Query 030002
Match_columns 184
No_of_seqs 172 out of 1199
Neff 4.7
Searched_HMMs 29240
Date Mon Mar 25 10:59:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030002.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/030002hhsearch_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 2.9E-26 1E-30 159.8 6.4 63 93-155 1-63 (63)
2 3igm_B PF14_0633 protein; AP2 94.6 0.018 6.2E-07 41.4 2.5 52 90-146 3-64 (77)
3 1u3e_M HNH homing endonuclease 84.3 0.13 4.5E-06 40.4 -1.0 71 62-136 71-146 (174)
4 1z1b_A Integrase; protein-DNA 77.5 3.5 0.00012 33.6 5.3 42 96-142 14-55 (356)
5 2ftc_I Mitochondrial ribosomal 39.4 39 0.0013 25.3 4.5 37 104-144 78-115 (118)
6 2yy0_A C-MYC-binding protein; 29.5 11 0.00039 24.6 0.0 12 12-23 2-13 (53)
7 1x60_A Sporulation-specific N- 29.0 28 0.00096 23.0 2.0 23 118-140 46-68 (79)
8 1b69_A Protein (integrase); in 26.8 83 0.0028 21.7 4.1 28 91-120 8-35 (69)
9 3jtz_A Integrase; four strande 25.8 1.1E+02 0.0036 21.4 4.6 44 98-142 28-75 (88)
10 1uta_A FTSN, MSGA, cell divisi 24.1 44 0.0015 22.3 2.2 23 118-140 46-68 (81)
11 1x4e_A RNA binding motif, sing 21.3 59 0.002 20.9 2.4 34 120-153 49-83 (85)
12 3r8s_M 50S ribosomal protein L 20.0 82 0.0028 24.2 3.3 35 105-144 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=99.93 E-value=2.9e-26 Score=159.83 Aligned_cols=63 Identities=75% Similarity=1.350 Sum_probs=59.6
Q ss_pred ccceeeEEcCCCeEEEEEecCCCCCcEEecCCCCCHHHHHHHHHHHHHHhcCCCCCCCCCCCC
Q 030002 93 KHYRGVRRRPWGKYAAEIRDPARKGSRVWLGTFDSDVDAAKAYDSAAFRMRGRKAILNFPLEA 155 (184)
Q Consensus 93 S~YRGV~~~~~GkW~A~I~~~~~~Gk~i~LGtFdT~eEAArAYD~AA~~l~G~~A~lNFp~~~ 155 (184)
.+||||+++++|||+|+|+++.++|+++|||+|+|+||||+|||.|+++++|..|.+|||.++
T Consensus 1 ~~yrGV~~r~~gkw~A~I~~~~~~g~r~~LGtf~T~eeAA~AyD~Aa~~~~G~~a~~NFp~~~ 63 (63)
T 1gcc_A 1 KHYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLRV 63 (63)
T ss_dssp CCCTTEEEETTTEEEEEEEETTTTSEEEEEEEESSHHHHHHHHHHHHHHHHSSCCCCSSCTTC
T ss_pred CCcccEeeCCCCcEEEEEccccCCCeEEEeeeCCCHHHHHHHHHHHHHHhcCcccccCCCCcC
Confidence 379999999999999999998877899999999999999999999999999999999999874
No 2
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=94.58 E-value=0.018 Score=41.38 Aligned_cols=52 Identities=23% Similarity=0.189 Sum_probs=35.2
Q ss_pred CCCccceeeEEcCC-CeEEEEEecCCCCCcEEe-------cCCC--CCHHHHHHHHHHHHHHhcCCC
Q 030002 90 EERKHYRGVRRRPW-GKYAAEIRDPARKGSRVW-------LGTF--DSDVDAAKAYDSAAFRMRGRK 146 (184)
Q Consensus 90 ~~tS~YRGV~~~~~-GkW~A~I~~~~~~Gk~i~-------LGtF--dT~eEAArAYD~AA~~l~G~~ 146 (184)
..+|+|+||+|.+. +.|.|.-.+ +|++.. +| | +.+.+||-.|-+... -+|+.
