Query 041015
Match_columns 211
No_of_seqs 287 out of 1256
Neff 5.0
Searched_HMMs 29240
Date Mon Mar 25 04:14:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041015.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/041015hhsearch_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 1.3E-26 4.6E-31 164.3 5.8 60 60-119 2-62 (63)
2 3igm_B PF14_0633 protein; AP2 84.3 0.7 2.4E-05 33.5 2.9 28 56-85 3-31 (77)
3 1u3e_M HNH homing endonuclease 80.8 0.24 8.2E-06 39.8 -0.8 38 61-101 109-146 (174)
4 3jtz_A Integrase; four strande 76.1 5.5 0.00019 28.8 5.5 44 64-107 28-75 (88)
5 1z1b_A Integrase; protein-DNA 71.5 3.9 0.00013 34.3 4.3 38 63-104 15-52 (356)
6 3ju0_A Phage integrase; four s 62.4 12 0.00042 28.0 5.0 47 64-110 28-79 (108)
7 1uta_A FTSN, MSGA, cell divisi 38.8 23 0.00079 24.3 3.0 24 81-104 44-67 (81)
8 1x60_A Sporulation-specific N- 38.4 16 0.00054 24.8 2.0 22 82-103 45-66 (79)
9 2ftc_I Mitochondrial ribosomal 35.3 57 0.002 24.8 4.9 36 71-108 79-114 (118)
10 3r8s_M 50S ribosomal protein L 22.0 72 0.0025 24.9 3.4 35 72-109 92-126 (136)
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=1.3e-26 Score=164.28 Aligned_cols=60 Identities=57% Similarity=0.945 Sum_probs=57.3
Q ss_pred ceeEEEeCCCCcEEEEEeeCCC-CeEEecCCCCCHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q 041015 60 TYRGVRMRSWGKWVSEIRQPRK-KSRIWLGSFPTAEMAARAHDVAALAIKGHSAHLNFPEL 119 (211)
Q Consensus 60 ~yRGVr~r~~GkW~A~I~~p~~-~kri~LGtF~T~EeAArAYD~Aal~l~G~~A~lNFp~s 119 (211)
+||||++++||||+|+|++|.+ |++||||+|+|+||||+|||.|+++++|..+.||||++
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 5999999999999999999974 79999999999999999999999999999999999986
No 2
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=84.25 E-value=0.7 Score=33.51 Aligned_cols=28 Identities=21% Similarity=0.306 Sum_probs=22.3
Q ss_pred CCCCceeEEEeCCC-CcEEEEEeeCCCCeEE
Q 041015 56 NKYPTYRGVRMRSW-GKWVSEIRQPRKKSRI 85 (211)
Q Consensus 56 ~~~S~yRGVr~r~~-GkW~A~I~~p~~~kri 85 (211)
...|+|.||+|.+. +.|+|.-.+ +|++.
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 45789999999865 999999998 56554
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=80.79 E-value=0.24 Score=39.75 Aligned_cols=38 Identities=8% Similarity=0.015 Sum_probs=29.3
Q ss_pred eeEEEeCCCCcEEEEEeeCCCCeEEecCCCCCHHHHHHHHH
Q 041015 61 YRGVRMRSWGKWVSEIRQPRKKSRIWLGSFPTAEMAARAHD 101 (211)
Q Consensus 61 yRGVr~r~~GkW~A~I~~p~~~kri~LGtF~T~EeAArAYD 101 (211)
++||.+...++|.+.|.. . +.++||.|+|.+|||++|.
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 467755223678899988 5 5678999999999999965
No 4
>3jtz_A Integrase; four stranded beta-sheet, DNA binding protein; 1.30A {Yersinia pestis} PDB: 3rmp_A
Probab=76.07 E-value=5.5 Score=28.76 Aligned_cols=44 Identities=25% Similarity=0.429 Sum_probs=30.8
Q ss_pred EEeCCCC--cEEEEEeeCCCCeEEecCCCC--CHHHHHHHHHHHHHHh
Q 041015 64 VRMRSWG--KWVSEIRQPRKKSRIWLGSFP--TAEMAARAHDVAALAI 107 (211)
Q Consensus 64 Vr~r~~G--kW~A~I~~p~~~kri~LGtF~--T~EeAArAYD~Aal~l 107 (211)
|+..+.| .|+-+.+..++.+++-||.|+ |.++|-...+.+...+
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 4455554 499998886666789999997 5777776666554444
No 5
>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=71.48 E-value=3.9 Score=34.30 Aligned_cols=38 Identities=16% Similarity=0.137 Sum_probs=27.7
Q ss_pred EEEeCCCCcEEEEEeeCCCCeEEecCCCCCHHHHHHHHHHHH
Q 041015 63 GVRMRSWGKWVSEIRQPRKKSRIWLGSFPTAEMAARAHDVAA 104 (211)
Q Consensus 63 GVr~r~~GkW~A~I~~p~~~kri~LGtF~T~EeAArAYD~Aa 104 (211)
||++++.|.|..+... .|+++.+|. |..||......+.
