Query 028913
Match_columns 202
No_of_seqs 218 out of 1173
Neff 4.9
Searched_HMMs 29240
Date Mon Mar 25 06:51:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028913.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/028913hhsearch_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 8.1E-25 2.8E-29 154.3 6.6 61 5-65 1-62 (63)
2 3igm_B PF14_0633 protein; AP2 91.8 0.28 9.4E-06 35.5 5.0 23 3-25 4-27 (77)
3 1u3e_M HNH homing endonuclease 77.7 0.33 1.1E-05 38.7 -0.9 37 8-47 110-146 (174)
4 1z1b_A Integrase; protein-DNA 72.0 4 0.00014 33.9 4.4 41 9-53 15-55 (356)
5 3jtz_A Integrase; four strande 53.8 24 0.00083 25.1 5.2 43 11-53 29-75 (88)
6 3ju0_A Phage integrase; four s 38.5 53 0.0018 24.2 5.1 43 11-53 29-75 (108)
7 1x60_A Sporulation-specific N- 33.3 21 0.00073 23.9 2.0 33 19-51 36-68 (79)
8 1b69_A Protein (integrase); in 33.0 33 0.0011 24.0 2.9 22 7-28 12-33 (69)
9 1uta_A FTSN, MSGA, cell divisi 31.2 51 0.0018 22.3 3.7 33 19-51 36-68 (81)
10 2ftc_I Mitochondrial ribosomal 30.7 61 0.0021 24.5 4.4 36 18-55 80-115 (118)
11 2nr5_A Hypothetical protein SO 27.5 39 0.0013 22.9 2.4 19 172-190 3-23 (67)
12 2yu3_A DNA-directed RNA polyme 25.7 41 0.0014 24.6 2.5 18 171-188 32-49 (95)
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=99.91 E-value=8.1e-25 Score=154.32 Aligned_cols=61 Identities=61% Similarity=0.994 Sum_probs=57.2
Q ss_pred CCeeeeeECCCCeEEEEeeeCCC-CeEEecCCcchHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q 028913 5 KKFRGVRQRQWGSWVSEIRHPLL-KRRVWLGTFETAEAAARAYDQAAVLMNGQNAKTNFPIL 65 (202)
Q Consensus 5 SkyRGVr~r~~GkW~A~I~~~~~-~k~i~LGtFdT~EeAA~AYD~AA~k~~G~~A~tNFP~~ 65 (202)
.+||||++++||||+|+|+++.. ++++|||+|+|+||||+|||.|+++++|.++.+|||.+
T Consensus 1 ~~yrGV~~r~~gkw~A~I~~~~~~g~r~~LGtf~T~eeAA~AyD~Aa~~~~G~~a~~NFp~~ 62 (63)
T 1gcc_A 1 KHYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLR 62 (63)
T ss_dssp CCCTTEEEETTTEEEEEEEETTTTSEEEEEEEESSHHHHHHHHHHHHHHHHSSCCCCSSCTT
T ss_pred CCcccEeeCCCCcEEEEEccccCCCeEEEeeeCCCHHHHHHHHHHHHHHhcCcccccCCCCc
Confidence 37999998889999999999864 69999999999999999999999999999999999975
No 2
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=91.76 E-value=0.28 Score=35.52 Aligned_cols=23 Identities=17% Similarity=0.393 Sum_probs=19.7
Q ss_pred CCCCeeee-eECCCCeEEEEeeeC
Q 028913 3 QSKKFRGV-RQRQWGSWVSEIRHP 25 (202)
Q Consensus 3 rsSkyRGV-r~r~~GkW~A~I~~~ 25 (202)
.+|+|.|| +....+.|.|+-.++
T Consensus 4 ~~Sg~pGVsw~kR~~~WlA~W~e~ 27 (77)
T 3igm_B 4 MSSGYPGVSWNKRMCAWLAFFYDG 27 (77)
T ss_dssp CCSSSTTEEEETTTTEEEEEEEET
T ss_pred CCCCCCcEEeecCCceEEEEEecC
Confidence 57999999 566689999998886
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=77.68 E-value=0.33 Score=38.67 Aligned_cols=37 Identities=5% Similarity=-0.040 Sum_probs=27.2
Q ss_pred eeeeECCCCeEEEEeeeCCCCeEEecCCcchHHHHHHHHH
Q 028913 8 RGVRQRQWGSWVSEIRHPLLKRRVWLGTFETAEAAARAYD 47 (202)
Q Consensus 8 RGVr~r~~GkW~A~I~~~~~~k~i~LGtFdT~EeAA~AYD 47 (202)
+||...+.++|.+.|... +.++||.|+|.+|||++|.