T Consensus 3 ~~~Sg~pGVsw~kR~~~WlA~W~e---~g~rrsRtF~~k~yG-f~~e~Ak~~AIef~k~le-~~Gr~ 64 (77)
T 3igm_B 3 HMSSGYPGVSWNKRMCAWLAFFYD---GASRRSRTFHPKHFN-MDKEKARLAAVEFMKTVE-NNGRK 64 (77)
T ss_dssp -CCSSSTTEEEETTTTEEEEEEEE---TTEEEEEEECCTTHH-HHHHHHHHHHHHHHHHTC-SSSCC
T ss_pred CCCCCCCcEEeecCCceEEEEEec---CCeEeeeeechhhcC-cCHHHHHHHHHHHHHHHH-hcCce
Confidence 36899999999987 999999998 566543 44 4 356666666655443 34443
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=84.29 E-value=0.13 Score=40.39 Aligned_cols=71 Identities=8% Similarity=-0.130 Sum_probs=44.2
Q ss_pred CcccccCCCCCCCCCCCCCCCCCC----cC-CcCCCccceeeEEcCCCeEEEEEecCCCCCcEEecCCCCCHHHHHHHHH
Q 030002 62 EPLDITCLGSSNWTESPQKSSEPK----LA-DTEERKHYRGVRRRPWGKYAAEIRDPARKGSRVWLGTFDSDVDAAKAYD 136 (184)
Q Consensus 62 ~~~~~~~~~~~~~~~~p~k~~~~~----~~-~~~~tS~YRGV~~~~~GkW~A~I~~~~~~Gk~i~LGtFdT~eEAArAYD 136 (184)
..+||.+.+..++...+.+-.... .. .......++||.+...++|.+.|.. + +..+||.|+|.+|||++|.
T Consensus 71 ~~v~H~dg~k~nn~~~NL~~~t~~eN~~~~~~~~~~~~~~g~~~~~~~k~~~vi~~---~-~~~~~~~f~s~~eAa~~~G 146 (174)
T 1u3e_M 71 LVVDHKDGNKDNNLSTNLRWVTQKINVENQMSRGTLNVSKAQQIAKIKNQKPIIVI---S-PDGIEKEYPSTKCACEELG 146 (174)
T ss_dssp CEEEETTSCTTCCCGGGEEEECHHHHHHHHHHHTCCCCHHHHHHHHHHTCCCEEEE---C-TTSCEEEESCHHHHHHHHT
T ss_pred CEEEcCCCCCCCCCHHHcEECCHHHHhhcccccCcccceeeeeeccCCCCceEEEE---c-CCceEEeeCCHHHHHHHHC
Confidence 467888877777644433332211 00 0011122567765333679999987 4 5677999999999999964
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=77.51 E-value=3.5 Score=33.65 Aligned_cols=42 Identities=19% Similarity=0.110 Sum_probs=31.2
Q ss_pred eeeEEcCCCeEEEEEecCCCCCcEEecCCCCCHHHHHHHHHHHHHHh
Q 030002 96 RGVRRRPWGKYAAEIRDPARKGSRVWLGTFDSDVDAAKAYDSAAFRM 142 (184)
Q Consensus 96 RGV~~~~~GkW~A~I~~~~~~Gk~i~LGtFdT~eEAArAYD~AA~~l 142 (184)
.||+.++.|.|..+... +|+++.+|. |..||..+...+...+
T Consensus 14 ~~v~~~~~g~~~~r~~~---~gk~~~~g~--t~~eA~~~a~~~~~~~ 55 (356)
T 1z1b_A 14 PNLYIRNNGYYCYRDPR---TGKEFGLGR--DRRIAITEAIQANIEL 55 (356)
T ss_dssp TTEEEETTTEEEEECTT---TCCEEEEES--CHHHHHHHHHHHHHHH
