Query 043400
Match_columns 264
No_of_seqs 262 out of 1195
Neff 5.4
Searched_HMMs 29240
Date Mon Mar 25 07:36:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043400.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/043400hhsearch_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-24 4.4E-29 158.4 6.4 60 111-170 2-62 (63)
2 1u3e_M HNH homing endonuclease 98.3 1.5E-08 5.1E-13 85.8 -4.1 76 50-152 71-146 (174)
3 1z1b_A Integrase; protein-DNA 81.2 1.5 5E-05 38.5 4.5 42 113-158 14-55 (356)
4 3igm_B PF14_0633 protein; AP2 76.1 1.6 5.5E-05 32.4 2.6 26 108-135 4-30 (77)
5 3jtz_A Integrase; four strande 45.2 41 0.0014 24.8 5.4 43 115-159 28-76 (88)
6 2ftc_I Mitochondrial ribosomal 39.0 42 0.0014 26.4 4.8 38 121-160 78-115 (118)
7 1b69_A Protein (integrase); in 33.2 31 0.0011 24.9 2.9 23 110-132 10-32 (69)
8 1uta_A FTSN, MSGA, cell divisi 26.5 59 0.002 22.9 3.5 23 134-156 46-68 (81)
9 3ju0_A Phage integrase; four s 26.1 98 0.0034 23.6 4.9 43 115-159 28-76 (108)
10 1x60_A Sporulation-specific N- 24.8 41 0.0014 23.4 2.3 23 134-156 46-68 (79)
11 3r8s_M 50S ribosomal protein L 23.4 74 0.0025 25.6 3.8 36 122-160 91-126 (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=99.90 E-value=1.3e-24 Score=158.39 Aligned_cols=60 Identities=57% Similarity=1.134 Sum_probs=57.5
Q ss_pred ceeeEEECCCCeEEEEEecCCC-CeEeeccCCCCHHHHHHHHHHHHHHhhCCCCCCCCCCC
Q 043400 111 KFRGVRRRPWGRWAAEIRDPNR-RKRLWLGTFDTPEEAASVYDQAAVKLKGANAVTNFPNP 170 (264)
Q Consensus 111 ~yrGVr~r~~gkW~A~I~~~~~-~k~~~LGtf~t~EeAa~Ayd~aa~~l~G~~a~~Nfp~~ 170 (264)
+||||++++||||+|+|++|.. |+++|||+|+|+||||+|||.|+++|+|..+.+|||.+
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 6999999999999999998874 89999999999999999999999999999999999986
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=98.32 E-value=1.5e-08 Score=85.79 Aligned_cols=76 Identities=9% Similarity=-0.044 Sum_probs=54.1
Q ss_pred hhhcccCcccccccccccCcccccccccccccccccccccccccccccCCCCCCCCCCCCcceeeEEECCCCeEEEEEec
Q 043400 50 QVINHVRRVKRHVKQINLNNHHRRQHQQQQRGQQSNKLQHNKKIKRHAHQPPPQSDVTHRKKFRGVRRRPWGRWAAEIRD 129 (264)
Q Consensus 50 ~~idh~~~~K~~nreiNLr~~~~~~~~~~n~~~~~nn~s~~k~~k~~~~~~~~~~~~~~~s~yrGVr~r~~gkW~A~I~~ 129 (264)
.+|+|++++|.||+..||+.++..+ |+++.....++. .++||...+.++|.|.|.
T Consensus 71 ~~v~H~dg~k~nn~~~NL~~~t~~e-N~~~~~~~~~~~-----------------------~~~g~~~~~~~k~~~vi~- 125 (174)
T 1u3e_M 71 LVVDHKDGNKDNNLSTNLRWVTQKI-NVENQMSRGTLN-----------------------VSKAQQIAKIKNQKPIIV- 125 (174)
T ss_dssp CEEEETTSCTTCCCGGGEEEECHHH-HHHHHHHHTCCC-----------------------CHHHHHHHHHHTCCCEEE-
T ss_pred CEEEcCCCCCCCCCHHHcEECCHHH-HhhcccccCccc-----------------------ceeeeeeccCCCCceEEE-
Confidence 4799999999999999999999987 555443322110 012222111156888888
Q ss_pred CCCCeEeeccCCCCHHHHHHHHH
Q 043400 130 PNRRKRLWLGTFDTPEEAASVYD 152 (264)
Q Consensus 130 ~~~~k~~~LGtf~t~EeAa~Ayd 152 (264)
.+ +.++||.|.|.+|||++|.
