Query 031402
Match_columns 160
No_of_seqs 201 out of 1164
Neff 5.4
Searched_HMMs 29240
Date Mon Mar 25 21:54:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031402.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/031402hhsearch_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 7.7E-27 2.6E-31 157.9 6.3 62 23-84 2-63 (63)
2 3igm_B PF14_0633 protein; AP2 93.0 0.072 2.5E-06 36.8 3.1 28 19-49 3-31 (77)
3 1u3e_M HNH homing endonuclease 83.2 0.17 5.7E-06 38.7 -0.8 38 24-65 109-146 (174)
4 1z1b_A Integrase; protein-DNA 80.8 2.1 7E-05 34.2 4.8 41 26-71 15-55 (356)
5 3jtz_A Integrase; four strande 61.6 18 0.00062 24.6 5.4 44 27-71 28-75 (88)
6 1b69_A Protein (integrase); in 53.7 18 0.00061 24.2 4.0 28 21-50 9-36 (69)
7 3ju0_A Phage integrase; four s 43.7 42 0.0014 23.7 5.0 44 27-71 28-75 (108)
8 1x60_A Sporulation-specific N- 42.9 16 0.00054 23.5 2.5 23 47-69 46-68 (79)
9 1uta_A FTSN, MSGA, cell divisi 35.9 22 0.00076 23.1 2.3 24 46-69 45-68 (81)
10 2ftc_I Mitochondrial ribosomal 33.9 65 0.0022 23.2 4.8 35 35-73 80-115 (118)
11 3r8s_M 50S ribosomal protein L 26.9 63 0.0021 23.9 3.7 35 35-74 92-127 (136)
12 3bid_A UPF0339 protein NMB1088 22.7 1.6E+02 0.0054 18.9 5.3 36 27-64 5-41 (64)
13 1ffk_F Ribosomal protein L10E; 22.2 97 0.0033 23.6 4.1 36 35-74 111-146 (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=7.7e-27 Score=157.86 Aligned_cols=62 Identities=69% Similarity=1.227 Sum_probs=59.0
Q ss_pred ceeeeEECCCCeEEEEEecCCCCCeEeeccCCCCHHHHHHHHHHHHHhhcCCCCCCCCCCCc
Q 031402 23 RYRGIRRRAWGKFAAEIRDPTRNGTRLWLGTFSTAEEAARAYDRAAFAFRGHSAILNFPNEG 84 (160)
Q Consensus 23 ~yrGV~~r~~Gkw~A~I~~~~~~gkri~LGtF~t~eeAA~AYd~aa~~~~G~~a~~NFp~~~ 84 (160)
+|+||++++||||+|+|+++..+|+++|||||+|+||||+|||.|++.++|..+.+|||.++
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 79999999999999999998777899999999999999999999999999999999999763
No 2
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=93.05 E-value=0.072 Score=36.77 Aligned_cols=28 Identities=18% Similarity=0.183 Sum_probs=22.4
Q ss_pred CCCCceeeeEECCC-CeEEEEEecCCCCCeEe
Q 031402 19 VSEVRYRGIRRRAW-GKFAAEIRDPTRNGTRL 49 (160)
Q Consensus 19 ~~~S~yrGV~~r~~-Gkw~A~I~~~~~~gkri 49 (160)
...|+|+||+|.+. +.|.|+-.+ +|++.
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 35789999998877 999999997 46654
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=83.25 E-value=0.17 Score=38.66 Aligned_cols=38 Identities=5% Similarity=-0.103 Sum_probs=27.9
Q ss_pred eeeeEECCCCeEEEEEecCCCCCeEeeccCCCCHHHHHHHHH
Q 031402 24 YRGIRRRAWGKFAAEIRDPTRNGTRLWLGTFSTAEEAARAYD 65 (160)
Q Consensus 24 yrGV~~r~~Gkw~A~I~~~~~~gkri~LGtF~t~eeAA~AYd 65 (160)
++||.+...++|.+.|.. + +.++||.|+|.+|||++|.