T ss_pred ccceecCCCeEEEEeec---CCeEEECCC--CHHHHHHHHHHHHHHH
Confidence 36777778999988765 688999996 8888877666554443
No 5
>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=39.37 E-value=39 Score=25.28 Aligned_cols=37 Identities=16% Similarity=0.189 Sum_probs=28.9
Q ss_pred CeEEEEEecCCCCCcEEe-cCCCCCHHHHHHHHHHHHHHhcC
Q 030002 104 GKYAAEIRDPARKGSRVW-LGTFDSDVDAAKAYDSAAFRMRG 144 (184)
Q Consensus 104 GkW~A~I~~~~~~Gk~i~-LGtFdT~eEAArAYD~AA~~l~G 144 (184)
-.|+|+|.. |+-++ ++...+++.|..|..+|+.+|=+
T Consensus 78 ~~wva~Vk~----G~ilfEi~g~~~~~~a~eAlr~a~~KlP~ 115 (118)
T 2ftc_I 78 DHYVTPVKA----GRLVVEMGGRCEFEEVQGFLDQVAHKLPF 115 (118)
T ss_pred cEEEEEECC----CCEEEEEeccCCHHHHHHHHHHHHhhCCC
Confidence 459999986 56654 55558899999999999988743
No 6
>2yy0_A C-MYC-binding protein; conserved hypothetical protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.40A {Homo sapiens}
Probab=29.48 E-value=11 Score=24.61 Aligned_cols=12 Identities=33% Similarity=0.606 Sum_probs=0.0
Q ss_pred chHHHHHHhhhc
Q 030002 12 SILEFIRQFLLG 23 (184)
Q Consensus 12 ~~l~~i~~~ll~ 23 (184)
.+|++|+|||.+
T Consensus 2 ~AlefIk~~LG~ 13 (53)
T 2yy0_A 2 SALDFLKHHLGA 13 (53)
T ss_dssp ------------
T ss_pred cHHHHHHHHcCC
Confidence 579999999974
No 7
>1x60_A Sporulation-specific N-acetylmuramoyl-L-alanine amidase; CWLC, CWLCR, peptidoglycan, cell WALL lytic amidase, tandem repeats, hydrolase; NMR {Bacillus subtilis}
Probab=29.01 E-value=28 Score=22.98 Aligned_cols=23 Identities=26% Similarity=0.265 Sum_probs=19.1
Q ss_pred cEEecCCCCCHHHHHHHHHHHHH
Q 030002 118 SRVWLGTFDSDVDAAKAYDSAAF 140 (184)
Q Consensus 118 k~i~LGtFdT~eEAArAYD~AA~ 140 (184)
.++++|.|.+.++|..+-++...
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 57899999999999988776554
No 8
>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=26.84 E-value=83 Score=21.70 Aligned_cols=28 Identities=25% Similarity=0.246 Sum_probs=21.6
Q ss_pred CCccceeeEEcCCCeEEEEEecCCCCCcEE
Q 030002 91 ERKHYRGVRRRPWGKYAAEIRDPARKGSRV 120 (184)
Q Consensus 91 ~tS~YRGV~~~~~GkW~A~I~~~~~~Gk~i 120 (184)
+.--+.|++.++.|+|+.+..+. .|++.
