Query 047387
Match_columns 239
No_of_seqs 300 out of 1262
Neff 4.3
Searched_HMMs 29240
Date Mon Mar 25 18:40:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047387.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/047387hhsearch_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 9.2E-27 3.2E-31 168.8 6.5 61 108-168 2-62 (63)
2 3igm_B PF14_0633 protein; AP2 91.9 0.1 3.4E-06 39.2 2.9 29 104-135 3-32 (77)
3 1u3e_M HNH homing endonuclease 81.3 0.23 7.9E-06 40.6 -0.7 37 109-149 109-145 (174)
4 1z1b_A Integrase; protein-DNA 80.6 2.2 7.4E-05 36.4 5.2 41 111-156 15-55 (356)
5 1x60_A Sporulation-specific N- 40.6 16 0.00054 25.4 2.3 23 132-154 46-68 (79)
6 3jtz_A Integrase; four strande 33.2 96 0.0033 22.6 5.7 44 112-156 28-75 (88)
7 1b69_A Protein (integrase); in 33.0 46 0.0016 24.1 3.8 29 105-135 8-36 (69)
8 1uta_A FTSN, MSGA, cell divisi 29.3 24 0.00083 24.8 1.8 24 131-154 45-68 (81)
9 2ftc_I Mitochondrial ribosomal 27.4 93 0.0032 24.3 5.0 36 119-158 79-115 (118)
10 4a17_H RPL10, 60S ribosomal pr 21.1 1E+02 0.0035 26.8 4.4 53 120-176 125-187 (215)
11 3j0l_J Ribosomal protein L10; 21.0 1.2E+02 0.004 26.5 4.8 50 120-173 123-182 (219)
12 3r8s_M 50S ribosomal protein L 20.4 96 0.0033 24.9 3.9 34 120-158 92-126 (136)
13 1vq8_H 50S ribosomal protein L 20.1 79 0.0027 26.5 3.4 36 120-159 123-160 (171)
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=9.2e-27 Score=168.81 Aligned_cols=61 Identities=72% Similarity=1.310 Sum_probs=58.5
Q ss_pred ceeEEEeCCCCcEEEEeecCCCCCeEEeeccCCcHHHHHHHHHHHHHHccCCCCCCCCCch
Q 047387 108 SYRGVRRRPWGKYAAEIRDSTRNGVRVWIGTFDTAEAAALAYDQAAFAMRGTTAVLNFPVE 168 (239)
Q Consensus 108 ~YRGVr~r~~GKW~AeIr~~~~~Gkri~LGtFdT~EEAArAYD~AA~~~~G~~A~lNFp~~ 168 (239)
+||||++++||||+|+|+++.++|+++|||+|+|+||||+|||.|+++++|..|.+|||.+
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 6999999999999999999887799999999999999999999999999999999999974
No 2
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=91.89 E-value=0.1 Score=39.16 Aligned_cols=29 Identities=21% Similarity=0.137 Sum_probs=23.4
Q ss_pred CCCCceeEEEeCCC-CcEEEEeecCCCCCeEEe
Q 047387 104 LKEVSYRGVRRRPW-GKYAAEIRDSTRNGVRVW 135 (239)
Q Consensus 104 ~~~s~YRGVr~r~~-GKW~AeIr~~~~~Gkri~ 135 (239)
...|+|.||++.+. +.|.|.-.+ +|++..
