Query 031071
Match_columns 166
No_of_seqs 211 out of 1198
Neff 5.3
Searched_HMMs 29240
Date Mon Mar 25 13:50:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031071.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/031071hhsearch_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 9E-27 3.1E-31 158.8 5.9 62 58-119 2-63 (63)
2 3igm_B PF14_0633 protein; AP2 93.2 0.057 1.9E-06 37.6 2.8 27 55-84 4-31 (77)
3 1u3e_M HNH homing endonuclease 85.2 0.13 4.3E-06 39.7 -0.7 38 59-100 109-146 (174)
4 1z1b_A Integrase; protein-DNA 84.7 0.95 3.3E-05 36.5 4.3 42 60-106 14-55 (356)
5 3jtz_A Integrase; four strande 52.2 32 0.0011 23.5 5.4 44 62-106 28-75 (88)
6 1b69_A Protein (integrase); in 48.9 19 0.00065 24.2 3.6 32 54-85 7-38 (69)
7 2ftc_I Mitochondrial ribosomal 47.0 24 0.00081 25.8 4.2 36 68-107 78-114 (118)
8 1x60_A Sporulation-specific N- 43.6 12 0.00042 24.2 2.0 23 82-104 46-68 (79)
9 1uta_A FTSN, MSGA, cell divisi 38.3 17 0.00058 23.9 2.1 24 81-104 45-68 (81)
10 3ju0_A Phage integrase; four s 36.0 66 0.0023 22.8 5.1 44 62-106 28-75 (108)
11 3r8s_M 50S ribosomal protein L 30.7 42 0.0014 25.1 3.4 33 70-107 92-125 (136)
12 2bn8_A CEDA, cell division act 26.5 85 0.0029 21.6 4.0 68 23-100 10-77 (87)
13 3bid_A UPF0339 protein NMB1088 24.4 1.5E+02 0.0051 19.2 5.3 36 62-99 5-41 (64)
14 3bbo_O Ribosomal protein L16; 21.3 28 0.00097 26.0 0.8 36 68-108 91-127 (135)
15 1ffk_F Ribosomal protein L10E; 20.2 97 0.0033 23.8 3.7 37 69-109 110-146 (157)
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=9e-27 Score=158.78 Aligned_cols=62 Identities=82% Similarity=1.425 Sum_probs=58.6
Q ss_pred ceeEeEECCCCcEEEEEeeCCCCCeEEecCCCCCHHHHHHHHHHHHHHhcCCCCCCCCCccc
Q 031071 58 HYRGVRRRPWGKFAAEIRDSARHGQRIWLGTFETAEEAALAYDRAAFRMRGAKALLNFPAEV 119 (166)
Q Consensus 58 ~YrGV~~r~~gkW~A~I~~~~~~gk~i~LGtF~T~eEAA~AYD~aa~~~~G~~A~lNFp~~~ 119 (166)
+||||+++++|||+|+|+++..+|+++|||+|+|+||||+|||.++++++|..|.+|||.++
T Consensus 2 ~yrGV~~r~~gkw~A~I~~~~~~g~r~~LGtf~T~eeAA~AyD~Aa~~~~G~~a~~NFp~~~ 63 (63)
T 1gcc_A 2 HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLRV 63 (63)
T ss_dssp CCTTEEEETTTEEEEEEEETTTTSEEEEEEEESSHHHHHHHHHHHHHHHHSSCCCCSSCTTC
T ss_pred CcccEeeCCCCcEEEEEccccCCCeEEEeeeCCCHHHHHHHHHHHHHHhcCcccccCCCCcC
Confidence 69999998999999999998767899999999999999999999999999999999999864
No 2
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=93.21 E-value=0.057 Score=37.65 Aligned_cols=27 Identities=22% Similarity=0.190 Sum_probs=21.7
Q ss_pred CCCceeEeEECC-CCcEEEEEeeCCCCCeEE
Q 031071 55 SKKHYRGVRRRP-WGKFAAEIRDSARHGQRI 84 (166)
Q Consensus 55 ~~S~YrGV~~r~-~gkW~A~I~~~~~~gk~i 84 (166)
.+|+|.||++.+ .+.|.|...+ +|++.
T Consensus 4 ~~Sg~pGVsw~kR~~~WlA~W~e---~g~rr 31 (77)
T 3igm_B 4 MSSGYPGVSWNKRMCAWLAFFYD---GASRR 31 (77)
T ss_dssp CCSSSTTEEEETTTTEEEEEEEE---TTEEE
T ss_pred CCCCCCcEEeecCCceEEEEEec---CCeEe
Confidence 478999998766 5999999988 46554
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=85.24 E-value=0.13 Score=39.65 Aligned_cols=38 Identities=5% Similarity=-0.150 Sum_probs=28.7
Q ss_pred eeEeEECCCCcEEEEEeeCCCCCeEEecCCCCCHHHHHHHHH
Q 031071 59 YRGVRRRPWGKFAAEIRDSARHGQRIWLGTFETAEEAALAYD 100 (166)
Q Consensus 59 YrGV~~r~~gkW~A~I~~~~~~gk~i~LGtF~T~eEAA~AYD 100 (166)
++||.+...++|.+.|.. + +..+||.|+|.+|||++|.
