Query 039729
Match_columns 179
No_of_seqs 239 out of 1195
Neff 5.3
Searched_HMMs 29240
Date Mon Mar 25 22:03:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039729.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/039729hhsearch_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 5.9E-27 2E-31 161.6 6.3 63 66-129 1-63 (63)
2 1u3e_M HNH homing endonuclease 98.2 1.1E-08 3.8E-13 81.2 -7.8 69 33-110 71-146 (174)
3 3igm_B PF14_0633 protein; AP2 85.0 0.49 1.7E-05 33.3 2.3 24 63-86 3-27 (77)
4 1z1b_A Integrase; protein-DNA 81.1 2 6.9E-05 35.0 5.0 42 69-116 14-55 (356)
5 1b69_A Protein (integrase); in 48.3 16 0.00055 24.9 3.2 28 66-96 10-37 (69)
6 1x60_A Sporulation-specific N- 41.2 19 0.00063 23.7 2.6 23 92-114 46-68 (79)
7 1uta_A FTSN, MSGA, cell divisi 34.9 25 0.00086 23.3 2.5 23 92-114 46-68 (81)
8 2ftc_I Mitochondrial ribosomal 33.1 66 0.0022 23.7 4.8 37 77-118 78-115 (118)
9 3jtz_A Integrase; four strande 26.7 70 0.0024 22.0 3.8 38 77-116 36-75 (88)
10 3r8s_M 50S ribosomal protein L 21.1 1.2E+02 0.0039 23.0 4.3 34 79-118 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=5.9e-27 Score=161.63 Aligned_cols=63 Identities=78% Similarity=1.308 Sum_probs=58.9
Q ss_pred CceeeeEECCCCcEEEEEecCCCCCCcEEecccCCCHHHHHHHHHHHHHhhcCCCCCCCCCCCC
Q 039729 66 VFYRGVRRRPWGKFAAEIRDPNKKNGARVWLGTYDTPEGAALAYDRAAFNMRGSKAKLNFPHLI 129 (179)
Q Consensus 66 s~yrGV~~r~~gkW~A~I~~~~~~~gkri~LG~F~T~EeAA~AYD~Aa~~~~G~~A~lNFp~~~ 129 (179)
++|+||++++||||+|+|++| ..+|+++|||+|+|+||||+|||.|+++++|.++.+|||.+|
T Consensus 1 ~~yrGV~~r~~gkw~A~I~~~-~~~g~r~~LGtf~T~eeAA~AyD~Aa~~~~G~~a~~NFp~~~ 63 (63)
T 1gcc_A 1 KHYRGVRQRPWGKFAAEIRDP-AKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLRV 63 (63)
T ss_dssp CCCTTEEEETTTEEEEEEEET-TTTSEEEEEEEESSHHHHHHHHHHHHHHHHSSCCCCSSCTTC
T ss_pred CCcccEeeCCCCcEEEEEccc-cCCCeEEEeeeCCCHHHHHHHHHHHHHHhcCcccccCCCCcC
Confidence 379999988999999999998 457899999999999999999999999999999999999875
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=98.16 E-value=1.1e-08 Score=81.24 Aligned_cols=69 Identities=12% Similarity=-0.085 Sum_probs=51.6
Q ss_pred CcccccCCCCCCCCCCCCccccccCcccCCCCCC-------ceeeeEECCCCcEEEEEecCCCCCCcEEecccCCCHHHH
Q 039729 33 ETSISVNDDPLINSPTNSSFRTRGATTHESHVRV-------FYRGVRRRPWGKFAAEIRDPNKKNGARVWLGTYDTPEGA 105 (179)
Q Consensus 33 ~~~~hin~~p~~n~~~n~~~~lR~~t~~~~~~~s-------~yrGV~~r~~gkW~A~I~~~~~~~gkri~LG~F~T~EeA 105 (179)
.+++|+|+++.||+++| ||.+|..++..+. .++||.....++|.+.|. ++ +.++||.|+|.+||
T Consensus 71 ~~v~H~dg~k~nn~~~N----L~~~t~~eN~~~~~~~~~~~~~~g~~~~~~~k~~~vi~----~~-~~~~~~~f~s~~eA 141 (174)
T 1u3e_M 71 LVVDHKDGNKDNNLSTN----LRWVTQKINVENQMSRGTLNVSKAQQIAKIKNQKPIIV----IS-PDGIEKEYPSTKCA 141 (174)
T ss_dssp CEEEETTSCTTCCCGGG----EEEECHHHHHHHHHHHTCCCCHHHHHHHHHHTCCCEEE----EC-TTSCEEEESCHHHH
T ss_pred CEEEcCCCCCCCCCHHH----cEECCHHHHhhcccccCcccceeeeeeccCCCCceEEE----Ec-CCceEEeeCCHHHH
Confidence 57999999999999999 9999865543321 245664322356888884 34 56789999999999
Q ss_pred HHHHH
Q 039729 106 ALAYD 110 (179)
Q Consensus 106 A~AYD 110 (179)
|++|.