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 35799999998876 999999998 576654
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=81.30 E-value=0.23 Score=40.65 Aligned_cols=37 Identities=5% Similarity=-0.111 Sum_probs=28.4
Q ss_pred eeEEEeCCCCcEEEEeecCCCCCeEEeeccCCcHHHHHHHH
Q 047387 109 YRGVRRRPWGKYAAEIRDSTRNGVRVWIGTFDTAEAAALAY 149 (239)
Q Consensus 109 YRGVr~r~~GKW~AeIr~~~~~Gkri~LGtFdT~EEAArAY 149 (239)
.+||.+...++|.|.|.. + +.++||.|+|.+|||++|
T Consensus 109 ~~g~~~~~~~k~~~vi~~---~-~~~~~~~f~s~~eAa~~~ 145 (174)
T 1u3e_M 109 SKAQQIAKIKNQKPIIVI---S-PDGIEKEYPSTKCACEEL 145 (174)
T ss_dssp HHHHHHHHHHTCCCEEEE---C-TTSCEEEESCHHHHHHHH
T ss_pred eeeeeeccCCCCceEEEE---c-CCceEEeeCCHHHHHHHH
Confidence 467765223678899987 3 456799999999999996
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=80.56 E-value=2.2 Score=36.41 Aligned_cols=41 Identities=20% Similarity=0.142 Sum_probs=31.1
Q ss_pred EEEeCCCCcEEEEeecCCCCCeEEeeccCCcHHHHHHHHHHHHHHc
Q 047387 111 GVRRRPWGKYAAEIRDSTRNGVRVWIGTFDTAEAAALAYDQAAFAM 156 (239)
Q Consensus 111 GVr~r~~GKW~AeIr~~~~~Gkri~LGtFdT~EEAArAYD~AA~~~ 156 (239)
||.+++.|.|..+... +|+++.+|. |..||..+...+...+
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 5777788999988764 688999996 8888877766655444
No 5
>1x60_A Sporulation-specific N-acetylmuramoyl-L-alanine amidase; CWLC, CWLCR, peptidoglycan, cell WALL lytic amidase, tandem repeats, hydrolase; NMR {Bacillus subtilis}
Probab=40.59 E-value=16 Score=25.38 Aligned_cols=23 Identities=26% Similarity=0.320 Sum_probs=19.1
Q ss_pred eEEeeccCCcHHHHHHHHHHHHH
Q 047387 132 VRVWIGTFDTAEAAALAYDQAAF 154 (239)
Q Consensus 132 kri~LGtFdT~EEAArAYD~AA~ 154 (239)
-||++|.|.+.++|..+-++...
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 58999999999999988766544
No 6
>3jtz_A Integrase; four stranded beta-sheet, DNA binding protein; 1.30A {Yersinia pestis} PDB: 3rmp_A
Probab=33.23 E-value=96 Score=22.63 Aligned_cols=44 Identities=14% Similarity=0.168 Sum_probs=28.8
Q ss_pred EEeCCC--CcEEEEeecCCCCCeEEeeccCC--cHHHHHHHHHHHHHHc
Q 047387 112 VRRRPW--GKYAAEIRDSTRNGVRVWIGTFD--TAEAAALAYDQAAFAM 156 (239)
Q Consensus 112 Vr~r~~--GKW~AeIr~~~~~Gkri~LGtFd--T~EEAArAYD~AA~~~ 156 (239)
|+-.+. ..|.-+.+.. ++-+++-||.|. |.++|...-+.+...+
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 444555 3488888762 233568899997 4777777666665554
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=33.05 E-value=46 Score=24.11 Aligned_cols=29 Identities=24% Similarity=0.282 Sum_probs=22.2
Q ss_pred CCCceeEEEeCCCCcEEEEeecCCCCCeEEe
Q 047387 105 KEVSYRGVRRRPWGKYAAEIRDSTRNGVRVW 135 (239)
Q Consensus 105 ~~s~YRGVr~r~~GKW~AeIr~~~~~Gkri~ 135 (239)
+..-+.|+++|+.|+|++++.+. .|++.+
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 34567899999999999999884 355544
No 8
>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=29.29 E-value=24 Score=24.76 Aligned_cols=24 Identities=25% Similarity=0.234 Sum_probs=19.5
Q ss_pred CeEEeeccCCcHHHHHHHHHHHHH
Q 047387 131 GVRVWIGTFDTAEAAALAYDQAAF 154 (239)
Q Consensus 131 Gkri~LGtFdT~EEAArAYD~AA~ 154 (239)
--||.+|.|.+.++|..+-++...