T Consensus 109 ~~g~~~~~~~k~~~vi~~---~-~~~~~~~f~s~~eAa~~~G 146 (174)
T 1u3e_M 109 SKAQQIAKIKNQKPIIVI---S-PDGIEKEYPSTKCACEELG 146 (174)
T ss_dssp HHHHHHHHHHTCCCEEEE---C-TTSCEEEESCHHHHHHHHT
T ss_pred eeeeeeccCCCCceEEEE---c-CCceEEeeCCHHHHHHHHC
Confidence 467654234678899987 3 5567999999999999964
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=84.67 E-value=0.95 Score=36.49 Aligned_cols=42 Identities=17% Similarity=0.124 Sum_probs=31.7
Q ss_pred eEeEECCCCcEEEEEeeCCCCCeEEecCCCCCHHHHHHHHHHHHHHh
Q 031071 60 RGVRRRPWGKFAAEIRDSARHGQRIWLGTFETAEEAALAYDRAAFRM 106 (166)
Q Consensus 60 rGV~~r~~gkW~A~I~~~~~~gk~i~LGtF~T~eEAA~AYD~aa~~~ 106 (166)
.||+.++.|.|..+... +||++.+|. |..||..+..++...+
T Consensus 14 ~~v~~~~~g~~~~r~~~---~gk~~~~g~--t~~eA~~~a~~~~~~~ 55 (356)
T 1z1b_A 14 PNLYIRNNGYYCYRDPR---TGKEFGLGR--DRRIAITEAIQANIEL 55 (356)
T ss_dssp TTEEEETTTEEEEECTT---TCCEEEEES--CHHHHHHHHHHHHHHH
T ss_pred ccceecCCCeEEEEeec---CCeEEECCC--CHHHHHHHHHHHHHHH
Confidence 46877778999988654 688999996 8888887776655444
No 5
>3jtz_A Integrase; four stranded beta-sheet, DNA binding protein; 1.30A {Yersinia pestis} PDB: 3rmp_A
Probab=52.15 E-value=32 Score=23.52 Aligned_cols=44 Identities=20% Similarity=0.261 Sum_probs=29.6
Q ss_pred eEECCCC--cEEEEEeeCCCCCeEEecCCCC--CHHHHHHHHHHHHHHh
Q 031071 62 VRRRPWG--KFAAEIRDSARHGQRIWLGTFE--TAEEAALAYDRAAFRM 106 (166)
Q Consensus 62 V~~r~~g--kW~A~I~~~~~~gk~i~LGtF~--T~eEAA~AYD~aa~~~ 106 (166)
++..++| .|.-+.+.. ++.+++-||.|. |..||....+++...+
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 4455553 488888763 234567899997 5888887777666554
No 6
>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=48.85 E-value=19 Score=24.23 Aligned_cols=32 Identities=19% Similarity=0.184 Sum_probs=23.1
Q ss_pred CCCCceeEeEECCCCcEEEEEeeCCCCCeEEe
Q 031071 54 ISKKHYRGVRRRPWGKFAAEIRDSARHGQRIW 85 (166)
Q Consensus 54 ~~~S~YrGV~~r~~gkW~A~I~~~~~~gk~i~ 85 (166)
.+..-+.|+++++.|+|+.++.+..++.+.+|
T Consensus 7 kgr~L~~GesqR~dG~Y~yry~d~~Gkr~~vY 38 (69)
T 1b69_A 7 RGRILKTGESQRKDGRYLYKYIDSFGEPQFVY 38 (69)
T ss_dssp SSSCCCTTEEECSSSCEEEEEECTTSSEEEEE
T ss_pred CCCccCCCeEEccCCcEEEEEEcCCCCEEEEE
Confidence 34556889999999999999988643333444
No 7
>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=46.98 E-value=24 Score=25.79 Aligned_cols=36 Identities=17% Similarity=0.290 Sum_probs=28.5
Q ss_pred CcEEEEEeeCCCCCeEEe-cCCCCCHHHHHHHHHHHHHHhc
Q 031071 68 GKFAAEIRDSARHGQRIW-LGTFETAEEAALAYDRAAFRMR 107 (166)
Q Consensus 68 gkW~A~I~~~~~~gk~i~-LGtF~T~eEAA~AYD~aa~~~~ 107 (166)
-.|+|+|.. |+-++ ++...+++.|..|...|+.+|=
T Consensus 78 ~~wva~Vk~----G~ilfEi~g~~~~~~a~eAlr~a~~KlP 114 (118)
T 2ftc_I 78 DHYVTPVKA----GRLVVEMGGRCEFEEVQGFLDQVAHKLP 114 (118)
T ss_pred cEEEEEECC----CCEEEEEeccCCHHHHHHHHHHHHhhCC
Confidence 349999976 55554 6666889999999999998874
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=43.57 E-value=12 Score=24.23 Aligned_cols=23 Identities=22% Similarity=0.349 Sum_probs=19.4
Q ss_pred eEEecCCCCCHHHHHHHHHHHHH
Q 031071 82 QRIWLGTFETAEEAALAYDRAAF 104 (166)
Q Consensus 82 k~i~LGtF~T~eEAA~AYD~aa~ 104 (166)
-+|++|.|.+.++|..+.++...
