Query 043933
Match_columns 128
No_of_seqs 157 out of 1034
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 09:41:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043933.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043933hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05699 Dimer_Tnp_hAT: hAT fa 99.3 1.1E-12 2.3E-17 81.7 2.3 49 78-126 29-77 (86)
2 KOG1121 Tam3-transposase (Ac f 93.9 0.026 5.6E-07 46.7 1.2 47 80-126 570-616 (641)
3 PF13683 rve_3: Integrase core 57.0 3.4 7.4E-05 23.9 -0.1 18 95-112 12-29 (67)
4 PF03440 APT: Aerolysin/Pertus 56.8 5.5 0.00012 24.6 0.8 12 111-122 33-44 (83)
5 PF13586 DDE_Tnp_1_2: Transpos 37.8 16 0.00034 22.2 0.7 12 101-112 49-60 (88)
6 PRK14702 insertion element IS2 34.0 22 0.00048 26.4 1.1 16 96-111 188-203 (262)
7 PRK09409 IS2 transposase TnpB; 33.7 23 0.00049 26.9 1.2 16 96-111 227-242 (301)
8 PRK06253 O-phosphoseryl-tRNA s 33.0 93 0.002 25.9 4.6 61 4-65 77-139 (529)
9 PHA02517 putative transposase 30.1 24 0.00052 26.0 0.8 16 96-111 205-220 (277)
10 PF06825 HSBP1: Heat shock fac 28.7 25 0.00055 19.9 0.5 21 2-22 11-31 (54)
11 PF11324 DUF3126: Protein of u 27.8 26 0.00056 20.5 0.5 18 109-126 2-19 (63)
12 TIGR00470 sepS O-phosphoseryl- 27.5 2.2E+02 0.0048 23.7 5.8 60 4-65 77-138 (533)
13 KOG2621 Prohibitins and stomat 26.2 53 0.0012 25.0 2.0 26 87-118 39-64 (288)
14 COG2024 Phenylalanyl-tRNA synt 24.9 3.2E+02 0.0069 22.2 6.1 59 5-65 78-138 (536)
15 PRK12821 aspartyl/glutamyl-tRN 24.4 2.4E+02 0.0051 23.2 5.4 33 31-63 387-419 (477)
16 PF09322 DUF1979: Domain of un 22.5 43 0.00093 18.9 0.7 13 101-116 38-50 (58)
17 PF00665 rve: Integrase core d 20.3 43 0.00093 20.7 0.5 16 96-111 103-118 (120)
No 1
>PF05699 Dimer_Tnp_hAT: hAT family C-terminal dimerisation region; InterPro: IPR008906 This dimerisation domain is found at the C terminus of the transposases of elements belonging to the Activator superfamily (hAT element superfamily). The isolated dimerisation domain forms extremely stable dimers in vitro [].; GO: 0046983 protein dimerization activity; PDB: 2BW3_A.
Probab=99.30 E-value=1.1e-12 Score=81.65 Aligned_cols=49 Identities=27% Similarity=0.356 Sum_probs=40.1
Q ss_pred cCCCchhHHHHHHHhhhcccccchhhhhhhhhhhhhhhhccCCCccccc
Q 043933 78 KDKVYPLVYQLVTLALILPVAIATVERVFSSMTFVKNLLRNRMGDQWLM 126 (128)
Q Consensus 78 ~~~~fpnl~~ll~i~ltlPvssa~~ERsFS~lk~iKt~lRstm~~~rL~ 126 (128)
....||+++++++.++++|+|+|.+||+||+++++++.-|++++.+.+.
T Consensus 29 ~~~~fP~L~~lA~~~Lsip~ss~~~ER~FS~~~~~~~~~r~~l~~~~~~ 77 (86)
T PF05699_consen 29 NSSRFPNLAKLARKYLSIPASSASSERSFSAMGKILTRNRNRLSPENVE 77 (86)
T ss_dssp TTTTSHHHHHHHHHHHTS-S-TTTTHHHHHHTHHHHH-TTT---HHHHH
T ss_pred CchhchHHHHHHHHHHHhhccccccccccchhhcccccCccCCCHHHHH
Confidence 6778999999999999999999999999999999999999999987654
No 2
>KOG1121 consensus Tam3-transposase (Ac family) [Replication, recombination and repair]
Probab=93.93 E-value=0.026 Score=46.66 Aligned_cols=47 Identities=23% Similarity=0.248 Sum_probs=43.6
Q ss_pred CCchhHHHHHHHhhhcccccchhhhhhhhhhhhhhhhccCCCccccc
Q 043933 80 KVYPLVYQLVTLALILPVAIATVERVFSSMTFVKNLLRNRMGDQWLM 126 (128)
Q Consensus 80 ~~fpnl~~ll~i~ltlPvssa~~ERsFS~lk~iKt~lRstm~~~rL~ 126 (128)
.-||.+.+++.-++.+|+++...|++||.-.++.+..|+.+..+...