T Consensus 110 ~g~~~~~~~k~~~vi~~~---~~~~~~~f~s~~eAa~~~G 146 (174)
T 1u3e_M 110 KAQQIAKIKNQKPIIVIS---PDGIEKEYPSTKCACEELG 146 (174)
T ss_dssp HHHHHHHHHTCCCEEEEC---TTSCEEEESCHHHHHHHHT
T ss_pred eeeeeccCCCCceEEEEc---CCceEEeeCCHHHHHHHHC
Confidence 455222235688888885 4567999999999999965
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=72.04 E-value=4 Score=33.92 Aligned_cols=41 Identities=17% Similarity=0.119 Sum_probs=30.1
Q ss_pred eeeECCCCeEEEEeeeCCCCeEEecCCcchHHHHHHHHHHHHHHh
Q 028913 9 GVRQRQWGSWVSEIRHPLLKRRVWLGTFETAEAAARAYDQAAVLM 53 (202)
Q Consensus 9 GVr~r~~GkW~A~I~~~~~~k~i~LGtFdT~EeAA~AYD~AA~k~ 53 (202)
||++++.|.|..+.... ||++.+|. |..||..+...+...+
T Consensus 15 ~v~~~~~g~~~~r~~~~--gk~~~~g~--t~~eA~~~a~~~~~~~ 55 (356)
T 1z1b_A 15 NLYIRNNGYYCYRDPRT--GKEFGLGR--DRRIAITEAIQANIEL 55 (356)
T ss_dssp TEEEETTTEEEEECTTT--CCEEEEES--CHHHHHHHHHHHHHHH
T ss_pred cceecCCCeEEEEeecC--CeEEECCC--CHHHHHHHHHHHHHHH
Confidence 67777789999876544 77889996 8888877766554444
No 5
>3jtz_A Integrase; four stranded beta-sheet, DNA binding protein; 1.30A {Yersinia pestis} PDB: 3rmp_A
Probab=53.84 E-value=24 Score=25.09 Aligned_cols=43 Identities=16% Similarity=0.279 Sum_probs=29.6
Q ss_pred eECCCC--eEEEEeeeCCCCeEEecCCcc--hHHHHHHHHHHHHHHh
Q 028913 11 RQRQWG--SWVSEIRHPLLKRRVWLGTFE--TAEAAARAYDQAAVLM 53 (202)
Q Consensus 11 r~r~~G--kW~A~I~~~~~~k~i~LGtFd--T~EeAA~AYD~AA~k~ 53 (202)
+-.+.| .|.-+.+.+...+++-||.|. |..+|....+.+...+
T Consensus 29 ~V~psG~K~w~~ryr~~Gk~~~~~LG~yp~~sL~~AR~~a~~~r~~l 75 (88)
T 3jtz_A 29 LVKPGGSRHWYLKYRISGKESRIALGAYPAISLSDARQQREGIRKML 75 (88)
T ss_dssp EECTTSCEEEEEEEEETTEEEEEEEEETTTSCHHHHHHHHHHHHHHH
T ss_pred EEecCCCEEEEEEEEeCCeEEEEEeECCCCCCHHHHHHHHHHHHHHH
Confidence 444444 488888876444678999997 5788877776665554
No 6
>3ju0_A Phage integrase; four stranded beta-sheet, DNA binding protein; 1.60A {Pectobacterium atrosepticum}
Probab=38.51 E-value=53 Score=24.25 Aligned_cols=43 Identities=23% Similarity=0.305 Sum_probs=29.1
Q ss_pred eECCCC--eEEEEeeeCCCCeEEecCCcc--hHHHHHHHHHHHHHHh
Q 028913 11 RQRQWG--SWVSEIRHPLLKRRVWLGTFE--TAEAAARAYDQAAVLM 53 (202)
Q Consensus 11 r~r~~G--kW~A~I~~~~~~k~i~LGtFd--T~EeAA~AYD~AA~k~ 53 (202)
+-.+.| .|.-+.+.+...+++-||.|. |..+|-...+.+...+
T Consensus 29 ~V~psG~K~w~~rYr~~GK~~~~~LG~yp~~SLa~AR~~a~~~r~~l 75 (108)
T 3ju0_A 29 LVHPNGSKYWRLSYRFEKKQRLLALGVYPAVSLADARQRRDEAKKLL 75 (108)
T ss_dssp EECTTSCEEEEEEEEETTEEEEEEEEEETTSCHHHHHHHHHHHHHHH
T ss_pred EEEcCCCEEEEEEEEEcCceEEEecCCCCCCCHHHHHHHHHHHHHHH
Confidence 444544 488888876444678999997 4777777666655554
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=33.35 E-value=21 Score=23.95 Aligned_cols=33 Identities=18% Similarity=0.066 Sum_probs=22.5
Q ss_pred EEEeeeCCCCeEEecCCcchHHHHHHHHHHHHH
Q 028913 19 VSEIRHPLLKRRVWLGTFETAEAAARAYDQAAV 51 (202)
Q Consensus 19 ~A~I~~~~~~k~i~LGtFdT~EeAA~AYD~AA~ 51 (202)
.+.|.....--+|++|.|.+.++|..+-++...
