Query 043029
Match_columns 109
No_of_seqs 158 out of 1218
Neff 6.0
Searched_HMMs 29240
Date Mon Mar 25 21:19:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043029.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/043029hhsearch_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 1.6E-26 5.5E-31 144.4 6.3 62 29-91 2-63 (63)
2 3igm_B PF14_0633 protein; AP2 94.2 0.034 1.2E-06 35.3 2.8 25 25-49 3-28 (77)
3 1u3e_M HNH homing endonuclease 88.7 0.065 2.2E-06 37.7 -0.5 38 30-72 109-146 (174)
4 1z1b_A Integrase; protein-DNA 83.8 1.4 4.8E-05 32.4 4.5 42 31-78 14-55 (356)
5 3jtz_A Integrase; four strande 79.9 5.3 0.00018 25.1 5.6 44 33-78 28-75 (88)
6 3ju0_A Phage integrase; four s 60.0 20 0.00069 23.2 5.1 48 33-82 28-80 (108)
7 1x60_A Sporulation-specific N- 51.9 8.8 0.0003 22.7 2.2 23 54-76 46-68 (79)
8 1uta_A FTSN, MSGA, cell divisi 48.7 11 0.00037 22.6 2.2 23 54-76 46-68 (81)
9 2ftc_I Mitochondrial ribosomal 36.3 56 0.0019 21.6 4.4 36 40-79 79-114 (118)
10 1b69_A Protein (integrase); in 32.1 60 0.0021 19.7 3.7 29 26-57 8-36 (69)
11 3bid_A UPF0339 protein NMB1088 26.3 1E+02 0.0036 18.1 5.2 36 34-72 6-42 (64)
12 2bn8_A CEDA, cell division act 24.6 42 0.0014 21.0 2.0 40 27-71 37-76 (87)
13 1x4e_A RNA binding motif, sing 23.7 48 0.0016 19.0 2.1 33 56-88 49-82 (85)
14 3efd_K KCSA; helix bundle, C-t 20.2 69 0.0023 16.3 1.9 19 63-81 1-19 (30)
15 3eik_A Tata-box-binding protei 20.1 1.5E+02 0.005 21.7 4.5 48 27-79 74-122 (218)
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=1.6e-26 Score=144.37 Aligned_cols=62 Identities=71% Similarity=1.251 Sum_probs=57.5
Q ss_pred CeeeeEECCCCceEEEEeeCCCCCCcEEecCCCCCHHHHHHHHHHHHHHhhCCCCCCCCCCCC
Q 043029 29 SFRGVRKRPWGKFAAEIRDGKKKTGARVWLGTYDTPEDAALAYDRAAFKIHGQKAKLNFPHLI 91 (109)
Q Consensus 29 ~yrGV~~~~~gkw~A~I~~~~~~~Gk~~~LG~f~t~eeAA~AYD~aa~~l~G~~a~~NFp~~~ 91 (109)
+|+||+++++|||+|+|+++.+ +|+++|||+|+|+||||+|||.++++|+|..+.+|||+++
T Consensus 2 ~yrGV~~r~~gkw~A~I~~~~~-~g~r~~LGtf~T~eeAA~AyD~Aa~~~~G~~a~~NFp~~~ 63 (63)
T 1gcc_A 2 HYRGVRQRPWGKFAAEIRDPAK-NGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLRV 63 (63)
T ss_dssp CCTTEEEETTTEEEEEEEETTT-TSEEEEEEEESSHHHHHHHHHHHHHHHHSSCCCCSSCTTC
T ss_pred CcccEeeCCCCcEEEEEccccC-CCeEEEeeeCCCHHHHHHHHHHHHHHhcCcccccCCCCcC
Confidence 6999998889999999999752 4799999999999999999999999999999999999864
No 2
>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}
Probab=94.18 E-value=0.034 Score=35.33 Aligned_cols=25 Identities=20% Similarity=0.286 Sum_probs=20.7
Q ss_pred CCCCCeeeeEECCC-CceEEEEeeCC
Q 043029 25 RLQKSFRGVRKRPW-GKFAAEIRDGK 49 (109)
Q Consensus 25 ~~~s~yrGV~~~~~-gkw~A~I~~~~ 49 (109)
..+|+|.||++.+. +.|.|+...++
T Consensus 3 ~~~Sg~pGVsw~kR~~~WlA~W~e~g 28 (77)
T 3igm_B 3 HMSSGYPGVSWNKRMCAWLAFFYDGA 28 (77)
T ss_dssp -CCSSSTTEEEETTTTEEEEEEEETT
T ss_pred CCCCCCCcEEeecCCceEEEEEecCC
Confidence 35799999998775 89999999854
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=88.75 E-value=0.065 Score=37.68 Aligned_cols=38 Identities=8% Similarity=-0.120 Sum_probs=28.2
Q ss_pred eeeeEECCCCceEEEEeeCCCCCCcEEecCCCCCHHHHHHHHH
Q 043029 30 FRGVRKRPWGKFAAEIRDGKKKTGARVWLGTYDTPEDAALAYD 72 (109)
Q Consensus 30 yrGV~~~~~gkw~A~I~~~~~~~Gk~~~LG~f~t~eeAA~AYD 72 (109)
.+||.....++|.+.|.+. +.++||.|+|.+|||++|.