T Consensus 8 gr~L~~GesqR~dG~Y~yry~d~--~Gkr~ 35 (69)
T 1b69_A 8 GRILKTGESQRKDGRYLYKYIDS--FGEPQ 35 (69)
T ss_dssp SSCCCTTEEECSSSCEEEEEECT--TSSEE
T ss_pred CCccCCCeEEccCCcEEEEEEcC--CCCEE
Confidence 45567899999999999999984 35554
No 9
>3jtz_A Integrase; four stranded beta-sheet, DNA binding protein; 1.30A {Yersinia pestis} PDB: 3rmp_A
Probab=25.82 E-value=1.1e+02 Score=21.36 Aligned_cols=44 Identities=23% Similarity=0.305 Sum_probs=27.5
Q ss_pred eEEcCCC--eEEEEEecCCCCCcEEecCCCCC--HHHHHHHHHHHHHHh
Q 030002 98 VRRRPWG--KYAAEIRDPARKGSRVWLGTFDS--DVDAAKAYDSAAFRM 142 (184)
Q Consensus 98 V~~~~~G--kW~A~I~~~~~~Gk~i~LGtFdT--~eEAArAYD~AA~~l 142 (184)
++..+.| .|.-+-+... +-+++-||.|.. ..+|...-+.+...+
T Consensus 28 L~V~psG~K~w~~ryr~~G-k~~~~~LG~yp~~sL~~AR~~a~~~r~~l 75 (88)
T 3jtz_A 28 LLVKPGGSRHWYLKYRISG-KESRIALGAYPAISLSDARQQREGIRKML 75 (88)
T ss_dssp EEECTTSCEEEEEEEEETT-EEEEEEEEETTTSCHHHHHHHHHHHHHHH
T ss_pred EEEecCCCEEEEEEEEeCC-eEEEEEeECCCCCCHHHHHHHHHHHHHHH
Confidence 3455553 5888887632 235578999974 777766666554443
No 10
>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=24.12 E-value=44 Score=22.33 Aligned_cols=23 Identities=17% Similarity=0.328 Sum_probs=19.1
Q ss_pred cEEecCCCCCHHHHHHHHHHHHH
Q 030002 118 SRVWLGTFDSDVDAAKAYDSAAF 140 (184)
Q Consensus 118 k~i~LGtFdT~eEAArAYD~AA~ 140 (184)
.++.+|-|.+.++|..+-++...
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 57999999999999988766554
No 11
>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=21.29 E-value=59 Score=20.87 Aligned_cols=34 Identities=26% Similarity=0.150 Sum_probs=23.5
Q ss_pred EecCCCCCHHHHHHHHHH-HHHHhcCCCCCCCCCC
Q 030002 120 VWLGTFDSDVDAAKAYDS-AAFRMRGRKAILNFPL 153 (184)
Q Consensus 120 i~LGtFdT~eEAArAYD~-AA~~l~G~~A~lNFp~ 153 (184)
+-.=.|.+.++|.+|... --..+.|..+...+|.
T Consensus 49 ~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~~~~ 83 (85)
T 1x4e_A 49 YGFVDFDSPSAAQKAVTALKASGVQAQMAKQSGPS 83 (85)
T ss_dssp EEEEEESCHHHHHHHHHHHHHHTCCEESCCSSCCC
T ss_pred EEEEEECCHHHHHHHHHHhcCCeEeeEEEeecCCC
Confidence 344578999999999874 4445677777666654
No 12
>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=20.01 E-value=82 Score=24.16 Aligned_cols=35 Identities=20% Similarity=0.237 Sum_probs=27.4
Q ss_pred eEEEEEecCCCCCcEEe-cCCCCCHHHHHHHHHHHHHHhcC
Q 030002 105 KYAAEIRDPARKGSRVW-LGTFDSDVDAAKAYDSAAFRMRG 144 (184)
Q Consensus 105 kW~A~I~~~~~~Gk~i~-LGtFdT~eEAArAYD~AA~~l~G 144 (184)
.|+|.|.. |+-++ ++. .+++.|..|..+|+.+|=+
T Consensus 91 ~wva~Vk~----G~ilfEi~g-~~~~~A~eAlr~a~~KLP~ 126 (136)
T 3r8s_M 91 YWVALIQP----GKVLYEMDG-VPEELAREAFKLAAAKLPI 126 (136)
T ss_dssp EEEEEECT----TCEEEEEES-SCHHHHHHHHHHHHTTCSS
T ss_pred EEEEEECC----CCEEEEEeC-CCHHHHHHHHHHHHhcCCC
Confidence 49999986 66654 555 4899999999999987743
Done!