T Consensus 45 ~yRV~vGpf~s~~~A~~~~~~L~~ 68 (81)
T 1uta_A 45 WNRVVIGPVKGKENADSTLNRLKM 68 (81)
T ss_dssp SEEEEESSCBTTTHHHHHHHHHHH
T ss_pred EEEEEECCcCCHHHHHHHHHHHHH
Confidence 368999999999999988766554
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=27.43 E-value=93 Score=24.25 Aligned_cols=36 Identities=22% Similarity=0.166 Sum_probs=28.0
Q ss_pred cEEEEeecCCCCCeEE-eeccCCcHHHHHHHHHHHHHHccC
Q 047387 119 KYAAEIRDSTRNGVRV-WIGTFDTAEAAALAYDQAAFAMRG 158 (239)
Q Consensus 119 KW~AeIr~~~~~Gkri-~LGtFdT~EEAArAYD~AA~~~~G 158 (239)
-|+|.|.. |+-+ -++...+++.|..|..+|+.++-+
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 49999985 5544 455558899999999999998854
No 10
>4a17_H RPL10, 60S ribosomal protein L10; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_H 4a1c_H 4a1e_H
Probab=21.13 E-value=1e+02 Score=26.82 Aligned_cols=53 Identities=13% Similarity=0.034 Sum_probs=39.3
Q ss_pred EEEEeecCCCCCeEEeeccC--CcHHHHHHHHHHHHHHccCCC--------CCCCCCchhHHHHHHh
Q 047387 120 YAAEIRDSTRNGVRVWIGTF--DTAEAAALAYDQAAFAMRGTT--------AVLNFPVEKVYESLLE 176 (239)
Q Consensus 120 W~AeIr~~~~~Gkri~LGtF--dT~EEAArAYD~AA~~~~G~~--------A~lNFp~~~y~~el~e 176 (239)
|+|+|.. |+-++-=.- .++|.|..|..+|+.+|-+.. .-|+|..+.|.+-..+
T Consensus 125 wvArVk~----Gqilfei~g~~~~~~~A~eALr~A~~KlP~~tkiv~~~kwgft~~~~~~~~~~~~~ 187 (215)
T 4a17_H 125 KAARVDI----GSILFSVRVKEPHVKYAIDALTRAKAKFPGRQKVVTSQKWGFTKLTRAQYSRLRNQ 187 (215)
T ss_dssp EEEEECT----TCEEEEEEECGGGHHHHHHHHHHHGGGSSSCEEEEEESBCTTSSSBHHHHHHHHHT
T ss_pred EEEEEcC----CCEEEEEEecCCCHHHHHHHHHHHhhhCCCceEEEEccccCCCccCHHHHHHHHHC
Confidence 9999985 666553333 569999999999999985443 4589998888765444
No 11
>3j0l_J Ribosomal protein L10; mammalia, translation, elongation cycle, tRNA, ribosome; 9.80A {Oryctolagus cuniculus} PDB: 3j0q_J 3izc_I 3izs_I 3o58_J 3o5h_J 3u5e_I 3u5i_I 4b6a_I
Probab=21.01 E-value=1.2e+02 Score=26.53 Aligned_cols=50 Identities=12% Similarity=0.173 Sum_probs=36.9
Q ss_pred EEEEeecCCCCCeEEeeccC--CcHHHHHHHHHHHHHHccCCC--------CCCCCCchhHHHH
Q 047387 120 YAAEIRDSTRNGVRVWIGTF--DTAEAAALAYDQAAFAMRGTT--------AVLNFPVEKVYES 173 (239)
Q Consensus 120 W~AeIr~~~~~Gkri~LGtF--dT~EEAArAYD~AA~~~~G~~--------A~lNFp~~~y~~e 173 (239)
|+|+|.. |+-++-=.- .++|.|..|..+|+.+|-+.. .-|+|..+.|.+-
T Consensus 123 wvArVk~----Gqilfei~g~~~~~~~A~eALr~A~~KLP~~tkiv~~~kwgft~~~~~~~~~~ 182 (219)
T 3j0l_J 123 LAARVDI----GQIIFSVRTKDSNKDVVVEGLRRARYKFPGQQKIILSKKWGFTNLDRPEYLKK 182 (219)
T ss_dssp ECEEECT----TCEESCCCCCGGGHHHHHHHHHHHHHSSSCCCCCEECCCSSSSSCSCHHHHTT
T ss_pred EEEEEcC----CCEEEEEEecCcCHHHHHHHHHHHhhhCCCCeEEEEecccCccccCHHHHHHH
Confidence 9999985 666553333 468999999999999985443 4488888887653
No 12
>3r8s_M 50S ribosomal protein L16; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_K 1p86_K 1vs8_M 1vs6_M 2aw4_M 2awb_M 1vt2_M 2i2v_M 2j28_M 2i2t_M* 2qao_M* 2qba_M* 2qbc_M* 2qbe_M 2qbg_M 2qbi_M* 2qbk_M* 2qov_M 2qox_M 2qoz_M* ...