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 4566542236688999873 4567999999999999964
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=83.78 E-value=1.4 Score=32.41 Aligned_cols=42 Identities=19% Similarity=0.122 Sum_probs=31.3
Q ss_pred eeeEECCCCceEEEEeeCCCCCCcEEecCCCCCHHHHHHHHHHHHHHh
Q 043029 31 RGVRKRPWGKFAAEIRDGKKKTGARVWLGTYDTPEDAALAYDRAAFKI 78 (109)
Q Consensus 31 rGV~~~~~gkw~A~I~~~~~~~Gk~~~LG~f~t~eeAA~AYD~aa~~l 78 (109)
.||+.++.|.|+.+... +||++.+|. |..||..+...+...+
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 36777777889877654 678899996 8888887776655544
No 5
>3jtz_A Integrase; four stranded beta-sheet, DNA binding protein; 1.30A {Yersinia pestis} PDB: 3rmp_A
Probab=79.89 E-value=5.3 Score=25.09 Aligned_cols=44 Identities=23% Similarity=0.312 Sum_probs=30.2
Q ss_pred eEECCCC--ceEEEEeeCCCCCCcEEecCCCC--CHHHHHHHHHHHHHHh
Q 043029 33 VRKRPWG--KFAAEIRDGKKKTGARVWLGTYD--TPEDAALAYDRAAFKI 78 (109)
Q Consensus 33 V~~~~~g--kw~A~I~~~~~~~Gk~~~LG~f~--t~eeAA~AYD~aa~~l 78 (109)
++..+.| .|+-+.+..++. +++-||.|+ |.+||-...+.+...+
T Consensus 28 L~V~psG~K~w~~ryr~~Gk~--~~~~LG~yp~~sL~~AR~~a~~~r~~l 75 (88)
T 3jtz_A 28 LLVKPGGSRHWYLKYRISGKE--SRIALGAYPAISLSDARQQREGIRKML 75 (88)
T ss_dssp EEECTTSCEEEEEEEEETTEE--EEEEEEETTTSCHHHHHHHHHHHHHHH
T ss_pred EEEecCCCEEEEEEEEeCCeE--EEEEeECCCCCCHHHHHHHHHHHHHHH
Confidence 3444554 488888875532 678899998 4888887777666555
No 6
>3ju0_A Phage integrase; four stranded beta-sheet, DNA binding protein; 1.60A {Pectobacterium atrosepticum}
Probab=59.98 E-value=20 Score=23.25 Aligned_cols=48 Identities=27% Similarity=0.268 Sum_probs=31.0
Q ss_pred eEECCCC--ceEEEEeeCCCCCCcEEecCCCCC--HHHHHHHHHHHHHHh-hCCC
Q 043029 33 VRKRPWG--KFAAEIRDGKKKTGARVWLGTYDT--PEDAALAYDRAAFKI-HGQK 82 (109)
Q Consensus 33 V~~~~~g--kw~A~I~~~~~~~Gk~~~LG~f~t--~eeAA~AYD~aa~~l-~G~~ 82 (109)
++..+.| .|.-+.+..++. +.+-||.|+. ..+|-...+.+...+ .|.+
T Consensus 28 L~V~psG~K~w~~rYr~~GK~--~~~~LG~yp~~SLa~AR~~a~~~r~~l~~GiD 80 (108)
T 3ju0_A 28 LLVHPNGSKYWRLSYRFEKKQ--RLLALGVYPAVSLADARQRRDEAKKLLAAGID 80 (108)
T ss_dssp EEECTTSCEEEEEEEEETTEE--EEEEEEEETTSCHHHHHHHHHHHHHHHHTTCC
T ss_pred EEEEcCCCEEEEEEEEEcCce--EEEecCCCCCCCHHHHHHHHHHHHHHHHcCCC
Confidence 3444554 488888875532 6688999984 788877766655554 3443
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=51.88 E-value=8.8 Score=22.74 Aligned_cols=23 Identities=22% Similarity=0.339 Sum_probs=18.8
Q ss_pred cEEecCCCCCHHHHHHHHHHHHH
Q 043029 54 ARVWLGTYDTPEDAALAYDRAAF 76 (109)
Q Consensus 54 k~~~LG~f~t~eeAA~AYD~aa~ 76 (109)
-++.+|.|.+.++|..+.++...
