Query 041516
Match_columns 118
No_of_seqs 101 out of 1054
Neff 6.0
Searched_HMMs 29240
Date Mon Mar 25 13:20:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041516.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/041516hhsearch_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 3.6E-25 1.2E-29 140.3 6.2 61 34-94 2-63 (63)
2 3igm_B PF14_0633 protein; AP2 95.5 0.012 4.3E-07 37.9 3.3 27 30-56 3-30 (77)
3 3jtz_A Integrase; four strande 87.7 1.3 4.6E-05 28.4 5.4 45 38-82 28-76 (88)
4 1u3e_M HNH homing endonuclease 87.1 0.11 3.9E-06 37.0 -0.1 38 35-75 109-146 (174)
5 3ju0_A Phage integrase; four s 81.1 3.1 0.0001 27.7 5.0 44 38-81 28-75 (108)
6 1z1b_A Integrase; protein-DNA 72.4 6 0.00021 29.4 5.1 41 37-81 15-55 (356)
7 1uta_A FTSN, MSGA, cell divisi 71.7 4.2 0.00014 25.0 3.5 33 47-79 36-68 (81)
8 1x60_A Sporulation-specific N- 70.0 2.7 9.4E-05 25.5 2.2 33 47-79 36-68 (79)
9 2ftc_I Mitochondrial ribosomal 43.9 38 0.0013 22.8 4.6 36 45-82 79-114 (118)
10 1b69_A Protein (integrase); in 42.1 38 0.0013 21.0 4.0 31 30-60 7-38 (69)
11 1kcq_A Gelsolin, brevin, ADF, 37.6 58 0.002 20.6 4.6 37 44-80 27-63 (104)
12 1svq_A Severin; actin-binding; 32.2 56 0.0019 21.2 3.9 37 44-80 37-73 (114)
13 2bn8_A CEDA, cell division act 28.8 41 0.0014 21.4 2.5 41 32-75 37-77 (87)
14 3r8s_M 50S ribosomal protein L 27.4 75 0.0026 21.9 4.0 35 45-82 91-125 (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=99.91 E-value=3.6e-25 Score=140.28 Aligned_cols=61 Identities=52% Similarity=0.991 Sum_probs=57.1
Q ss_pred CeeeeEEcCCCcEEEEEecCCC-CeeeeccCCCCHHHHHHHHHHHHHhhcCCCCCCCCCCcc
Q 041516 34 PYKGIRMRKWGKWVAEIREPNK-RSRIWLGSYTTPIAAARAYDTAVFYLRGPSARLNFPELI 94 (118)
Q Consensus 34 ~yrGV~~~~~gkw~A~I~~~~~-~k~~~LG~f~t~eeAA~AYd~aa~~~~G~~a~~Nfp~~~ 94 (118)
+|+||+++++|||+|+|+++.+ ++++|||+|+|+||||+|||.++++++|.++.+|||+++
T Consensus 2 ~yrGV~~r~~gkw~A~I~~~~~~g~r~~LGtf~T~eeAA~AyD~Aa~~~~G~~a~~NFp~~~ 63 (63)
T 1gcc_A 2 HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLRV 63 (63)
T ss_dssp CCTTEEEETTTEEEEEEEETTTTSEEEEEEEESSHHHHHHHHHHHHHHHHSSCCCCSSCTTC
T ss_pred CcccEeeCCCCcEEEEEccccCCCeEEEeeeCCCHHHHHHHHHHHHHHhcCcccccCCCCcC
Confidence 6999999889999999999864 589999999999999999999999999999999999863
No 2
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=95.46 E-value=0.012 Score=37.89 Aligned_cols=27 Identities=22% Similarity=0.421 Sum_probs=21.7
Q ss_pred CCCCCeeeeEEcC-CCcEEEEEecCCCC
Q 041516 30 QQEKPYKGIRMRK-WGKWVAEIREPNKR 56 (118)
Q Consensus 30 ~~~S~yrGV~~~~-~gkw~A~I~~~~~~ 56 (118)
..+|+|.||+|++ .+.|.|+-..+++.