T Consensus 570 ~~y~~ls~~a~d~l~~p~~~~~~e~~f~~~~~~~~~~r~~l~~~~~~ 616 (641)
T KOG1121|consen 570 TRYPELSSMARDILSIPITSVASESSFSIGGRVLNKYRSRLLPENVQ 616 (641)
T ss_pred cccchHHHHHHHHHcCcccCccchhhcccCceecCchhccCCchhhH
Confidence 37999999999999999999999999999999999999999887643
No 3
>PF13683 rve_3: Integrase core domain
Probab=56.95 E-value=3.4 Score=23.87 Aligned_cols=18 Identities=22% Similarity=0.174 Sum_probs=14.8
Q ss_pred cccccchhhhhhhhhhhh
Q 043933 95 LPVAIATVERVFSSMTFV 112 (128)
Q Consensus 95 lPvssa~~ERsFS~lk~i 112 (128)
-|-.+|.+||.|.++|.=
T Consensus 12 ~p~~N~~~Er~~~tlK~e 29 (67)
T PF13683_consen 12 SPQDNGKVERFNRTLKRE 29 (67)
T ss_pred Ccccccceeeehhhhccc
Confidence 477899999999998643
No 4
>PF03440 APT: Aerolysin/Pertussis toxin (APT) domain; InterPro: IPR005138 This is the N-terminal domain of aerolysin and pertussis toxin which contains a type-C lectin like fold. Aerolysin causes the pathogenicity of Aeromonas hydrophila, a bacterium associated with diarrhoeal diseases and deep wound infections. Like many other microbial toxins, the protein changes in a multistep process from a completely water-soluble form to produce a transmembrane channel that breaks the permeability barrier of cells []. Pertussis toxin is a major virulence factor of Bordetella pertussis, which causes whooping cough. The protein is a hexamer containing a catalytic subunit (S1) that is tightly associated with a pentameric cell-binding component (B-oligomer). ATP, detergents and phospholipids assist in activating the holotoxin by destabilising the interaction between S1 and the B-oligomer []. Pertussis toxin is an exotoxin and is an essential component of acellular vaccines [, ]. The catalytic A-subunit (S1) shares structural homology with other ADP-ribosylating bacterial toxins, although differences in the carboxy-terminal portion explain its unique activation mechanism []. The diverse biological activities of the toxin depend on its ability to recognise carbohydrate-containing receptors on a wide variety of eukaryotic cells.; GO: 0005488 binding, 0009405 pathogenesis, 0005576 extracellular region; PDB: 1PTO_I 1BCP_C 1PRT_C 3G4N_B 3C0N_B 3C0O_B 1PRE_A 1Z52_B 3C0M_A 3G4O_A ....
Probab=56.77 E-value=5.5 Score=24.56 Aligned_cols=12 Identities=42% Similarity=0.457 Sum_probs=9.8
Q ss_pred hhhhhhccCCCc
Q 043933 111 FVKNLLRNRMGD 122 (128)
Q Consensus 111 ~iKt~lRstm~~ 122 (128)
.+|++|+++|++
T Consensus 33 ~~k~~l~~~mg~ 44 (83)
T PF03440_consen 33 EHKSALVSRMGQ 44 (83)
T ss_dssp HHHHHHHTTS-T
T ss_pred HHHHHHHHhccC
Confidence 389999999987
No 5
>PF13586 DDE_Tnp_1_2: Transposase DDE domain
Probab=37.81 E-value=16 Score=22.23 Aligned_cols=12 Identities=33% Similarity=0.454 Sum_probs=9.6
Q ss_pred hhhhhhhhhhhh
Q 043933 101 TVERVFSSMTFV 112 (128)
Q Consensus 101 ~~ERsFS~lk~i 112 (128)
.+||+|+.|++-
T Consensus 49 ~VEr~f~wlk~~ 60 (88)
T PF13586_consen 49 VVERTFAWLKRF 60 (88)
T ss_pred ehhhhhHHHHHc
Confidence 489999998653
No 6
>PRK14702 insertion element IS2 transposase InsD; Provisional
Probab=34.00 E-value=22 Score=26.38 Aligned_cols=16 Identities=13% Similarity=0.181 Sum_probs=14.4
Q ss_pred ccccchhhhhhhhhhh
Q 043933 96 PVAIATVERVFSSMTF 111 (128)
Q Consensus 96 Pvssa~~ERsFS~lk~ 111 (128)
|..||.+||.|++||.