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 67889999999999988776654
No 9
>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=38.26 E-value=17 Score=23.88 Aligned_cols=24 Identities=21% Similarity=0.324 Sum_probs=19.8
Q ss_pred CeEEecCCCCCHHHHHHHHHHHHH
Q 031071 81 GQRIWLGTFETAEEAALAYDRAAF 104 (166)
Q Consensus 81 gk~i~LGtF~T~eEAA~AYD~aa~ 104 (166)
--||.+|.|.+.++|..+-++...
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 367899999999999988776654
No 10
>3ju0_A Phage integrase; four stranded beta-sheet, DNA binding protein; 1.60A {Pectobacterium atrosepticum}
Probab=35.95 E-value=66 Score=22.77 Aligned_cols=44 Identities=18% Similarity=0.226 Sum_probs=28.8
Q ss_pred eEECCCC--cEEEEEeeCCCCCeEEecCCCC--CHHHHHHHHHHHHHHh
Q 031071 62 VRRRPWG--KFAAEIRDSARHGQRIWLGTFE--TAEEAALAYDRAAFRM 106 (166)
Q Consensus 62 V~~r~~g--kW~A~I~~~~~~gk~i~LGtF~--T~eEAA~AYD~aa~~~ 106 (166)
++..++| .|.-+.+.. ++.+++-||.|. |..+|....+.+...+
T Consensus 28 L~V~psG~K~w~~rYr~~-GK~~~~~LG~yp~~SLa~AR~~a~~~r~~l 75 (108)
T 3ju0_A 28 LLVHPNGSKYWRLSYRFE-KKQRLLALGVYPAVSLADARQRRDEAKKLL 75 (108)
T ss_dssp EEECTTSCEEEEEEEEET-TEEEEEEEEEETTSCHHHHHHHHHHHHHHH
T ss_pred EEEEcCCCEEEEEEEEEc-CceEEEecCCCCCCCHHHHHHHHHHHHHHH
Confidence 4455554 488887763 234567899997 5788877776655554
No 11
>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=30.65 E-value=42 Score=25.12 Aligned_cols=33 Identities=24% Similarity=0.343 Sum_probs=26.3
Q ss_pred EEEEEeeCCCCCeEEe-cCCCCCHHHHHHHHHHHHHHhc
Q 031071 70 FAAEIRDSARHGQRIW-LGTFETAEEAALAYDRAAFRMR 107 (166)
Q Consensus 70 W~A~I~~~~~~gk~i~-LGtF~T~eEAA~AYD~aa~~~~ 107 (166)
|+|.|.. |+-++ ++. .+++.|..|...|+.+|=
T Consensus 92 wva~Vk~----G~ilfEi~g-~~~~~A~eAlr~a~~KLP 125 (136)
T 3r8s_M 92 WVALIQP----GKVLYEMDG-VPEELAREAFKLAAAKLP 125 (136)
T ss_dssp EEEEECT----TCEEEEEES-SCHHHHHHHHHHHHTTCS
T ss_pred EEEEECC----CCEEEEEeC-CCHHHHHHHHHHHHhcCC
Confidence 9999976 56555 655 489999999999998764
No 12
>2bn8_A CEDA, cell division activator CEDA; cell division activator protein, cell cycle protein; NMR {Escherichia coli} PDB: 2d35_A
Probab=26.47 E-value=85 Score=21.58 Aligned_cols=68 Identities=19% Similarity=0.255 Sum_probs=33.8
Q ss_pred HHHHhhhhccCCcCCCCccccccCcCCCCCCCCCCceeEeEECCCCcEEEEEeeCCCCCeEEecCCCCCHHHHHHHHH
Q 031071 23 QVINESTAQNISFMPQRSEVHTSSMLEPKRTISKKHYRGVRRRPWGKFAAEIRDSARHGQRIWLGTFETAEEAALAYD 100 (166)
Q Consensus 23 ~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~S~YrGV~~r~~gkW~A~I~~~~~~gk~i~LGtF~T~eEAA~AYD 100 (166)
.-|..-....+++.|+...+.. .....--+||-|+.-+ |||+|.+..+. .-.---.|..+|.|.+--.