T Consensus 36 ~~~i~~~~~~yRV~vGpf~~~~~A~~~~~~L~~ 68 (79)
T 1x60_A 36 DSIVLLKDGLYKVQIGAFSSKDNADTLAARAKN 68 (79)
T ss_dssp CEEEEEETTEEEEEEEEESSHHHHHHHHHHHHH
T ss_pred CeEEecCCcEEEEEECCcCCHHHHHHHHHHHHH
Confidence 344443322358999999999999888765444
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=33.00 E-value=33 Score=23.98 Aligned_cols=22 Identities=18% Similarity=0.196 Sum_probs=18.4
Q ss_pred eeeeeECCCCeEEEEeeeCCCC
Q 028913 7 FRGVRQRQWGSWVSEIRHPLLK 28 (202)
Q Consensus 7 yRGVr~r~~GkW~A~I~~~~~~ 28 (202)
+.|+++++.|+|+.++.+..++
T Consensus 12 ~~GesqR~dG~Y~yry~d~~Gk 33 (69)
T 1b69_A 12 KTGESQRKDGRYLYKYIDSFGE 33 (69)
T ss_dssp CTTEEECSSSCEEEEEECTTSS
T ss_pred CCCeEEccCCcEEEEEEcCCCC
Confidence 5788999999999999887444
No 9
>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=31.15 E-value=51 Score=22.28 Aligned_cols=33 Identities=21% Similarity=0.172 Sum_probs=23.6
Q ss_pred EEEeeeCCCCeEEecCCcchHHHHHHHHHHHHH
Q 028913 19 VSEIRHPLLKRRVWLGTFETAEAAARAYDQAAV 51 (202)
Q Consensus 19 ~A~I~~~~~~k~i~LGtFdT~EeAA~AYD~AA~ 51 (202)
.+.|.....--+|++|-|.+.++|..+-++...
T Consensus 36 ~a~i~~~~~~yRV~vGpf~s~~~A~~~~~~L~~ 68 (81)
T 1uta_A 36 DSKITTNNGWNRVVIGPVKGKENADSTLNRLKM 68 (81)
T ss_dssp CEEEEECSSSEEEEESSCBTTTHHHHHHHHHHH
T ss_pred CeEEEeCCcEEEEEECCcCCHHHHHHHHHHHHH
Confidence 455554333468999999999999888765544
No 10
>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=30.68 E-value=61 Score=24.49 Aligned_cols=36 Identities=19% Similarity=0.112 Sum_probs=28.7
Q ss_pred EEEEeeeCCCCeEEecCCcchHHHHHHHHHHHHHHhcC
Q 028913 18 WVSEIRHPLLKRRVWLGTFETAEAAARAYDQAAVLMNG 55 (202)
Q Consensus 18 W~A~I~~~~~~k~i~LGtFdT~EeAA~AYD~AA~k~~G 55 (202)
|+|+|... ..-+-++...+++.|..|...|+.++=+
T Consensus 80 wva~Vk~G--~ilfEi~g~~~~~~a~eAlr~a~~KlP~ 115 (118)
T 2ftc_I 80 YVTPVKAG--RLVVEMGGRCEFEEVQGFLDQVAHKLPF 115 (118)
T ss_pred EEEEECCC--CEEEEEeccCCHHHHHHHHHHHHhhCCC
Confidence 99999873 5555666668899999999999988743
No 11
>2nr5_A Hypothetical protein SO2669; PSI-2, MCSG, MAD, structural G protein structure initiative, midwest center for structural genomics; 1.90A {Shewanella oneidensis} SCOP: a.25.6.1
Probab=27.52 E-value=39 Score=22.94 Aligned_cols=19 Identities=42% Similarity=0.510 Sum_probs=14.9
Q ss_pred CCCChHHHHHHH--HHHHHhc
Q 028913 172 NGREDEDRIAMQ--MIEELLN 190 (202)
Q Consensus 172 ~~~~~e~~~~~~--mi~ell~ 190 (202)
..|...||||.| |-||-|+
T Consensus 3 ammtkkeriaiqrsmaeealg 23 (67)
T 2nr5_A 3 AMMTKKERIAIQRSMAEEALG 23 (67)
T ss_dssp -CCCHHHHHHHHHHHHHHHHH
T ss_pred chhhHHHHHHHHHHHHHHHHH
Confidence 458889999988 8888774
No 12
>2yu3_A DNA-directed RNA polymerase III 39 kDa polypeptide F variant; winged helix domain, RNA polymerase III C39 subunit, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=25.67 E-value=41 Score=24.57 Aligned_cols=18 Identities=22% Similarity=0.606 Sum_probs=15.6
Q ss_pred CCCCChHHHHHHHHHHHH
Q 028913 171 GNGREDEDRIAMQMIEEL 188 (202)
Q Consensus 171 ~~~~~~e~~~~~~mi~el 188 (202)
..+++++|++.+|+|++-
T Consensus 32 ~~~Lt~~E~lVy~~I~~a 49 (95)
T 2yu3_A 32 MKGSDNQEKLVYQIIEDA 49 (95)
T ss_dssp CCSCSHHHHHHHHHHHHH
T ss_pred hcCCCHHHHHHHHHHHHh
Confidence 356999999999999984
Done!