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 356644223568888885 4 5678999999999999963
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=80.77 E-value=2.1 Score=34.23 Aligned_cols=41 Identities=20% Similarity=0.191 Sum_probs=31.0
Q ss_pred eeEECCCCeEEEEEecCCCCCeEeeccCCCCHHHHHHHHHHHHHhh
Q 031402 26 GIRRRAWGKFAAEIRDPTRNGTRLWLGTFSTAEEAARAYDRAAFAF 71 (160)
Q Consensus 26 GV~~r~~Gkw~A~I~~~~~~gkri~LGtF~t~eeAA~AYd~aa~~~ 71 (160)
||+.++.|.|..++. .+|+++.+|. |..||..+..++...+
T Consensus 15 ~v~~~~~g~~~~r~~---~~gk~~~~g~--t~~eA~~~a~~~~~~~ 55 (356)
T 1z1b_A 15 NLYIRNNGYYCYRDP---RTGKEFGLGR--DRRIAITEAIQANIEL 55 (356)
T ss_dssp TEEEETTTEEEEECT---TTCCEEEEES--CHHHHHHHHHHHHHHH
T ss_pred cceecCCCeEEEEee---cCCeEEECCC--CHHHHHHHHHHHHHHH
Confidence 588788899988765 3688999996 8888877766554443
No 5
>3jtz_A Integrase; four stranded beta-sheet, DNA binding protein; 1.30A {Yersinia pestis} PDB: 3rmp_A
Probab=61.63 E-value=18 Score=24.58 Aligned_cols=44 Identities=14% Similarity=0.234 Sum_probs=29.9
Q ss_pred eEECCCC--eEEEEEecCCCCCeEeeccCCC--CHHHHHHHHHHHHHhh
Q 031402 27 IRRRAWG--KFAAEIRDPTRNGTRLWLGTFS--TAEEAARAYDRAAFAF 71 (160)
Q Consensus 27 V~~r~~G--kw~A~I~~~~~~gkri~LGtF~--t~eeAA~AYd~aa~~~ 71 (160)
|+..+.| .|.-+.+.. .+-+++-||.|. |.++|....+++...+
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 4566665 488888742 123457889997 5888887777766655
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=53.66 E-value=18 Score=24.15 Aligned_cols=28 Identities=18% Similarity=0.264 Sum_probs=21.7
Q ss_pred CCceeeeEECCCCeEEEEEecCCCCCeEee
Q 031402 21 EVRYRGIRRRAWGKFAAEIRDPTRNGTRLW 50 (160)
Q Consensus 21 ~S~yrGV~~r~~Gkw~A~I~~~~~~gkri~ 50 (160)
..-+.|+++++.|+|++++.+. .|++.+
T Consensus 9 r~L~~GesqR~dG~Y~yry~d~--~Gkr~~ 36 (69)
T 1b69_A 9 RILKTGESQRKDGRYLYKYIDS--FGEPQF 36 (69)
T ss_dssp SCCCTTEEECSSSCEEEEEECT--TSSEEE
T ss_pred CccCCCeEEccCCcEEEEEEcC--CCCEEE
Confidence 3467889999999999999984 456543
No 7
>3ju0_A Phage integrase; four stranded beta-sheet, DNA binding protein; 1.60A {Pectobacterium atrosepticum}
Probab=43.69 E-value=42 Score=23.66 Aligned_cols=44 Identities=18% Similarity=0.203 Sum_probs=29.1
Q ss_pred eEECCCC--eEEEEEecCCCCCeEeeccCCC--CHHHHHHHHHHHHHhh
Q 031402 27 IRRRAWG--KFAAEIRDPTRNGTRLWLGTFS--TAEEAARAYDRAAFAF 71 (160)
Q Consensus 27 V~~r~~G--kw~A~I~~~~~~gkri~LGtF~--t~eeAA~AYd~aa~~~ 71 (160)
|+..+.| .|.-+.+.. .+-+++-||.|+ |..+|....+++...+
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 4566665 488888742 122457789997 5888877777666655
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=42.94 E-value=16 Score=23.48 Aligned_cols=23 Identities=26% Similarity=0.372 Sum_probs=19.2
Q ss_pred eEeeccCCCCHHHHHHHHHHHHH
Q 031402 47 TRLWLGTFSTAEEAARAYDRAAF 69 (160)
Q Consensus 47 kri~LGtF~t~eeAA~AYd~aa~ 69 (160)
.+|++|-|.+.++|..+-++...
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 68999999999999888766554
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=35.86 E-value=22 Score=23.10 Aligned_cols=24 Identities=21% Similarity=0.314 Sum_probs=19.6
Q ss_pred CeEeeccCCCCHHHHHHHHHHHHH
Q 031402 46 GTRLWLGTFSTAEEAARAYDRAAF 69 (160)
Q Consensus 46 gkri~LGtF~t~eeAA~AYd~aa~ 69 (160)
-.||.+|-|.+.++|..+-++...
