Query psy5589
Match_columns 60
No_of_seqs 101 out of 182
Neff 5.6
Searched_HMMs 46136
Date Fri Aug 16 21:24:21 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5589.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5589hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03098 An_peroxidase: Animal 99.8 8.5E-20 1.8E-24 133.5 3.2 59 1-59 23-86 (530)
2 KOG2408|consensus 99.8 5.5E-19 1.2E-23 134.5 4.6 58 1-59 173-234 (719)
3 PLN02283 alpha-dioxygenase 99.1 1.6E-10 3.4E-15 87.6 5.2 53 1-59 107-160 (633)
4 COG2186 FadR Transcriptional r 49.9 16 0.00035 24.5 2.3 20 11-31 25-44 (241)
5 COG1725 Predicted transcriptio 39.9 28 0.0006 22.0 2.1 19 12-31 27-45 (125)
6 KOG3958|consensus 38.1 23 0.00049 26.2 1.7 12 47-58 312-323 (371)
7 PF13940 Ldr_toxin: Toxin Ldr, 33.7 38 0.00083 17.1 1.6 12 48-59 3-14 (35)
8 PF11055 Gsf2: Glucose signall 32.5 27 0.00058 26.0 1.3 18 43-60 171-188 (377)
9 TIGR00799 mtp Golgi 4-transmem 27.3 25 0.00053 24.9 0.4 19 6-24 232-254 (258)
10 PF11591 2Fe-2S_Ferredox: Ferr 26.9 22 0.00048 17.7 0.1 10 20-29 23-32 (34)
11 PRK14954 DNA polymerase III su 26.7 42 0.00091 26.1 1.6 17 44-60 502-518 (620)
12 COG2880 Uncharacterized protei 25.9 15 0.00032 21.1 -0.7 13 5-17 7-19 (67)
13 PRK04984 fatty acid metabolism 21.3 92 0.002 20.2 2.2 20 11-31 22-41 (239)
No 1
>PF03098 An_peroxidase: Animal haem peroxidase; InterPro: IPR002007 Peroxidases are haem-containing enzymes that use hydrogen peroxide as the electron acceptor to catalyse a number of oxidative reactions. Peroxidases are found in bacteria, fungi, plants and animals. On the basis of sequence similarity, a number of animal haem peroxidases can be categorised as members of a superfamily: myeloperoxidase (MPO); eosinophil peroxidase (EPO); lactoperoxidase (LPO); thyroid peroxidase (TPO); prostaglandin H synthase (PGHS); and peroxidasin [, , ]. MPO plays a major role in the oxygen-dependent microbicidal system of neutrophils. EPO from eosinophilic granulocytes participates in immunological reactions, and potentiates tumor necrosis factor (TNF) production and hydrogen peroxide release by human monocyte-derived macrophages [, ]. In the main, MPO (and possibly EPO) utilises Cl-ions and H2O2 to form hypochlorous acid (HOCl), which can effectively kill bacteria or parasites. In secreted fluids, LPO catalyses the oxidation of thiocyanate ions (SCN-) by H2O2, producing the weak oxidising agent hypothiocyanite (OSCN-), which has bacteriostatic activity []. TPO uses I- ions and H2O2 to generate iodine, and plays a central role in the biosynthesis of thyroid hormones T(3) and T(4). To date, the 3D structures of MPO and PGHS have been reported. MPO is a homodimer: each monomer consists of a light (A or B) and a heavy (C or D) chain resulting from post-translational excision of 6 residues from the common precursor. Monomers are linked by a single inter-chain disulphide. Each monomer includes a bound calcium ion []. PGHS exists as a symmetric dimer, each monomer of which consists of 3 domains: an N-terminal epidermal growth factor (EGF) like module; a membrane-binding domain; and a large C-terminal catalytic domain containing the cyclooxygenase and the peroxidase active sites. The catalytic domain shows striking structural similarity to MPO. The cyclooxygenase active site, which catalyses the formation of prostaglandin G2 (PGG2) from arachidonic acid, resides at the apex of a long hydrophobic channel, extending from the membrane-binding domain to the centre of the molecule. The peroxidase active site, which catalyses the reduction of PGG2 to PGH2, is located on the other side of the molecule, at the haem binding site []. Both MPO and the catalytic domain of PGHS are mainly alpha-helical, 19 helices being identified as topologically and spatially equivalent; PGHS contains 5 additional N-terminal helices that have no equivalent in MPO. In both proteins, three Asn residues in each monomer are glycosylated.; GO: 0004601 peroxidase activity, 0020037 heme binding, 0006979 response to oxidative stress, 0055114 oxidation-reduction process; PDB: 1FE2_A 1PGG_B 1PGF_A 3N8W_B 1IGZ_A 3KK6_B 3N8Z_A 1Q4G_A 1PTH_A 1EQH_A ....