T Consensus 126 -~~-~~~~~~~f~s~~eAa~~~G 146 (174)
T 1u3e_M 126 -IS-PDGIEKEYPSTKCACEELG 146 (174)
T ss_dssp -EC-TTSCEEEESCHHHHHHHHT
T ss_pred -Ec-CCceEEeeCCHHHHHHHHC
Confidence 66 6678999999999999964
No 3
>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=81.17 E-value=1.5 Score=38.54 Aligned_cols=42 Identities=21% Similarity=0.132 Sum_probs=32.8
Q ss_pred eeEEECCCCeEEEEEecCCCCeEeeccCCCCHHHHHHHHHHHHHHh
Q 043400 113 RGVRRRPWGRWAAEIRDPNRRKRLWLGTFDTPEEAASVYDQAAVKL 158 (264)
Q Consensus 113 rGVr~r~~gkW~A~I~~~~~~k~~~LGtf~t~EeAa~Ayd~aa~~l 158 (264)
.||++++.|.|+.+.. .+|+++.+|. |..||..+...+...+
T Consensus 14 ~~v~~~~~g~~~~r~~--~~gk~~~~g~--t~~eA~~~a~~~~~~~ 55 (356)
T 1z1b_A 14 PNLYIRNNGYYCYRDP--RTGKEFGLGR--DRRIAITEAIQANIEL 55 (356)
T ss_dssp TTEEEETTTEEEEECT--TTCCEEEEES--CHHHHHHHHHHHHHHH
T ss_pred ccceecCCCeEEEEee--cCCeEEECCC--CHHHHHHHHHHHHHHH
Confidence 3688888899998765 7899999996 8888887776655544
No 4
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=76.11 E-value=1.6 Score=32.37 Aligned_cols=26 Identities=23% Similarity=0.309 Sum_probs=20.1
Q ss_pred CCcceeeEEECCC-CeEEEEEecCCCCeE
Q 043400 108 HRKKFRGVRRRPW-GRWAAEIRDPNRRKR 135 (264)
Q Consensus 108 ~~s~yrGVr~r~~-gkW~A~I~~~~~~k~ 135 (264)
.+|+|.||++.+. +.|.|.-.+ +|++
T Consensus 4 ~~Sg~pGVsw~kR~~~WlA~W~e--~g~r 30 (77)
T 3igm_B 4 MSSGYPGVSWNKRMCAWLAFFYD--GASR 30 (77)
T ss_dssp CCSSSTTEEEETTTTEEEEEEEE--TTEE
T ss_pred CCCCCCcEEeecCCceEEEEEec--CCeE
Confidence 4689999986655 999999984 4554
No 5
>3jtz_A Integrase; four stranded beta-sheet, DNA binding protein; 1.30A {Yersinia pestis} PDB: 3rmp_A
Probab=45.20 E-value=41 Score=24.78 Aligned_cols=43 Identities=21% Similarity=0.345 Sum_probs=29.8
Q ss_pred EEECCCC--eEEEEEecCCCC--eEeeccCCC--CHHHHHHHHHHHHHHhh
Q 043400 115 VRRRPWG--RWAAEIRDPNRR--KRLWLGTFD--TPEEAASVYDQAAVKLK 159 (264)
Q Consensus 115 Vr~r~~g--kW~A~I~~~~~~--k~~~LGtf~--t~EeAa~Ayd~aa~~l~ 159 (264)
++-.+.| .|.-+.+ .+| +++-||.|. |.++|....+++...+.
T Consensus 28 L~V~psG~K~w~~ryr--~~Gk~~~~~LG~yp~~sL~~AR~~a~~~r~~l~ 76 (88)
T 3jtz_A 28 LLVKPGGSRHWYLKYR--ISGKESRIALGAYPAISLSDARQQREGIRKMLA 76 (88)
T ss_dssp EEECTTSCEEEEEEEE--ETTEEEEEEEEETTTSCHHHHHHHHHHHHHHHT
T ss_pred EEEecCCCEEEEEEEE--eCCeEEEEEeECCCCCCHHHHHHHHHHHHHHHH
Confidence 4444443 5888887 555 457899997 58888887777766653
No 6
>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=38.99 E-value=42 Score=26.36 Aligned_cols=38 Identities=24% Similarity=0.199 Sum_probs=30.9
Q ss_pred CeEEEEEecCCCCeEeeccCCCCHHHHHHHHHHHHHHhhC
Q 043400 121 GRWAAEIRDPNRRKRLWLGTFDTPEEAASVYDQAAVKLKG 160 (264)
Q Consensus 121 gkW~A~I~~~~~~k~~~LGtf~t~EeAa~Ayd~aa~~l~G 160 (264)
--|+|.|. .+..-+-++...+++.|..|...|+.+|=+
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 34999998 666666677778899999999999998743
No 7
>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=33.20 E-value=31 Score=24.88 Aligned_cols=23 Identities=22% Similarity=0.123 Sum_probs=18.8
Q ss_pred cceeeEEECCCCeEEEEEecCCC
Q 043400 110 KKFRGVRRRPWGRWAAEIRDPNR 132 (264)
Q Consensus 110 s~yrGVr~r~~gkW~A~I~~~~~ 132 (264)
--+.|+.+|+.|+|+++..|..+
T Consensus 10 ~L~~GesqR~dG~Y~yry~d~~G 32 (69)
T 1b69_A 10 ILKTGESQRKDGRYLYKYIDSFG 32 (69)
T ss_dssp CCCTTEEECSSSCEEEEEECTTS
T ss_pred ccCCCeEEccCCcEEEEEEcCCC
Confidence 34678999999999999997544
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=26.55 E-value=59 Score=22.87 Aligned_cols=23 Identities=22% Similarity=0.372 Sum_probs=19.0
Q ss_pred eEeeccCCCCHHHHHHHHHHHHH
Q 043400 134 KRLWLGTFDTPEEAASVYDQAAV 156 (264)
Q Consensus 134 k~~~LGtf~t~EeAa~Ayd~aa~ 156 (264)
-|+++|-|.+.++|..+..+...