T Consensus 3 ~~~Sg~pGVsw~kR~~~WlA~W~e~g~r 30 (77)
T 3igm_B 3 HMSSGYPGVSWNKRMCAWLAFFYDGASR 30 (77)
T ss_dssp -CCSSSTTEEEETTTTEEEEEEEETTEE
T ss_pred CCCCCCCcEEeecCCceEEEEEecCCeE
Confidence 4689999999986 69999998885433
No 3
>3jtz_A Integrase; four stranded beta-sheet, DNA binding protein; 1.30A {Yersinia pestis} PDB: 3rmp_A
Probab=87.66 E-value=1.3 Score=28.42 Aligned_cols=45 Identities=27% Similarity=0.374 Sum_probs=34.6
Q ss_pred eEEcCCC--cEEEEEecCCCCeeeeccCCC--CHHHHHHHHHHHHHhhc
Q 041516 38 IRMRKWG--KWVAEIREPNKRSRIWLGSYT--TPIAAARAYDTAVFYLR 82 (118)
Q Consensus 38 V~~~~~g--kw~A~I~~~~~~k~~~LG~f~--t~eeAA~AYd~aa~~~~ 82 (118)
|...++| .|+-+.+.+++.+++.||.|. |+.+|....+.+...+-
T Consensus 28 L~V~psG~K~w~~ryr~~Gk~~~~~LG~yp~~sL~~AR~~a~~~r~~l~ 76 (88)
T 3jtz_A 28 LLVKPGGSRHWYLKYRISGKESRIALGAYPAISLSDARQQREGIRKMLA 76 (88)
T ss_dssp EEECTTSCEEEEEEEEETTEEEEEEEEETTTSCHHHHHHHHHHHHHHHT
T ss_pred EEEecCCCEEEEEEEEeCCeEEEEEeECCCCCCHHHHHHHHHHHHHHHH
Confidence 3445544 699998888888999999997 78888888877766653
No 4
>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=87.15 E-value=0.11 Score=37.01 Aligned_cols=38 Identities=13% Similarity=-0.009 Sum_probs=29.0
Q ss_pred eeeeEEcCCCcEEEEEecCCCCeeeeccCCCCHHHHHHHHH
Q 041516 35 YKGIRMRKWGKWVAEIREPNKRSRIWLGSYTTPIAAARAYD 75 (118)
Q Consensus 35 yrGV~~~~~gkw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd 75 (118)
.+||.+...++|.+.|... +.++||.|+|.+||+++|.
T Consensus 109 ~~g~~~~~~~k~~~vi~~~---~~~~~~~f~s~~eAa~~~G 146 (174)
T 1u3e_M 109 SKAQQIAKIKNQKPIIVIS---PDGIEKEYPSTKCACEELG 146 (174)
T ss_dssp HHHHHHHHHHTCCCEEEEC---TTSCEEEESCHHHHHHHHT
T ss_pred eeeeeeccCCCCceEEEEc---CCceEEeeCCHHHHHHHHC
Confidence 4566553346688999884 3478999999999999964
No 5
>3ju0_A Phage integrase; four stranded beta-sheet, DNA binding protein; 1.60A {Pectobacterium atrosepticum}
Probab=81.11 E-value=3.1 Score=27.75 Aligned_cols=44 Identities=25% Similarity=0.295 Sum_probs=33.4
Q ss_pred eEEcCCC--cEEEEEecCCCCeeeeccCCC--CHHHHHHHHHHHHHhh
Q 041516 38 IRMRKWG--KWVAEIREPNKRSRIWLGSYT--TPIAAARAYDTAVFYL 81 (118)
Q Consensus 38 V~~~~~g--kw~A~I~~~~~~k~~~LG~f~--t~eeAA~AYd~aa~~~ 81 (118)
|...++| .|+-+.+.+++.+++.||.|. |+.+|....+.+...+
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 3445544 599998888888999999997 6788887777766655
No 6
>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=72.41 E-value=6 Score=29.41 Aligned_cols=41 Identities=17% Similarity=0.076 Sum_probs=29.4
Q ss_pred eeEEcCCCcEEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHhh
Q 041516 37 GIRMRKWGKWVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFYL 81 (118)
Q Consensus 37 GV~~~~~gkw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~~ 81 (118)
||+.++.|.|..+... .++++.+|. |..||......+...+
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 5777778899988766 445688896 8888887766554443
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=71.73 E-value=4.2 Score=24.96 Aligned_cols=33 Identities=15% Similarity=0.171 Sum_probs=24.9
Q ss_pred EEEEecCCCCeeeeccCCCCHHHHHHHHHHHHH
Q 041516 47 VAEIREPNKRSRIWLGSYTTPIAAARAYDTAVF 79 (118)
Q Consensus 47 ~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~ 79 (118)
.+.|...+.-.++.+|.|.|.++|..+-++...
