=0.293 Sum_probs=32.5
Q ss_pred EEeCCCC--cEEEEEecCCCCeEeecCCCC--CHHHHHHHHHHHHHHh-cCCC
Q 041119 64 VRMRAWG--KWVSEIREPRKKSRIWLGTFS--TPEMAARAHDVAALSI-KGAS 111 (278)
Q Consensus 64 Vr~r~~G--KW~AeI~~~~~~kri~LGtFd--T~EeAArAYD~AAikl-~G~~ 111 (278)
|+..+.| .|+-+.+..++.+++-||.|+ |..+|....+.+...+ .|.+
T Consensus 28 L~V~psG~K~w~~rYr~~GK~~~~~LG~yp~~SLa~AR~~a~~~r~~l~~GiD 80 (108)
T 3ju0_A 28 LLVHPNGSKYWRLSYRFEKKQRLLALGVYPAVSLADARQRRDEAKKLLAAGID 80 (108)
T ss_dssp EEECTTSCEEEEEEEEETTEEEEEEEEEETTSCHHHHHHHHHHHHHHHHTTCC
T ss_pred EEEEcCCCEEEEEEEEEcCceEEEecCCCCCCCHHHHHHHHHHHHHHHHcCCC
Confidence 4555555 499888875556778999997 5778777766655544 3443
No 7
>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=33.67 E-value=43 Score=24.83 Aligned_cols=22 Identities=14% Similarity=0.223 Sum_probs=18.6
Q ss_pred CCceeEEEeCCCCcEEEEEecC
Q 041119 58 HPVYRGVRMRAWGKWVSEIREP 79 (278)
Q Consensus 58 ~S~YRGVr~r~~GKW~AeI~~~ 79 (278)
..-+.|+.+|..|+|+.++.+.
T Consensus 9 r~L~~GesqR~dG~Y~yry~d~ 30 (69)
T 1b69_A 9 RILKTGESQRKDGRYLYKYIDS 30 (69)
T ss_dssp SCCCTTEEECSSSCEEEEEECT
T ss_pred CccCCCeEEccCCcEEEEEEcC
Confidence 4457899999999999999885
No 8
>1x60_A Sporulation-specific N-acetylmuramoyl-L-alanine amidase; CWLC, CWLCR, peptidoglycan, cell WALL lytic amidase, tandem repeats, hydrolase; NMR {Bacillus subtilis}
Probab=31.34 E-value=24 Score=25.07 Aligned_cols=23 Identities=22% Similarity=0.268 Sum_probs=18.6
Q ss_pred eEeecCCCCCHHHHHHHHHHHHH
Q 041119 83 SRIWLGTFSTPEMAARAHDVAAL 105 (278)
Q Consensus 83 kri~LGtFdT~EeAArAYD~AAi 105 (278)
-|+++|-|.+.++|.++-++...
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 58899999999999988665443
No 9
>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=29.17 E-value=72 Score=25.53 Aligned_cols=37 Identities=14% Similarity=0.090 Sum_probs=30.3
Q ss_pred cEEEEEecCCCCeEeecCCCCCHHHHHHHHHHHHHHhcC
Q 041119 71 KWVSEIREPRKKSRIWLGTFSTPEMAARAHDVAALSIKG 109 (278)
Q Consensus 71 KW~AeI~~~~~~kri~LGtFdT~EeAArAYD~AAikl~G 109 (278)
.|+|+|.. +..-+-++...+++.|..|...|+.+|-+
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 39999997 66666677668899999999999988744
No 10
>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=28.79 E-value=52 Score=23.58 Aligned_cols=32 Identities=19% Similarity=0.204 Sum_probs=21.8
Q ss_pred EEEecCCCCeEeecCCCCCHHHHHHHHHHHHH
Q 041119 74 SEIREPRKKSRIWLGTFSTPEMAARAHDVAAL 105 (278)
Q Consensus 74 AeI~~~~~~kri~LGtFdT~EeAArAYD~AAi 105 (278)
+.|.....--|+.+|-|.+.++|.++-++...
T Consensus 37 a~i~~~~~~yRV~vGpf~s~~~A~~~~~~L~~ 68 (81)
T 1uta_A 37 SKITTNNGWNRVVIGPVKGKENADSTLNRLKM 68 (81)
T ss_dssp EEEEECSSSEEEEESSCBTTTHHHHHHHHHHH
T ss_pred eEEEeCCcEEEEEECCcCCHHHHHHHHHHHHH
Confidence 34433223458999999999999888665443
No 11
>2bn8_A CEDA, cell division activator CEDA; cell division activator protein, cell cycle protein; NMR {Escherichia coli} PDB: 2d35_A
Probab=20.83 E-value=41 Score=25.64 Aligned_cols=41 Identities=32% Similarity=0.366 Sum_probs=28.3
Q ss_pred CCCceeEEEeCCCCcEEEEEecCCCCeEeecCCCCCHHHHHHHH
Q 041119 57 KHPVYRGVRMRAWGKWVSEIREPRKKSRIWLGTFSTPEMAARAH 100 (278)
Q Consensus 57 ~~S~YRGVr~r~~GKW~AeI~~~~~~kri~LGtFdT~EeAArAY 100 (278)
+--+||-|+.-+ |||+|.+.. +..-.---.|..+|.|.|--
T Consensus 36 kmd~frdvw~lr-gkyvafvl~--ge~frrspafsvpesaqrwa 76 (87)
T 2bn8_A 36 KMDSFRDVWMLR-GKYVAFVLM--GESFLRSPAFTVPESAQRWA 76 (87)
T ss_dssp CTTTCTTEEEET-TEEEEBCCS--SSCCCBCCCBSSHHHHHHHH
T ss_pred hcccchhheeec-cceEEEEEe--chhhccCCccCCcHHHHHHH
Confidence 345699998766 899999877 33222335788888887653
Done!