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 47889999999999988775544
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=48.69 E-value=11 Score=22.63 Aligned_cols=23 Identities=26% Similarity=0.374 Sum_probs=19.0
Q ss_pred cEEecCCCCCHHHHHHHHHHHHH
Q 043029 54 ARVWLGTYDTPEDAALAYDRAAF 76 (109)
Q Consensus 54 k~~~LG~f~t~eeAA~AYD~aa~ 76 (109)
-++.+|-|.+.++|..+.++...
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 57899999999999988775554
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=36.26 E-value=56 Score=21.55 Aligned_cols=36 Identities=19% Similarity=0.270 Sum_probs=27.4
Q ss_pred ceEEEEeeCCCCCCcEEecCCCCCHHHHHHHHHHHHHHhh
Q 043029 40 KFAAEIRDGKKKTGARVWLGTYDTPEDAALAYDRAAFKIH 79 (109)
Q Consensus 40 kw~A~I~~~~~~~Gk~~~LG~f~t~eeAA~AYD~aa~~l~ 79 (109)
.|.|.|...+ --+.++...+++.|..|...|+.+|-
T Consensus 79 ~wva~Vk~G~----ilfEi~g~~~~~~a~eAlr~a~~KlP 114 (118)
T 2ftc_I 79 HYVTPVKAGR----LVVEMGGRCEFEEVQGFLDQVAHKLP 114 (118)
T ss_pred EEEEEECCCC----EEEEEeccCCHHHHHHHHHHHHhhCC
Confidence 3999998643 34556666889999999998888763
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=32.07 E-value=60 Score=19.71 Aligned_cols=29 Identities=17% Similarity=0.164 Sum_probs=21.4
Q ss_pred CCCCeeeeEECCCCceEEEEeeCCCCCCcEEe
Q 043029 26 LQKSFRGVRKRPWGKFAAEIRDGKKKTGARVW 57 (109)
Q Consensus 26 ~~s~yrGV~~~~~gkw~A~I~~~~~~~Gk~~~ 57 (109)
+.--..|++.++.|+|+.++.+. .|++.+
T Consensus 8 gr~L~~GesqR~dG~Y~yry~d~---~Gkr~~ 36 (69)
T 1b69_A 8 GRILKTGESQRKDGRYLYKYIDS---FGEPQF 36 (69)
T ss_dssp SSCCCTTEEECSSSCEEEEEECT---TSSEEE
T ss_pred CCccCCCeEEccCCcEEEEEEcC---CCCEEE
Confidence 34567889988899999999874 345543
No 11
>3bid_A UPF0339 protein NMB1088; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.70A {Neisseria meningitidis MC58} SCOP: d.348.1.1
Probab=26.33 E-value=1e+02 Score=18.09 Aligned_cols=36 Identities=17% Similarity=0.287 Sum_probs=27.1
Q ss_pred EECCCCceEEEEeeCCCCCCcEEecCC-CCCHHHHHHHHH
Q 043029 34 RKRPWGKFAAEIRDGKKKTGARVWLGT-YDTPEDAALAYD 72 (109)
Q Consensus 34 ~~~~~gkw~A~I~~~~~~~Gk~~~LG~-f~t~eeAA~AYD 72 (109)
.....|+|+-++... +|..|..+. |.+..+|..+-.