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 455554445578999999999999988777665
No 8
>1x60_A Sporulation-specific N-acetylmuramoyl-L-alanine amidase; CWLC, CWLCR, peptidoglycan, cell WALL lytic amidase, tandem repeats, hydrolase; NMR {Bacillus subtilis}
Probab=69.98 E-value=2.7 Score=25.52 Aligned_cols=33 Identities=9% Similarity=0.029 Sum_probs=24.0
Q ss_pred EEEEecCCCCeeeeccCCCCHHHHHHHHHHHHH
Q 041516 47 VAEIREPNKRSRIWLGSYTTPIAAARAYDTAVF 79 (118)
Q Consensus 47 ~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~ 79 (118)
.+.|...+.-.++.+|.|.|.++|..+.+....
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 344444334478999999999999988776655
No 9
>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=43.86 E-value=38 Score=22.77 Aligned_cols=36 Identities=14% Similarity=0.147 Sum_probs=29.0
Q ss_pred cEEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHhhc
Q 041516 45 KWVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFYLR 82 (118)
Q Consensus 45 kw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~~~ 82 (118)
-|+|.|.. ...-+-++...+++.|..|...|+.+|=
T Consensus 79 ~wva~Vk~--G~ilfEi~g~~~~~~a~eAlr~a~~KlP 114 (118)
T 2ftc_I 79 HYVTPVKA--GRLVVEMGGRCEFEEVQGFLDQVAHKLP 114 (118)
T ss_pred EEEEEECC--CCEEEEEeccCCHHHHHHHHHHHHhhCC
Confidence 49999988 5555666666889999999999998873
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=42.07 E-value=38 Score=20.95 Aligned_cols=31 Identities=13% Similarity=0.206 Sum_probs=22.2
Q ss_pred CCCCCeeeeEEcCCCcEEEEEecC-CCCeeee
Q 041516 30 QQEKPYKGIRMRKWGKWVAEIREP-NKRSRIW 60 (118)
Q Consensus 30 ~~~S~yrGV~~~~~gkw~A~I~~~-~~~k~~~ 60 (118)
.+.--+.|++.++.|+|+..+.+. |+.+.+|
T Consensus 7 kgr~L~~GesqR~dG~Y~yry~d~~Gkr~~vY 38 (69)
T 1b69_A 7 RGRILKTGESQRKDGRYLYKYIDSFGEPQFVY 38 (69)
T ss_dssp SSSCCCTTEEECSSSCEEEEEECTTSSEEEEE
T ss_pred CCCccCCCeEEccCCcEEEEEEcCCCCEEEEE
Confidence 334557889988899999999875 3334444
No 11
>1kcq_A Gelsolin, brevin, ADF, AGEL; alpha-beta structure, actin-binding protein, familial amyloi finnish type, cadmium binding, metal binding; 1.65A {Homo sapiens} SCOP: d.109.1.1
Probab=37.59 E-value=58 Score=20.65 Aligned_cols=37 Identities=14% Similarity=0.073 Sum_probs=31.3
Q ss_pred CcEEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHh
Q 041516 44 GKWVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFY 80 (118)
Q Consensus 44 gkw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~ 80 (118)
+.-.+.|.+.+..-.+|.|...+..|-..|-+.|...