Probab=20.42 E-value=96 Score=24.87 Aligned_cols=34 Identities=24% Similarity=0.149 Sum_probs=26.6
Q ss_pred EEEEeecCCCCCeEE-eeccCCcHHHHHHHHHHHHHHccC
Q 047387 120 YAAEIRDSTRNGVRV-WIGTFDTAEAAALAYDQAAFAMRG 158 (239)
Q Consensus 120 W~AeIr~~~~~Gkri-~LGtFdT~EEAArAYD~AA~~~~G 158 (239)
|+|.|.. |+-+ -++. .+++.|..|..+|+.++-+
T Consensus 92 wva~Vk~----G~ilfEi~g-~~~~~A~eAlr~a~~KLP~ 126 (136)
T 3r8s_M 92 WVALIQP----GKVLYEMDG-VPEELAREAFKLAAAKLPI 126 (136)
T ss_dssp EEEEECT----TCEEEEEES-SCHHHHHHHHHHHHTTCSS
T ss_pred EEEEECC----CCEEEEEeC-CCHHHHHHHHHHHHhcCCC
Confidence 9999985 5554 4555 5899999999999998754
No 13
>1vq8_H 50S ribosomal protein L10E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: d.41.4.1 PDB: 1vq4_H* 1vq5_H* 1vq6_H* 1vq7_H* 1s72_H* 1vq9_H* 1vqk_H* 1vql_H* 1vqm_H* 1vqn_H* 1vqo_H* 1vqp_H* 2otj_H* 2otl_H* 2qa4_H* 2qex_H* 1yhq_H* 1yi2_H* 1yij_H* 1yit_H* ...
Probab=20.12 E-value=79 Score=26.55 Aligned_cols=36 Identities=19% Similarity=0.268 Sum_probs=27.8
Q ss_pred EEEEeecCCCCCeEEeeccC--CcHHHHHHHHHHHHHHccCC
Q 047387 120 YAAEIRDSTRNGVRVWIGTF--DTAEAAALAYDQAAFAMRGT 159 (239)
Q Consensus 120 W~AeIr~~~~~Gkri~LGtF--dT~EEAArAYD~AA~~~~G~ 159 (239)
|+|.|.. |+-++--.- .+++.|..|..+|+.+|-+.
T Consensus 123 wvArVk~----G~ilfei~~~~v~~~~A~eAlr~A~~KLP~k 160 (171)
T 1vq8_H 123 TAARVQA----GEQLFTAYCNVEDAEHVKEAFRRAYNKITPS 160 (171)
T ss_dssp EEEEECT----TCEEEEEEECTTTHHHHHHHHHHHGGGSSSC
T ss_pred EEEEECC----CCEEEEEECcCCCHHHHHHHHHHHHhhCCCc
Confidence 9999984 666654333 78999999999999988543
Done!