T Consensus 142 a~~~G 146 (174)
T 1u3e_M 142 CEELG 146 (174)
T ss_dssp HHHHT
T ss_pred HHHHC
Confidence 99964
No 3
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=85.04 E-value=0.49 Score=33.30 Aligned_cols=24 Identities=25% Similarity=0.221 Sum_probs=18.8
Q ss_pred CCCCceeeeEECC-CCcEEEEEecC
Q 039729 63 HVRVFYRGVRRRP-WGKFAAEIRDP 86 (179)
Q Consensus 63 ~~~s~yrGV~~r~-~gkW~A~I~~~ 86 (179)
...|+|.||++.+ -+.|.|...+.
T Consensus 3 ~~~Sg~pGVsw~kR~~~WlA~W~e~ 27 (77)
T 3igm_B 3 HMSSGYPGVSWNKRMCAWLAFFYDG 27 (77)
T ss_dssp -CCSSSTTEEEETTTTEEEEEEEET
T ss_pred CCCCCCCcEEeecCCceEEEEEecC
Confidence 3568999998665 59999999764
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=81.15 E-value=2 Score=35.02 Aligned_cols=42 Identities=17% Similarity=0.122 Sum_probs=31.7
Q ss_pred eeeEECCCCcEEEEEecCCCCCCcEEecccCCCHHHHHHHHHHHHHhh
Q 039729 69 RGVRRRPWGKFAAEIRDPNKKNGARVWLGTYDTPEGAALAYDRAAFNM 116 (179)
Q Consensus 69 rGV~~r~~gkW~A~I~~~~~~~gkri~LG~F~T~EeAA~AYD~Aa~~~ 116 (179)
.||++++.|.|+.+. ..+|+++.+|. |..||..+..++...+
T Consensus 14 ~~v~~~~~g~~~~r~----~~~gk~~~~g~--t~~eA~~~a~~~~~~~ 55 (356)
T 1z1b_A 14 PNLYIRNNGYYCYRD----PRTGKEFGLGR--DRRIAITEAIQANIEL 55 (356)
T ss_dssp TTEEEETTTEEEEEC----TTTCCEEEEES--CHHHHHHHHHHHHHHH
T ss_pred ccceecCCCeEEEEe----ecCCeEEECCC--CHHHHHHHHHHHHHHH
Confidence 367777789999876 35789999996 8988887776655544
No 5
>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=48.30 E-value=16 Score=24.92 Aligned_cols=28 Identities=18% Similarity=0.340 Sum_probs=21.9
Q ss_pred CceeeeEECCCCcEEEEEecCCCCCCcEEec
Q 039729 66 VFYRGVRRRPWGKFAAEIRDPNKKNGARVWL 96 (179)
Q Consensus 66 s~yrGV~~r~~gkW~A~I~~~~~~~gkri~L 96 (179)
.-+.|++++..|+|+.++.+. +|++.++
T Consensus 10 ~L~~GesqR~dG~Y~yry~d~---~Gkr~~v 37 (69)
T 1b69_A 10 ILKTGESQRKDGRYLYKYIDS---FGEPQFV 37 (69)
T ss_dssp CCCTTEEECSSSCEEEEEECT---TSSEEEE
T ss_pred ccCCCeEEccCCcEEEEEEcC---CCCEEEE
Confidence 367899999999999999774 5676543
No 6
>1x60_A Sporulation-specific N-acetylmuramoyl-L-alanine amidase; CWLC, CWLCR, peptidoglycan, cell WALL lytic amidase, tandem repeats, hydrolase; NMR {Bacillus subtilis}
Probab=41.17 E-value=19 Score=23.67 Aligned_cols=23 Identities=22% Similarity=0.313 Sum_probs=18.9
Q ss_pred cEEecccCCCHHHHHHHHHHHHH
Q 039729 92 ARVWLGTYDTPEGAALAYDRAAF 114 (179)
Q Consensus 92 kri~LG~F~T~EeAA~AYD~Aa~ 114 (179)
-+|++|.|.+.++|..+.++...