T Consensus 188 p~dNa~~Erf~~tlK~ 203 (262)
T PRK14702 188 PESNGIAESFVKTIKR 203 (262)
T ss_pred CCcchHHHHHHHHHHH
Confidence 7789999999999975
No 7
>PRK09409 IS2 transposase TnpB; Reviewed
Probab=33.73 E-value=23 Score=26.90 Aligned_cols=16 Identities=13% Similarity=0.181 Sum_probs=14.4
Q ss_pred ccccchhhhhhhhhhh
Q 043933 96 PVAIATVERVFSSMTF 111 (128)
Q Consensus 96 Pvssa~~ERsFS~lk~ 111 (128)
|..||.+||.|++||.
T Consensus 227 p~dNa~~Erf~~tlK~ 242 (301)
T PRK09409 227 PESNGIAESFVKTIKR 242 (301)
T ss_pred CCccchhHHHHHHHHH
Confidence 8889999999999973
No 8
>PRK06253 O-phosphoseryl-tRNA synthetase; Reviewed
Probab=32.98 E-value=93 Score=25.89 Aligned_cols=61 Identities=20% Similarity=0.287 Sum_probs=42.3
Q ss_pred HHHHhhcCcchHHHHHhccccC--CchhhccCCHHHHHHHHHhCCCCcchhhHHHHHHHhhhcc
Q 043933 4 QELNNRFNESNTELLICLARLC--PNDLFAAFDKEKLLRLVEFYPKDFFAIDLIALEMQLDLYR 65 (128)
Q Consensus 4 ~~l~~RF~~~~~~~l~~l~~l~--p~~~~~~~~~~~l~~l~~~y~~~~~~~~~~~l~~e~~~~~ 65 (128)
+++.+.|..+...+|...=-|- |.-. --.+.+.+..+.+....+++.++.+.|+.-++.|+
T Consensus 77 ~~~~~qfg~ea~avldr~fyl~glprp~-vg~~~~~~~~i~~~~~~~~~~~~~e~l~~~lh~yk 139 (529)
T PRK06253 77 QDIYKQFGPEAMAVLDRCFYLAGLPRPN-VGISDEKIEQIEEILGRDLSEEKIESLREVLHSYK 139 (529)
T ss_pred HHHHHhhCHHHHHHHHHhhhhcCCCCCC-CCcCHHHHHHHHHHhCCCCChhHHHHHHHHHHHhh
Confidence 4677888876777765432221 3210 13456777888888888999988889999999987
No 9
>PHA02517 putative transposase OrfB; Reviewed
Probab=30.15 E-value=24 Score=25.99 Aligned_cols=16 Identities=13% Similarity=-0.037 Sum_probs=14.4
Q ss_pred ccccchhhhhhhhhhh
Q 043933 96 PVAIATVERVFSSMTF 111 (128)
Q Consensus 96 Pvssa~~ERsFS~lk~ 111 (128)
|..+|.+||.|+++|.
T Consensus 205 P~~N~~iEr~~~tlK~ 220 (277)
T PHA02517 205 SYDNAPAESINGLYKA 220 (277)
T ss_pred CCCccccchhHhhhhh
Confidence 8899999999999865
No 10
>PF06825 HSBP1: Heat shock factor binding protein 1; InterPro: IPR009643 Heat shock factor binding protein 1 (HSBP1) appears to be a negative regulator of the heat shock response [].; PDB: 3CI9_A.
Probab=28.67 E-value=25 Score=19.86 Aligned_cols=21 Identities=19% Similarity=0.423 Sum_probs=16.3
Q ss_pred hHHHHHhhcCcchHHHHHhcc
Q 043933 2 QLQELNNRFNESNTELLICLA 22 (128)
Q Consensus 2 ii~~l~~RF~~~~~~~l~~l~ 22 (128)
++++++.||..-+.+|+..+.
T Consensus 11 lL~qmq~kFq~mS~~I~~riD 31 (54)
T PF06825_consen 11 LLQQMQDKFQTMSDQILGRID 31 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 578899999877777776665
No 11
>PF11324 DUF3126: Protein of unknown function (DUF3126); InterPro: IPR021473 This family of proteins with unknown function appear to be restricted to Alphaproteobacteria.