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 368999999999999888766554
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=33.92 E-value=65 Score=23.16 Aligned_cols=35 Identities=17% Similarity=0.223 Sum_probs=27.3
Q ss_pred EEEEEecCCCCCeEe-eccCCCCHHHHHHHHHHHHHhhcC
Q 031402 35 FAAEIRDPTRNGTRL-WLGTFSTAEEAARAYDRAAFAFRG 73 (160)
Q Consensus 35 w~A~I~~~~~~gkri-~LGtF~t~eeAA~AYd~aa~~~~G 73 (160)
|+|+|.. |+.+ -++...+++.|..|...|+.++=.
T Consensus 80 wva~Vk~----G~ilfEi~g~~~~~~a~eAlr~a~~KlP~ 115 (118)
T 2ftc_I 80 YVTPVKA----GRLVVEMGGRCEFEEVQGFLDQVAHKLPF 115 (118)
T ss_pred EEEEECC----CCEEEEEeccCCHHHHHHHHHHHHhhCCC
Confidence 9999994 5554 455558899999999999988743
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=26.91 E-value=63 Score=23.93 Aligned_cols=35 Identities=26% Similarity=0.207 Sum_probs=26.8
Q ss_pred EEEEEecCCCCCeEe-eccCCCCHHHHHHHHHHHHHhhcCC
Q 031402 35 FAAEIRDPTRNGTRL-WLGTFSTAEEAARAYDRAAFAFRGH 74 (160)
Q Consensus 35 w~A~I~~~~~~gkri-~LGtF~t~eeAA~AYd~aa~~~~G~ 74 (160)
|+|.|.. |+.+ -++. .+++.|..|...|+.++-+.
T Consensus 92 wva~Vk~----G~ilfEi~g-~~~~~A~eAlr~a~~KLP~~ 127 (136)
T 3r8s_M 92 WVALIQP----GKVLYEMDG-VPEELAREAFKLAAAKLPIK 127 (136)
T ss_dssp EEEEECT----TCEEEEEES-SCHHHHHHHHHHHHTTCSSC
T ss_pred EEEEECC----CCEEEEEeC-CCHHHHHHHHHHHHhcCCCC
Confidence 9999994 5555 4455 59999999999999887543
No 12
>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=22.68 E-value=1.6e+02 Score=18.88 Aligned_cols=36 Identities=17% Similarity=0.314 Sum_probs=27.6
Q ss_pred eEECCCCeEEEEEecCCCCCeEeeccC-CCCHHHHHHHH
Q 031402 27 IRRRAWGKFAAEIRDPTRNGTRLWLGT-FSTAEEAARAY 64 (160)
Q Consensus 27 V~~r~~Gkw~A~I~~~~~~gkri~LGt-F~t~eeAA~AY 64 (160)
|+....|+|.-++.. .||..|.-+. |.+..+|..+-
T Consensus 5 i~~~~~G~frfrLka--~NGevI~sSe~Y~sk~~a~~gI 41 (64)
T 3bid_A 5 IYKDAKGEYRWRLKA--ANHEIIAQGEGYTSKQNCQHAV 41 (64)
T ss_dssp EEECTTSCEEEEEEC--TTSCEEEECCCBSCHHHHHHHH
T ss_pred EEECCCCCEEEEEEe--CCCCEEEECCCcCCHHHHHHHH
Confidence 345567999999997 4888887665 99998887653
No 13
>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=22.18 E-value=97 Score=23.58 Aligned_cols=36 Identities=14% Similarity=0.099 Sum_probs=28.3
Q ss_pred EEEEEecCCCCCeEeeccCCCCHHHHHHHHHHHHHhhcCC
Q 031402 35 FAAEIRDPTRNGTRLWLGTFSTAEEAARAYDRAAFAFRGH 74 (160)
Q Consensus 35 w~A~I~~~~~~gkri~LGtF~t~eeAA~AYd~aa~~~~G~ 74 (160)
|+|+|.. |+.++--.-.+++.|..|...|+.+|=+.
T Consensus 111 wvArVk~----G~ilfei~gv~~~~A~eAlr~A~~KlP~k 146 (157)
T 1ffk_F 111 TAARSHG----ANHDFIAWVNPDPAVEFAWRRAYMKVTPT 146 (157)
T ss_pred EEEEEcC----CCEEEEEeccCHHHHHHHHHHHHhhCCCc
Confidence 9999993 67776555567889999999999887544
Done!