T Consensus 10 kplrqqnrpvisyvprvepapp------~ha~kmd~frdvw~lr-gkyvafvl~ge---~frrspafsvpesaqrwa~ 77 (87)
T 2bn8_A 10 KPLRQQNRQIISYVPRTEPAPP------EHAIKMDSFRDVWMLR-GKYVAFVLMGE---SFLRSPAFTVPESAQRWAN 77 (87)
T ss_dssp -----------CCCCCCCCBTT------BSCBCTTTCTTEEEET-TEEEEBCCSSS---CCCBCCCBSSHHHHHHHHH
T ss_pred hhHHhcCCcceeeccCCCCCCc------hHhhhcccchhheeec-cceEEEEEech---hhccCCccCCcHHHHHHHH
Confidence 3344444445566665333222 2223355799997655 99999987631 1112356888888876543
No 13
>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=24.44 E-value=1.5e+02 Score=19.20 Aligned_cols=36 Identities=11% Similarity=0.267 Sum_probs=27.9
Q ss_pred eEECCCCcEEEEEeeCCCCCeEEecCC-CCCHHHHHHHH
Q 031071 62 VRRRPWGKFAAEIRDSARHGQRIWLGT-FETAEEAALAY 99 (166)
Q Consensus 62 V~~r~~gkW~A~I~~~~~~gk~i~LGt-F~T~eEAA~AY 99 (166)
|.+...|+|.=++... ||..|.-+- |.+..+|..+-
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 3455679999999884 888887665 99998888664
No 14
>3bbo_O Ribosomal protein L16; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.2
Probab=21.26 E-value=28 Score=26.01 Aligned_cols=36 Identities=19% Similarity=0.185 Sum_probs=28.5
Q ss_pred CcEEEEEeeCCCCCeEEe-cCCCCCHHHHHHHHHHHHHHhcC
Q 031071 68 GKFAAEIRDSARHGQRIW-LGTFETAEEAALAYDRAAFRMRG 108 (166)
Q Consensus 68 gkW~A~I~~~~~~gk~i~-LGtF~T~eEAA~AYD~aa~~~~G 108 (166)
-.|+|.|.. |+-++ ++. .+++.|..|...|+.++=+
T Consensus 91 ~~wva~Vk~----G~ilfEi~g-v~~~~A~eAlr~a~~KLP~ 127 (135)
T 3bbo_O 91 EYWVAVVKP----GRILYEISG-VAENIARRAVAIAASKMPI 127 (135)
T ss_dssp SCCCCCCCT----TCEEEEECS-SCTTHHHHHHHHHHHHCSS
T ss_pred eEEEEEECC----CCEEEEEec-CCHHHHHHHHHHHHhhCCC
Confidence 349999975 56555 666 8999999999999998744
No 15
>1ffk_F Ribosomal protein L10E; ribosome assembly, RNA-RNA, protein-RNA, protein-protein; 2.40A {Haloarcula marismortui} SCOP: d.41.4.1 PDB: 1jj2_H 1k73_J* 1k8a_J* 1k9m_J* 1kc8_J* 1kd1_J* 1kqs_H* 1m1k_J* 1m90_J* 1n8r_J* 1nji_J* 1q7y_J* 1q81_J* 1q82_J* 1q86_J* 1qvf_H 1qvg_H 1w2b_H 3cxc_H* 1giy_P ...
Probab=20.23 E-value=97 Score=23.81 Aligned_cols=37 Identities=14% Similarity=0.186 Sum_probs=28.1
Q ss_pred cEEEEEeeCCCCCeEEecCCCCCHHHHHHHHHHHHHHhcCC
Q 031071 69 KFAAEIRDSARHGQRIWLGTFETAEEAALAYDRAAFRMRGA 109 (166)
Q Consensus 69 kW~A~I~~~~~~gk~i~LGtF~T~eEAA~AYD~aa~~~~G~ 109 (166)
-|+|+|.. |+.++--.-.+++.|..|...|+.+|=+.
T Consensus 110 ~wvArVk~----G~ilfei~gv~~~~A~eAlr~A~~KlP~k 146 (157)
T 1ffk_F 110 GTAARSHG----ANHDFIAWVNPDPAVEFAWRRAYMKVTPT 146 (157)
T ss_pred EEEEEEcC----CCEEEEEeccCHHHHHHHHHHHHhhCCCc
Confidence 49999975 67776444467889999999999887543
Done!