Probab=27.82 E-value=26 Score=20.52 Aligned_cols=18 Identities=17% Similarity=0.362 Sum_probs=14.6
Q ss_pred hhhhhhhhccCCCccccc
Q 043933 109 MTFVKNLLRNRMGDQWLM 126 (128)
Q Consensus 109 lk~iKt~lRstm~~~rL~ 126 (128)
++++.+|||.+.+.++|.
T Consensus 2 i~klq~yLr~~f~n~~i~ 19 (63)
T PF11324_consen 2 IKKLQAYLRRTFGNPGIT 19 (63)
T ss_pred hHHHHHHHHHHhCCCceE
Confidence 478899999999887764
No 12
>TIGR00470 sepS O-phosphoseryl-tRNA(Cys) synthetase. This family of archaeal proteins resembles known phenylalanyl-tRNA synthetase alpha chains. Recently, it was shown to act in a proposed pathway of tRNA(Cys) indirect aminoacylation, resulting in Cys biosynthesis from O-phosphoserine, in certain archaea. It charges tRNA(Cys) with O-phosphoserine. The pscS gene product converts the phosphoserine to Cys.
Probab=27.49 E-value=2.2e+02 Score=23.69 Aligned_cols=60 Identities=17% Similarity=0.159 Sum_probs=39.5
Q ss_pred HHHHhhcCcchHHHHHhccccC--CchhhccCCHHHHHHHHHhCCCCcchhhHHHHHHHhhhcc
Q 043933 4 QELNNRFNESNTELLICLARLC--PNDLFAAFDKEKLLRLVEFYPKDFFAIDLIALEMQLDLYR 65 (128)
Q Consensus 4 ~~l~~RF~~~~~~~l~~l~~l~--p~~~~~~~~~~~l~~l~~~y~~~~~~~~~~~l~~e~~~~~ 65 (128)
.++.+.|..+...+|...=-|- |.-. --++.+.+..+.+ ...+++.++.+.|+.-++.|+
T Consensus 77 ~~v~kqfg~ea~avldrcfyl~glprp~-vgis~~~~~~i~~-~g~~~~~~~~e~lr~~lh~yk 138 (533)
T TIGR00470 77 MHIYKQFGPEAMAVLDRCFYLAGLPRPD-VGLGNEKIEIIEN-LGIDIDDEKKERLREVFHLYK 138 (533)
T ss_pred HHHHHhhCHHHHHHHHHhhhhcCCCCCC-cCcCHHHHHHHHH-hCCCCChhHHHHHHHHHHHhh
Confidence 3577888876777765432221 3210 1245566767777 777888888888999999887
No 13
>KOG2621 consensus Prohibitins and stomatins of the PID superfamily [Energy production and conversion]
Probab=26.24 E-value=53 Score=25.00 Aligned_cols=26 Identities=15% Similarity=0.456 Sum_probs=20.0
Q ss_pred HHHHHhhhcccccchhhhhhhhhhhhhhhhcc
Q 043933 87 QLVTLALILPVAIATVERVFSSMTFVKNLLRN 118 (128)
Q Consensus 87 ~ll~i~ltlPvssa~~ERsFS~lk~iKt~lRs 118 (128)
..+-+++|+|+|- |-.+|.+++|-|.
T Consensus 39 S~llvi~TfP~S~------~fclKiv~eYeR~ 64 (288)
T KOG2621|consen 39 SFLLVLMTFPISI------WFCLKIVQEYERA 64 (288)
T ss_pred HHHHHHHHhHHHH------HHHHHhhHHHhhh
Confidence 4455889999994 5568899999774
No 14
>COG2024 Phenylalanyl-tRNA synthetase alpha subunit (archaeal type) [Translation, ribosomal structure and biogenesis]
Probab=24.87 E-value=3.2e+02 Score=22.21 Aligned_cols=59 Identities=20% Similarity=0.179 Sum_probs=32.3
Q ss_pred HHHhhcCcchHHHHHhccccC--CchhhccCCHHHHHHHHHhCCCCcchhhHHHHHHHhhhcc
Q 043933 5 ELNNRFNESNTELLICLARLC--PNDLFAAFDKEKLLRLVEFYPKDFFAIDLIALEMQLDLYR 65 (128)
Q Consensus 5 ~l~~RF~~~~~~~l~~l~~l~--p~~~~~~~~~~~l~~l~~~y~~~~~~~~~~~l~~e~~~~~ 65 (128)
++.+.|..+...+|...=-|- |.-. -.+..+.+..+.+.- .|.+++.++.|+.-++.|+
T Consensus 78 evykQFGpEA~AVLDRCFYLagLPrPd-VGlg~eki~~i~~i~-~d~~de~~e~lrevlh~YK 138 (536)
T COG2024 78 EVYKQFGPEALAVLDRCFYLAGLPRPD-VGLGAEKIEQIEEIG-IDEPDEKVERLREVLHAYK 138 (536)
T ss_pred HHHHHhChHHHHHHHHHHHhcCCCCCC-cCccHHHHHHHHHhc-CCCchhhHHHHHHHHHHHh
Confidence 566777766666654321111 3210 124556665555553 4555556677877777776
No 15
>PRK12821 aspartyl/glutamyl-tRNA amidotransferase subunit C-like protein; Provisional
Probab=24.36 E-value=2.4e+02 Score=23.22 Aligned_cols=33 Identities=18% Similarity=0.278 Sum_probs=28.3
Q ss_pred ccCCHHHHHHHHHhCCCCcchhhHHHHHHHhhh
Q 043933 31 AAFDKEKLLRLVEFYPKDFFAIDLIALEMQLDL 63 (128)
Q Consensus 31 ~~~~~~~l~~l~~~y~~~~~~~~~~~l~~e~~~ 63 (128)
...+.+++.++++.=.-+++++|.+.+..|++.