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 57889999999999988776554
No 9
>3ju0_A Phage integrase; four stranded beta-sheet, DNA binding protein; 1.60A {Pectobacterium atrosepticum}
Probab=26.08 E-value=98 Score=23.59 Aligned_cols=43 Identities=26% Similarity=0.372 Sum_probs=29.2
Q ss_pred EEECCCC--eEEEEEecCCCC--eEeeccCCC--CHHHHHHHHHHHHHHhh
Q 043400 115 VRRRPWG--RWAAEIRDPNRR--KRLWLGTFD--TPEEAASVYDQAAVKLK 159 (264)
Q Consensus 115 Vr~r~~g--kW~A~I~~~~~~--k~~~LGtf~--t~EeAa~Ayd~aa~~l~ 159 (264)
++-.+.| .|.-+.+ .+| +++-||.|. |..+|....+.+...+.
T Consensus 28 L~V~psG~K~w~~rYr--~~GK~~~~~LG~yp~~SLa~AR~~a~~~r~~l~ 76 (108)
T 3ju0_A 28 LLVHPNGSKYWRLSYR--FEKKQRLLALGVYPAVSLADARQRRDEAKKLLA 76 (108)
T ss_dssp EEECTTSCEEEEEEEE--ETTEEEEEEEEEETTSCHHHHHHHHHHHHHHHH
T ss_pred EEEEcCCCEEEEEEEE--EcCceEEEecCCCCCCCHHHHHHHHHHHHHHHH
Confidence 3444443 4888887 566 456789997 57888877777666653
No 10
>1x60_A Sporulation-specific N-acetylmuramoyl-L-alanine amidase; CWLC, CWLCR, peptidoglycan, cell WALL lytic amidase, tandem repeats, hydrolase; NMR {Bacillus subtilis}
Probab=24.76 E-value=41 Score=23.40 Aligned_cols=23 Identities=17% Similarity=0.377 Sum_probs=18.7
Q ss_pred eEeeccCCCCHHHHHHHHHHHHH
Q 043400 134 KRLWLGTFDTPEEAASVYDQAAV 156 (264)
Q Consensus 134 k~~~LGtf~t~EeAa~Ayd~aa~ 156 (264)
-++++|-|.+.++|..+..+...
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 46889999999999988776554
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=23.39 E-value=74 Score=25.61 Aligned_cols=36 Identities=25% Similarity=0.211 Sum_probs=28.8
Q ss_pred eEEEEEecCCCCeEeeccCCCCHHHHHHHHHHHHHHhhC
Q 043400 122 RWAAEIRDPNRRKRLWLGTFDTPEEAASVYDQAAVKLKG 160 (264)
Q Consensus 122 kW~A~I~~~~~~k~~~LGtf~t~EeAa~Ayd~aa~~l~G 160 (264)
-|+|.|. .+..-+-++. .+++.|..|...|+.+|=+
T Consensus 91 ~wva~Vk--~G~ilfEi~g-~~~~~A~eAlr~a~~KLP~ 126 (136)
T 3r8s_M 91 YWVALIQ--PGKVLYEMDG-VPEELAREAFKLAAAKLPI 126 (136)
T ss_dssp EEEEEEC--TTCEEEEEES-SCHHHHHHHHHHHHTTCSS
T ss_pred EEEEEEC--CCCEEEEEeC-CCHHHHHHHHHHHHhcCCC
Confidence 3999998 6666666777 4899999999999988743
Done!