Query 044016
Match_columns 342
No_of_seqs 196 out of 1161
Neff 3.6
Searched_HMMs 29240
Date Mon Mar 25 18:28:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044016.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/044016hhsearch_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 3E-23 1E-27 157.3 5.2 60 53-112 2-62 (63)
2 3igm_B PF14_0633 protein; AP2 90.9 0.083 2.9E-06 41.9 1.6 46 49-97 3-58 (77)
3 1u3e_M HNH homing endonuclease 83.4 0.18 6.3E-06 43.2 -0.6 67 18-94 80-146 (174)
4 1z1b_A Integrase; protein-DNA 81.9 1.3 4.5E-05 39.5 4.5 41 56-100 15-55 (356)
5 3jtz_A Integrase; four strande 58.4 15 0.00052 28.6 5.0 44 57-100 28-75 (88)
6 3ju0_A Phage integrase; four s 38.9 38 0.0013 27.3 4.6 44 57-100 28-75 (108)
7 2ftc_I Mitochondrial ribosomal 32.4 54 0.0019 27.1 4.6 37 64-102 79-115 (118)
8 1uta_A FTSN, MSGA, cell divisi 29.3 40 0.0014 24.9 3.0 23 76-98 46-68 (81)
9 1x60_A Sporulation-specific N- 29.0 29 0.00099 25.3 2.2 23 76-98 46-68 (79)
10 1b69_A Protein (integrase); in 28.1 58 0.002 25.0 3.8 24 53-77 11-34 (69)
11 3r8s_M 50S ribosomal protein L 21.8 93 0.0032 26.4 4.3 35 65-102 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=99.87 E-value=3e-23 Score=157.26 Aligned_cols=60 Identities=60% Similarity=1.084 Sum_probs=56.6
Q ss_pred ceEEEEECCCCeEEEEEecCCC-CceEecCCCCCHHHHHHHHHHHHHhhcCCccccCCCCC
Q 044016 53 RFLGVRRRPWGRYAAEIRDPTT-KERHWLGTFDTAHEAALAYDRAALSMKGAQARTNFIYT 112 (342)
Q Consensus 53 rYRGV~~rk~GKW~AqI~~~~~-gKri~LGTFdTaEEAArAYD~AAikl~G~~A~lNFp~s 112 (342)
+||||+++++|||+|+|+++.. |+++|||+|+|+||||+|||+|+++++|.+|++|||.+
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 5999999889999999999864 79999999999999999999999999999999999964
No 2
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=90.90 E-value=0.083 Score=41.87 Aligned_cols=46 Identities=17% Similarity=0.211 Sum_probs=30.4
Q ss_pred CCCCceEEEEECC-CCeEEEEEecCCCCceEe-------cCCC--CCHHHHHHHHHHHH
Q 044016 49 PEPGRFLGVRRRP-WGRYAAEIRDPTTKERHW-------LGTF--DTAHEAALAYDRAA 97 (342)
Q Consensus 49 ~~tSrYRGV~~rk-~GKW~AqI~~~~~gKri~-------LGTF--dTaEEAArAYD~AA 97 (342)
...|+|+||+|.+ .+.|.|.-.+ +|++.. +| | +.+.+||..|.+..