T Consensus 387 ~~ItkEeVkKLAkLARLeLSEEElEkl~~dLn~ 419 (477)
T PRK12821 387 QQLNKDELKKLARLVMFDLDDAELEKLQVEFKD 419 (477)
T ss_pred ccCCHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence 467888999999988889999999899888876
No 16
>PF09322 DUF1979: Domain of unknown function (DUF1979); InterPro: IPR015401 This N-terminal domain is functionally uncharacterised and found in various Oryza sativa (Rice) mutator-like transposases.
Probab=22.52 E-value=43 Score=18.92 Aligned_cols=13 Identities=38% Similarity=0.519 Sum_probs=8.0
Q ss_pred hhhhhhhhhhhhhhhh
Q 043933 101 TVERVFSSMTFVKNLL 116 (128)
Q Consensus 101 ~~ERsFS~lk~iKt~l 116 (128)
-+||+|-. ||.||
T Consensus 38 pAERs~~s---i~~WL 50 (58)
T PF09322_consen 38 PAERSVPS---IKGWL 50 (58)
T ss_pred hhhhccHH---HHHHH
Confidence 36777766 45554
No 17
>PF00665 rve: Integrase core domain; InterPro: IPR001584 Integrase comprises three domains capable of folding independently and whose three-dimensional structures are known. However, the manner in which the N-terminal, catalytic, and C-terminal domains interact in the holoenzyme remains obscure. Numerous studies indicate that the enzyme functions as a multimer, minimally a dimer. The integrase proteins from Human immunodeficiency virus 1 (HIV-1) and Avian sarcoma virus (ASV) have been studied most carefully with respect to the structural basis of catalysis. Although the active site of ASV integrase does not undergo significant conformational changes on binding the required metal cofactor, that of HIV-1 does. This active site-mediated conformational change in HIV-1 reorganises the catalytic core and C-terminal domains and appears to promote an interaction that is favourable for catalysis []. Retroviral integrase is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. The presence of retrovirus integrase-related gene sequences in eukaryotes is known. Bacterial transposases involved in the transposition of the insertion sequence also belong to this group. HIV integrase catalyses the incorporation of virally derived DNA into the human genome. This unique step in the virus life cycle provides a variety of points for intervention and hence is an attractive target for the development of new therapeutics for the treatment of AIDS []. Substrate recognition by the retroviral integrase enzyme is critical for retroviral integration. To catalyse this recombination event, integrase must recognise and act on two types of substrates, viral DNA and host DNA, yet the necessary interactions exhibit markedly different degrees of specificity [].; GO: 0015074 DNA integration; PDB: 3AO3_A 3OVN_A 3AO5_A 3AO4_A 3AO1_A 1C6V_D 3HPG_A 3HPH_A 3OYD_A 3OYF_B ....
Probab=20.29 E-value=43 Score=20.73 Aligned_cols=16 Identities=25% Similarity=0.233 Sum_probs=13.2
Q ss_pred ccccchhhhhhhhhhh
Q 043933 96 PVAIATVERVFSSMTF 111 (128)
Q Consensus 96 Pvssa~~ERsFS~lk~ 111 (128)
|..++.+||.+-.+++
T Consensus 103 p~~ng~vEr~~~~l~~ 118 (120)
T PF00665_consen 103 PQQNGFVERFNRTLKR 118 (120)
T ss_dssp THHHHHHHHHHHHHHH
T ss_pred hhhccHHHHHHHHHHH
Confidence 6678899999988764
Done!