T Consensus 15 ~v~~~~~g~~~~r~~~--~gk~~~~g~--t~~eA~~~a~~~~ 52 (356)
T 1z1b_A 15 NLYIRNNGYYCYRDPR--TGKEFGLGR--DRRIAITEAIQAN 52 (356)
T ss_dssp TEEEETTTEEEEECTT--TCCEEEEES--CHHHHHHHHHHHH
T ss_pred cceecCCCeEEEEeec--CCeEEECCC--CHHHHHHHHHHHH
Confidence 5766777899877654 788899996 8888766655433
No 6
>3ju0_A Phage integrase; four stranded beta-sheet, DNA binding protein; 1.60A {Pectobacterium atrosepticum}
Probab=62.42 E-value=12 Score=27.95 Aligned_cols=47 Identities=23% Similarity=0.354 Sum_probs=31.0
Q ss_pred EEeCCCC--cEEEEEeeCCCCeEEecCCCC--CHHHHHHHHHHHHHHh-cCC
Q 041015 64 VRMRSWG--KWVSEIRQPRKKSRIWLGSFP--TAEMAARAHDVAALAI-KGH 110 (211)
Q Consensus 64 Vr~r~~G--kW~A~I~~p~~~kri~LGtF~--T~EeAArAYD~Aal~l-~G~ 110 (211)
|+..+.| .|+-+.+..++.+++-||.|+ |..+|-...+.+...+ .|.
T Consensus 28 L~V~psG~K~w~~rYr~~GK~~~~~LG~yp~~SLa~AR~~a~~~r~~l~~Gi 79 (108)
T 3ju0_A 28 LLVHPNGSKYWRLSYRFEKKQRLLALGVYPAVSLADARQRRDEAKKLLAAGI 79 (108)
T ss_dssp EEECTTSCEEEEEEEEETTEEEEEEEEEETTSCHHHHHHHHHHHHHHHHTTC
T ss_pred EEEEcCCCEEEEEEEEEcCceEEEecCCCCCCCHHHHHHHHHHHHHHHHcCC
Confidence 4455554 499998886666788999997 4677766655544433 443
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=38.84 E-value=23 Score=24.26 Aligned_cols=24 Identities=17% Similarity=0.140 Sum_probs=18.7
Q ss_pred CCeEEecCCCCCHHHHHHHHHHHH
Q 041015 81 KKSRIWLGSFPTAEMAARAHDVAA 104 (211)
Q Consensus 81 ~~kri~LGtF~T~EeAArAYD~Aa 104 (211)
.--||++|.|.+.++|..+-+...
T Consensus 44 ~~yRV~vGpf~s~~~A~~~~~~L~ 67 (81)
T 1uta_A 44 GWNRVVIGPVKGKENADSTLNRLK 67 (81)
T ss_dssp SSEEEEESSCBTTTHHHHHHHHHH
T ss_pred cEEEEEECCcCCHHHHHHHHHHHH
Confidence 446889999999999988865433
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=38.40 E-value=16 Score=24.78 Aligned_cols=22 Identities=18% Similarity=0.283 Sum_probs=17.7
Q ss_pred CeEEecCCCCCHHHHHHHHHHH
Q 041015 82 KSRIWLGSFPTAEMAARAHDVA 103 (211)
Q Consensus 82 ~kri~LGtF~T~EeAArAYD~A 103 (211)
--|+++|.|.+.++|..+-+..
T Consensus 45 ~yRV~vGpf~~~~~A~~~~~~L 66 (79)
T 1x60_A 45 LYKVQIGAFSSKDNADTLAARA 66 (79)
T ss_dssp EEEEEEEEESSHHHHHHHHHHH
T ss_pred EEEEEECCcCCHHHHHHHHHHH
Confidence 3588999999999998886543
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=35.29 E-value=57 Score=24.80 Aligned_cols=36 Identities=14% Similarity=0.132 Sum_probs=28.8
Q ss_pred cEEEEEeeCCCCeEEecCCCCCHHHHHHHHHHHHHHhc
Q 041015 71 KWVSEIRQPRKKSRIWLGSFPTAEMAARAHDVAALAIK 108 (211)
Q Consensus 71 kW~A~I~~p~~~kri~LGtF~T~EeAArAYD~Aal~l~ 108 (211)
.|+|.|.. ...=+-++...+++.|..|...|+.+|=
T Consensus 79 ~wva~Vk~--G~ilfEi~g~~~~~~a~eAlr~a~~KlP 114 (118)
T 2ftc_I 79 HYVTPVKA--GRLVVEMGGRCEFEEVQGFLDQVAHKLP 114 (118)
T ss_pred EEEEEECC--CCEEEEEeccCCHHHHHHHHHHHHhhCC
Confidence 39999986 6555566666889999999999998873
No 10
>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=22.01 E-value=72 Score=24.90 Aligned_cols=35 Identities=26% Similarity=0.295 Sum_probs=27.4
Q ss_pred EEEEEeeCCCCeEEecCCCCCHHHHHHHHHHHHHHhcC
Q 041015 72 WVSEIRQPRKKSRIWLGSFPTAEMAARAHDVAALAIKG 109 (211)
Q Consensus 72 W~A~I~~p~~~kri~LGtF~T~EeAArAYD~Aal~l~G 109 (211)
|+|.|.. ...=+-++. -+++.|..|...|+.+|=+
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 9999987 665556666 4899999999999887643
Done!