T Consensus 3 ~~~Sg~pGVsw~kR~~~WlA~W~e--~g~rrsRtF~~k~yG-f~~e~Ak~~AIef~k~l 58 (77)
T 3igm_B 3 HMSSGYPGVSWNKRMCAWLAFFYD--GASRRSRTFHPKHFN-MDKEKARLAAVEFMKTV 58 (77)
T ss_dssp -CCSSSTTEEEETTTTEEEEEEEE--TTEEEEEEECCTTHH-HHHHHHHHHHHHHHHHT
T ss_pred CCCCCCCcEEeecCCceEEEEEec--CCeEeeeeechhhcC-cCHHHHHHHHHHHHHHH
Confidence 4568899999887 7999999887 665432 34 4 34555555554443
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=83.39 E-value=0.18 Score=43.25 Aligned_cols=67 Identities=6% Similarity=-0.065 Sum_probs=42.6
Q ss_pred cccccccccchhccCCCCCCCCCCCCCCCCCCCCCceEEEEECCCCeEEEEEecCCCCceEecCCCCCHHHHHHHHH
Q 044016 18 EQGQTQMGFALIQRNPNSTSPSSEKRGRRKQPEPGRFLGVRRRPWGRYAAEIRDPTTKERHWLGTFDTAHEAALAYD 94 (342)
Q Consensus 18 ~~~~~~~~~~~~q~~~~s~s~~~~k~~rrr~~~tSrYRGV~~rk~GKW~AqI~~~~~gKri~LGTFdTaEEAArAYD 94 (342)
+.+++..+|..+....+.......+ ..+ ..+||.+.+.++|.+.|.. + +.++||.|+|.+|||++|.
T Consensus 80 k~nn~~~NL~~~t~~eN~~~~~~~~-----~~~--~~~g~~~~~~~k~~~vi~~--~-~~~~~~~f~s~~eAa~~~G 146 (174)
T 1u3e_M 80 KDNNLSTNLRWVTQKINVENQMSRG-----TLN--VSKAQQIAKIKNQKPIIVI--S-PDGIEKEYPSTKCACEELG 146 (174)
T ss_dssp TTCCCGGGEEEECHHHHHHHHHHHT-----CCC--CHHHHHHHHHHTCCCEEEE--C-TTSCEEEESCHHHHHHHHT
T ss_pred CCCCCHHHcEECCHHHHhhcccccC-----ccc--ceeeeeeccCCCCceEEEE--c-CCceEEeeCCHHHHHHHHC
Confidence 5567777777766655322211100 011 1456655224679999998 5 6778999999999999964
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=81.94 E-value=1.3 Score=39.45 Aligned_cols=41 Identities=20% Similarity=0.122 Sum_probs=30.9
Q ss_pred EEEECCCCeEEEEEecCCCCceEecCCCCCHHHHHHHHHHHHHhh
Q 044016 56 GVRRRPWGRYAAEIRDPTTKERHWLGTFDTAHEAALAYDRAALSM 100 (342)
Q Consensus 56 GV~~rk~GKW~AqI~~~~~gKri~LGTFdTaEEAArAYD~AAikl 100 (342)
||++++.|+|+.+... +||++.+|. |..||..+..++...+
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 5777778899887665 788899996 8888877766554444
No 5
>3jtz_A Integrase; four stranded beta-sheet, DNA binding protein; 1.30A {Yersinia pestis} PDB: 3rmp_A
Probab=58.39 E-value=15 Score=28.61 Aligned_cols=44 Identities=16% Similarity=0.222 Sum_probs=30.5
Q ss_pred EEECCCC--eEEEEEecCCCCceEecCCCC--CHHHHHHHHHHHHHhh
Q 044016 57 VRRRPWG--RYAAEIRDPTTKERHWLGTFD--TAHEAALAYDRAALSM 100 (342)
Q Consensus 57 V~~rk~G--KW~AqI~~~~~gKri~LGTFd--TaEEAArAYD~AAikl 100 (342)
|+..+.| .|+-+.+...+.+++-||.|. |.+||....+++...+
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 4455543 598888873334678999997 5888887777766655
No 6
>3ju0_A Phage integrase; four stranded beta-sheet, DNA binding protein; 1.60A {Pectobacterium atrosepticum}
Probab=38.89 E-value=38 Score=27.35 Aligned_cols=44 Identities=18% Similarity=0.181 Sum_probs=29.5
Q ss_pred EEECCCC--eEEEEEecCCCCceEecCCCC--CHHHHHHHHHHHHHhh
Q 044016 57 VRRRPWG--RYAAEIRDPTTKERHWLGTFD--TAHEAALAYDRAALSM 100 (342)