Probab=99.78 E-value=8.5e-20 Score=133.52 Aligned_cols=59 Identities=37% Similarity=0.643 Sum_probs=44.6
Q ss_pred CccCCCCCCCccccCcCC----CCCCCHHHHhHHHhcCCCC-CCCCCchhHHHHHHHHHHHhhc
Q psy5589 1 MTRKTPPAYSDGVYMLAG----MDRPSPRTLSTLFMKGEDG-QPSMKNRTALLAFFGKFWRKIL 59 (60)
Q Consensus 1 l~Rllp~~Y~DGv~~P~G----~~LP~pR~VS~~i~~~~~~-~~~~~~~t~l~m~fGQfi~h~~ 59 (60)
|.|++||.|+||+++|++ .+|||||.||++|+...++ .+++...|+|+|+|||||+|++
T Consensus 23 ~~Rllp~~Y~dg~~~pr~~~~g~~lP~pR~is~~l~~~~~~~~~~~~~~t~l~~~~gQfi~HDi 86 (530)
T PF03098_consen 23 FRRLLPPAYADGVSEPRGSSNGSPLPNPREISNALFRRKDGFDPSHSGLTALFMQWGQFIDHDI 86 (530)
T ss_dssp -BESS-B--TTSSSBTTTSBTTBS---HHHHHHHHTB-SSGTTBEEEEEEHHHHHHHHHHHHHH
T ss_pred ccccCCccccccccccccccCCccCCCHHHHHHHHhhcccccCCCCCcchHHHHHHHHHHhhhh
Confidence 689999999999999984 6899999999999987653 4555677999999999999987
No 2
>KOG2408|consensus
Probab=99.76 E-value=5.5e-19 Score=134.51 Aligned_cols=58 Identities=26% Similarity=0.392 Sum_probs=51.4
Q ss_pred CccCCCCCCCccccCcCCC----CCCCHHHHhHHHhcCCCCCCCCCchhHHHHHHHHHHHhhc
Q psy5589 1 MTRKTPPAYSDGVYMLAGM----DRPSPRTLSTLFMKGEDGQPSMKNRTALLAFFGKFWRKIL 59 (60)
Q Consensus 1 l~Rllp~~Y~DGv~~P~G~----~LP~pR~VS~~i~~~~~~~~~~~~~t~l~m~fGQfi~h~~ 59 (60)
|.|++||.|+||+++|+|+ +||+||+||++|+.... .+.+.++|+|+|||||||+|+|
T Consensus 173 ~~Rllpp~Yedg~~~p~~~~~~~~lP~~R~vS~~l~~~~~-~~~~~~~~~~~mqwgQFi~HDl 234 (719)
T KOG2408|consen 173 FRRLLPPKYEDGFSTPRGWSDGTPLPSARLVSNKLLSRSF-SPPDSKFNHMAMQWGQFIDHDL 234 (719)
T ss_pred hhccCCccccccccCccccccCCCCCchHHhhHhhhcccc-CCCCcchhHHHHHHHHHhcccc
Confidence 5799999999999999976 67999999999998763 4556778999999999999987
No 3
>PLN02283 alpha-dioxygenase
Probab=99.08 E-value=1.6e-10 Score=87.64 Aligned_cols=53 Identities=19% Similarity=0.251 Sum_probs=42.5
Q ss_pred CccCCCCC-CCccccCcCCCCCCCHHHHhHHHhcCCCCCCCCCchhHHHHHHHHHHHhhc
Q psy5589 1 MTRKTPPA-YSDGVYMLAGMDRPSPRTLSTLFMKGEDGQPSMKNRTALLAFFGKFWRKIL 59 (60)
Q Consensus 1 l~Rllp~~-Y~DGv~~P~G~~LP~pR~VS~~i~~~~~~~~~~~~~t~l~m~fGQfi~h~~ 59 (60)
|.|.+||+ |.||+. +|+||.||+.++......+.....|+|+|+||||++|++
T Consensus 107 f~R~v~p~~~~~~~~------~P~pr~vs~~ll~r~~f~~~~~~~n~~~~~w~Qf~~HD~ 160 (633)
T PLN02283 107 FGRNMPPVDQKDKLL------DPHPSVVATKLLARKKFIDTGKQFNMIAASWIQFMIHDW 160 (633)
T ss_pred cccCCCccccCCCCC------CCCHHHHHHHHHhhccccCCCCcchHHHHHHHHHHHhhh
Confidence 57999996 666655 599999999999855444445567999999999999984
No 4
>COG2186 FadR Transcriptional regulators [Transcription]
Probab=49.92 E-value=16 Score=24.53 Aligned_cols=20 Identities=35% Similarity=0.423 Sum_probs=14.5
Q ss_pred ccccCcCCCCCCCHHHHhHHH
Q psy5589 11 DGVYMLAGMDRPSPRTLSTLF 31 (60)
Q Consensus 11 DGv~~P~G~~LP~pR~VS~~i 31 (60)
+|.+.| |..||+-|+++..+
T Consensus 25 ~g~~~~-G~~LP~EreLae~f 44 (241)
T COG2186 25 SGELPP-GDRLPSERELAERF 44 (241)
T ss_pred cCCCCC-CCCCCCHHHHHHHH
Confidence 455543 88899999888765
No 5
>COG1725 Predicted transcriptional regulators [Transcription]
Probab=39.91 E-value=28 Score=21.98 Aligned_cols=19 Identities=32% Similarity=0.375 Sum_probs=14.0