T Consensus 6 ~~~~~G~frfrLka~---NGevI~sSe~Y~sk~~a~~gI~ 42 (64)
T 3bid_A 6 YKDAKGEYRWRLKAA---NHEIIAQGEGYTSKQNCQHAVD 42 (64)
T ss_dssp EECTTSCEEEEEECT---TSCEEEECCCBSCHHHHHHHHH
T ss_pred EECCCCCEEEEEEeC---CCCEEEECCCcCCHHHHHHHHH
Confidence 445669999999873 667877665 999988887643
No 12
>2bn8_A CEDA, cell division activator CEDA; cell division activator protein, cell cycle protein; NMR {Escherichia coli} PDB: 2d35_A
Probab=24.64 E-value=42 Score=21.00 Aligned_cols=40 Identities=28% Similarity=0.302 Sum_probs=27.6
Q ss_pred CCCeeeeEECCCCceEEEEeeCCCCCCcEEecCCCCCHHHHHHHH
Q 043029 27 QKSFRGVRKRPWGKFAAEIRDGKKKTGARVWLGTYDTPEDAALAY 71 (109)
Q Consensus 27 ~s~yrGV~~~~~gkw~A~I~~~~~~~Gk~~~LG~f~t~eeAA~AY 71 (109)
--+|+-|...+ |||.|.+.... .-.---.|..+|.|-+--
T Consensus 37 md~frdvw~lr-gkyvafvl~ge----~frrspafsvpesaqrwa 76 (87)
T 2bn8_A 37 MDSFRDVWMLR-GKYVAFVLMGE----SFLRSPAFTVPESAQRWA 76 (87)
T ss_dssp TTTCTTEEEET-TEEEEBCCSSS----CCCBCCCBSSHHHHHHHH
T ss_pred cccchhheeec-cceEEEEEech----hhccCCccCCcHHHHHHH
Confidence 35788887555 99999998643 223346788888877653
No 13
>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=23.72 E-value=48 Score=18.96 Aligned_cols=33 Identities=27% Similarity=0.243 Sum_probs=20.8
Q ss_pred EecCCCCCHHHHHHHHHHH-HHHhhCCCCCCCCC
Q 043029 56 VWLGTYDTPEDAALAYDRA-AFKIHGQKAKLNFP 88 (109)
Q Consensus 56 ~~LG~f~t~eeAA~AYD~a-a~~l~G~~a~~NFp 88 (109)
+-+=.|.++++|..|.... -..+.|......+|
T Consensus 49 ~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~~~ 82 (85)
T 1x4e_A 49 YGFVDFDSPSAAQKAVTALKASGVQAQMAKQSGP 82 (85)
T ss_dssp EEEEEESCHHHHHHHHHHHHHHTCCEESCCSSCC
T ss_pred EEEEEECCHHHHHHHHHHhcCCeEeeEEEeecCC
Confidence 3444799999999998742 23345555555544
No 14
>3efd_K KCSA; helix bundle, C-terminus, immune system; 2.60A {Escherichia coli}
Probab=20.24 E-value=69 Score=16.29 Aligned_cols=19 Identities=26% Similarity=0.413 Sum_probs=13.2
Q ss_pred CHHHHHHHHHHHHHHhhCC
Q 043029 63 TPEDAALAYDRAAFKIHGQ 81 (109)
Q Consensus 63 t~eeAA~AYD~aa~~l~G~ 81 (109)
+++.|..||-++-+.||-.
T Consensus 1 ~E~Aa~eay~~atRALHeR 19 (30)
T 3efd_K 1 SEKAAEEAYTRTTRALHER 19 (30)
T ss_dssp CCHHHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHH
Confidence 3566778888887777643
No 15
>3eik_A Tata-box-binding protein; DNA-binding, initiation factor, nucleus, transcription; 1.90A {Encephalitozoon cuniculi} PDB: 3oci_A 3oc3_C
Probab=20.14 E-value=1.5e+02 Score=21.70 Aligned_cols=48 Identities=31% Similarity=0.276 Sum_probs=36.5
Q ss_pred CCCeeeeEEC-CCCceEEEEeeCCCCCCcEEecCCCCCHHHHHHHHHHHHHHhh
Q 043029 27 QKSFRGVRKR-PWGKFAAEIRDGKKKTGARVWLGTYDTPEDAALAYDRAAFKIH 79 (109)
Q Consensus 27 ~s~yrGV~~~-~~gkw~A~I~~~~~~~Gk~~~LG~f~t~eeAA~AYD~aa~~l~ 79 (109)
..+|-||..| ..-+-.+.|+. .||-+..|. .++++|..|.++.+..|.
T Consensus 74 Pe~Fpglv~Rl~~Pk~t~LIF~----SGKiV~TGA-kS~e~a~~A~~ki~~~L~ 122 (218)
T 3eik_A 74 PKRFAAVIMRIREPKTTALIFA----SGKMVITGA-KSEKSSRMAAQRYAKIIH 122 (218)
T ss_dssp TTTCSSEEEEETTTTEEEEECT----TSEEEEEEE-SSHHHHHHHHHHHHHHHH
T ss_pred CccCceEEEEecCCcEEEEEEC----CCeEEEEec-CCHHHHHHHHHHHHHHHH
Confidence 3578887644 44677888877 668888887 579999999998887774
Done!