Q Consensus 57 V~~rk~G--KW~AqI~~~~~gKri~LGTFd--TaEEAArAYD~AAikl 100 (342)
|+..+.| .|+-+.+...+.+++-||.|. |.+||....+++...+
T Consensus 28 L~V~psG~K~w~~rYr~~GK~~~~~LG~yp~~SLa~AR~~a~~~r~~l 75 (108)
T 3ju0_A 28 LLVHPNGSKYWRLSYRFEKKQRLLALGVYPAVSLADARQRRDEAKKLL 75 (108)
T ss_dssp EEECTTSCEEEEEEEEETTEEEEEEEEEETTSCHHHHHHHHHHHHHHH
T ss_pred EEEEcCCCEEEEEEEEEcCceEEEecCCCCCCCHHHHHHHHHHHHHHH
Confidence 4455544 498888873334568899997 4788877766665555
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=32.39 E-value=54 Score=27.12 Aligned_cols=37 Identities=14% Similarity=0.049 Sum_probs=30.4
Q ss_pred eEEEEEecCCCCceEecCCCCCHHHHHHHHHHHHHhhcC
Q 044016 64 RYAAEIRDPTTKERHWLGTFDTAHEAALAYDRAALSMKG 102 (342)
Q Consensus 64 KW~AqI~~~~~gKri~LGTFdTaEEAArAYD~AAikl~G 102 (342)
-|+|+|.. +..-+-++...+++.|..|..+|+.+|-+
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 39999987 66666777768899999999999998743
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=29.26 E-value=40 Score=24.93 Aligned_cols=23 Identities=17% Similarity=0.286 Sum_probs=18.8
Q ss_pred ceEecCCCCCHHHHHHHHHHHHH
Q 044016 76 ERHWLGTFDTAHEAALAYDRAAL 98 (342)
Q Consensus 76 Kri~LGTFdTaEEAArAYD~AAi 98 (342)
-|+.+|-|.+.+||.++-++...
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 47888999999999988776554
No 9
>1x60_A Sporulation-specific N-acetylmuramoyl-L-alanine amidase; CWLC, CWLCR, peptidoglycan, cell WALL lytic amidase, tandem repeats, hydrolase; NMR {Bacillus subtilis}
Probab=29.02 E-value=29 Score=25.34 Aligned_cols=23 Identities=22% Similarity=0.234 Sum_probs=18.6
Q ss_pred ceEecCCCCCHHHHHHHHHHHHH
Q 044016 76 ERHWLGTFDTAHEAALAYDRAAL 98 (342)
Q Consensus 76 Kri~LGTFdTaEEAArAYD~AAi 98 (342)
-++++|.|.+.+||.++-++...
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 46788999999999988776554
No 10
>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=28.09 E-value=58 Score=25.04 Aligned_cols=24 Identities=29% Similarity=0.230 Sum_probs=19.1
Q ss_pred ceEEEEECCCCeEEEEEecCCCCce
Q 044016 53 RFLGVRRRPWGRYAAEIRDPTTKER 77 (342)
Q Consensus 53 rYRGV~~rk~GKW~AqI~~~~~gKr 77 (342)
-+.|+++++.|+|++++.+.. |++
T Consensus 11 L~~GesqR~dG~Y~yry~d~~-Gkr 34 (69)
T 1b69_A 11 LKTGESQRKDGRYLYKYIDSF-GEP 34 (69)
T ss_dssp CCTTEEECSSSCEEEEEECTT-SSE
T ss_pred cCCCeEEccCCcEEEEEEcCC-CCE
Confidence 478899999999999999843 443
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=21.81 E-value=93 Score=26.42 Aligned_cols=35 Identities=20% Similarity=0.030 Sum_probs=29.3
Q ss_pred EEEEEecCCCCceEecCCCCCHHHHHHHHHHHHHhhcC
Q 044016 65 YAAEIRDPTTKERHWLGTFDTAHEAALAYDRAALSMKG 102 (342)
Q Consensus 65 W~AqI~~~~~gKri~LGTFdTaEEAArAYD~AAikl~G 102 (342)
|+|+|.. +..-+-++. .+++.|..|..+|+.+|-+
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 666667777 4999999999999998854
Done!