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 46888999999999988766554
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=34.85 E-value=25 Score=23.33 Aligned_cols=23 Identities=26% Similarity=0.348 Sum_probs=19.0
Q ss_pred cEEecccCCCHHHHHHHHHHHHH
Q 039729 92 ARVWLGTYDTPEGAALAYDRAAF 114 (179)
Q Consensus 92 kri~LG~F~T~EeAA~AYD~Aa~ 114 (179)
-||.+|-|.+.++|..+.++...
T Consensus 46 yRV~vGpf~s~~~A~~~~~~L~~ 68 (81)
T 1uta_A 46 NRVVIGPVKGKENADSTLNRLKM 68 (81)
T ss_dssp EEEEESSCBTTTHHHHHHHHHHH
T ss_pred EEEEECCcCCHHHHHHHHHHHHH
Confidence 57888999999999988766554
No 8
>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=33.12 E-value=66 Score=23.69 Aligned_cols=37 Identities=16% Similarity=0.161 Sum_probs=27.6
Q ss_pred CcEEEEEecCCCCCCcEEe-cccCCCHHHHHHHHHHHHHhhcC
Q 039729 77 GKFAAEIRDPNKKNGARVW-LGTYDTPEGAALAYDRAAFNMRG 118 (179)
Q Consensus 77 gkW~A~I~~~~~~~gkri~-LG~F~T~EeAA~AYD~Aa~~~~G 118 (179)
--|+|.|. -|+-++ ++...+++.|..|...|+.+|-+
T Consensus 78 ~~wva~Vk-----~G~ilfEi~g~~~~~~a~eAlr~a~~KlP~ 115 (118)
T 2ftc_I 78 DHYVTPVK-----AGRLVVEMGGRCEFEEVQGFLDQVAHKLPF 115 (118)
T ss_pred cEEEEEEC-----CCCEEEEEeccCCHHHHHHHHHHHHhhCCC
Confidence 34999994 344444 55558899999999999998743
No 9
>3jtz_A Integrase; four stranded beta-sheet, DNA binding protein; 1.30A {Yersinia pestis} PDB: 3rmp_A
Probab=26.75 E-value=70 Score=22.03 Aligned_cols=38 Identities=16% Similarity=0.172 Sum_probs=25.7
Q ss_pred CcEEEEEecCCCCCCcEEecccCC--CHHHHHHHHHHHHHhh
Q 039729 77 GKFAAEIRDPNKKNGARVWLGTYD--TPEGAALAYDRAAFNM 116 (179)
Q Consensus 77 gkW~A~I~~~~~~~gkri~LG~F~--T~EeAA~AYD~Aa~~~ 116 (179)
..|+-+.+.. ...+++-||.|. |.+||....+++...+
T Consensus 36 K~w~~ryr~~--Gk~~~~~LG~yp~~sL~~AR~~a~~~r~~l 75 (88)
T 3jtz_A 36 RHWYLKYRIS--GKESRIALGAYPAISLSDARQQREGIRKML 75 (88)
T ss_dssp EEEEEEEEET--TEEEEEEEEETTTSCHHHHHHHHHHHHHHH
T ss_pred EEEEEEEEeC--CeEEEEEeECCCCCCHHHHHHHHHHHHHHH
Confidence 3588887642 112457899996 6888887777766655
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=21.08 E-value=1.2e+02 Score=22.97 Aligned_cols=34 Identities=24% Similarity=0.210 Sum_probs=26.0
Q ss_pred EEEEEecCCCCCCcEEe-cccCCCHHHHHHHHHHHHHhhcC
Q 039729 79 FAAEIRDPNKKNGARVW-LGTYDTPEGAALAYDRAAFNMRG 118 (179)
Q Consensus 79 W~A~I~~~~~~~gkri~-LG~F~T~EeAA~AYD~Aa~~~~G 118 (179)
|+|.|. -|+-++ ++. .+++.|..|...|+.+|-+
T Consensus 92 wva~Vk-----~G~ilfEi~g-~~~~~A~eAlr~a~~KLP~ 126 (136)
T 3r8s_M 92 WVALIQ-----PGKVLYEMDG-VPEELAREAFKLAAAKLPI 126 (136)
T ss_dssp EEEEEC-----TTCEEEEEES-SCHHHHHHHHHHHHTTCSS
T ss_pred EEEEEC-----CCCEEEEEeC-CCHHHHHHHHHHHHhcCCC
Confidence 999993 345544 555 5899999999999988744
Done!