T Consensus 27 ns~d~FILd~g~~iyvW~G~~s~~~Ek~~A~~~a~~i 63 (104)
T 1kcq_A 27 NNGDCFILDLGNNIHQWCGSNSNRYERLKATQVSKGI 63 (104)
T ss_dssp CTTSEEEEECSSEEEEEECTTCCHHHHHHHHHHHHHH
T ss_pred CCCCeEEEeCCCEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence 4456889998888899999999999999998887554
No 12
>1svq_A Severin; actin-binding; NMR {Dictyostelium discoideum} SCOP: d.109.1.1 PDB: 1svr_A 1svy_A
Probab=32.16 E-value=56 Score=21.22 Aligned_cols=37 Identities=14% Similarity=0.045 Sum_probs=30.2
Q ss_pred CcEEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHh
Q 041516 44 GKWVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFY 80 (118)
Q Consensus 44 gkw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~ 80 (118)
+.=.+.|.+.+..-.+|.|...+..|-..|-..|...
T Consensus 37 ns~D~FILd~g~~iyvW~G~~ss~~Ek~~A~~~a~~i 73 (114)
T 1svq_A 37 NSGDCFLLDAGLTIYQFNGSKSSPQEKNKAAEVARAI 73 (114)
T ss_dssp CTTSEEEEEETTEEEECCCTTCCHHHHHHHHHHHHHH
T ss_pred CCCCeEEEecCCEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence 3335788888888899999999999999998777653
No 13
>2bn8_A CEDA, cell division activator CEDA; cell division activator protein, cell cycle protein; NMR {Escherichia coli} PDB: 2d35_A
Probab=28.83 E-value=41 Score=21.38 Aligned_cols=41 Identities=22% Similarity=0.288 Sum_probs=28.6
Q ss_pred CCCeeeeEEcCCCcEEEEEecCCCCeeeeccCCCCHHHHHHHHH
Q 041516 32 EKPYKGIRMRKWGKWVAEIREPNKRSRIWLGSYTTPIAAARAYD 75 (118)
Q Consensus 32 ~S~yrGV~~~~~gkw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd 75 (118)
--+|+-|..- .|||+|.+..+.. ...--.|..+|.|-+=-+
T Consensus 37 md~frdvw~l-rgkyvafvl~ge~--frrspafsvpesaqrwa~ 77 (87)
T 2bn8_A 37 MDSFRDVWML-RGKYVAFVLMGES--FLRSPAFTVPESAQRWAN 77 (87)
T ss_dssp TTTCTTEEEE-TTEEEEBCCSSSC--CCBCCCBSSHHHHHHHHH
T ss_pred cccchhheee-ccceEEEEEechh--hccCCccCCcHHHHHHHH
Confidence 4568888644 4999999988443 344578999988876533
No 14
>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=27.42 E-value=75 Score=21.88 Aligned_cols=35 Identities=23% Similarity=0.217 Sum_probs=27.8
Q ss_pred cEEEEEecCCCCeeeeccCCCCHHHHHHHHHHHHHhhc
Q 041516 45 KWVAEIREPNKRSRIWLGSYTTPIAAARAYDTAVFYLR 82 (118)
Q Consensus 45 kw~A~I~~~~~~k~~~LG~f~t~eeAA~AYd~aa~~~~ 82 (118)
-|+|.|.. ...-+-++. .+++.|..|...|+.+|=
T Consensus 91 ~wva~Vk~--G~ilfEi~g-~~~~~A~eAlr~a~~KLP 125 (136)
T 3r8s_M 91 YWVALIQP--GKVLYEMDG-VPEELAREAFKLAAAKLP 125 (136)
T ss_dssp EEEEEECT--TCEEEEEES-SCHHHHHHHHHHHHTTCS
T ss_pred EEEEEECC--CCEEEEEeC-CCHHHHHHHHHHHHhcCC
Confidence 39999988 555566666 499999999999988873
Done!