Q ss_pred cccCcCCCCCCCHHHHhHHH
Q psy5589 12 GVYMLAGMDRPSPRTLSTLF 31 (60)
Q Consensus 12 Gv~~P~G~~LP~pR~VS~~i 31 (60)
|... .|..|||.|+....+
T Consensus 27 g~l~-pGdkLPSvRelA~~~ 45 (125)
T COG1725 27 GELK-PGDKLPSVRELAKDL 45 (125)
T ss_pred CCcC-CCCCCCcHHHHHHHh
Confidence 4443 388999999987765
No 6
>KOG3958|consensus
Probab=38.11 E-value=23 Score=26.17 Aligned_cols=12 Identities=8% Similarity=0.207 Sum_probs=10.2
Q ss_pred HHHHHHHHHHhh
Q psy5589 47 LLAFFGKFWRKI 58 (60)
Q Consensus 47 l~m~fGQfi~h~ 58 (60)
-.|+|||.++|+
T Consensus 312 qa~~Fa~~lthl 323 (371)
T KOG3958|consen 312 QAMQFAQLLTHL 323 (371)
T ss_pred HHHHHHHHHHHH
Confidence 368999999997
No 7
>PF13940 Ldr_toxin: Toxin Ldr, type I toxin-antitoxin system
Probab=33.71 E-value=38 Score=17.14 Aligned_cols=12 Identities=33% Similarity=0.302 Sum_probs=10.4
Q ss_pred HHHHHHHHHhhc
Q psy5589 48 LAFFGKFWRKIL 59 (60)
Q Consensus 48 ~m~fGQfi~h~~ 59 (60)
+.|||-.++|+|
T Consensus 3 Laqlg~~~WhDL 14 (35)
T PF13940_consen 3 LAQLGIAFWHDL 14 (35)
T ss_pred HHHHHHHHHHHh
Confidence 578999999987
No 8
>PF11055 Gsf2: Glucose signalling factor 2; InterPro: IPR022757 This entry represents fungal Glucose singalling factor 2. Gsf2 is localised to the ER and functions to promote the secretion of certain hexose transporters [].
Probab=32.45 E-value=27 Score=26.02 Aligned_cols=18 Identities=33% Similarity=0.322 Sum_probs=15.2
Q ss_pred chhHHHHHHHHHHHhhcC
Q psy5589 43 NRTALLAFFGKFWRKILK 60 (60)
Q Consensus 43 ~~t~l~m~fGQfi~h~~~ 60 (60)
+.+-...||.-|+-||+|
T Consensus 171 ~~~g~~aQ~~FF~~HiiK 188 (377)
T PF11055_consen 171 NYSGVLAQWLFFVFHIIK 188 (377)
T ss_pred CcccHHHHHHHHHHHHHH
Confidence 346688999999999987
No 9
>TIGR00799 mtp Golgi 4-transmembrane spanning transporter. The proteins of the MET family have 4 TMS regions and are located in late endosomal or lysosomal membranes. Substrates of the mouse MTP transporter include thymidine, both nucleoside and nucleobase analogues, antibiotics, anthracyclines, ionophores and steroid hormones. MET transporters may be involved in the subcellular compartmentation of steroid hormones and other compounds.Drug sensitivity by mouse MET was regulated by compounds that inhibit lysosomal function, interface with intracellular cholesterol transport, or modulate the multidrug resistance phenotype of mammalian cells. Thus, MET family members may compartmentalize diverse hydrophobic molecules, thereby affecting cellular drug sensitivity,nucleoside/nucleobase availability and steroid hormone responses.
Probab=27.35 E-value=25 Score=24.94 Aligned_cols=19 Identities=26% Similarity=0.630 Sum_probs=13.2
Q ss_pred CCCCCccccCcC----CCCCCCH
Q psy5589 6 PPAYSDGVYMLA----GMDRPSP 24 (60)
Q Consensus 6 p~~Y~DGv~~P~----G~~LP~p 24 (60)
=|.|||.++.|. |.+-|.|
T Consensus 232 LPsYEeA~~~p~K~p~~~~~PPP 254 (258)
T TIGR00799 232 LPSYEEALSLPEKTPEGDPAPPP 254 (258)
T ss_pred CCCHHHHhcCCccCCCCCCCCCC
Confidence 377888888774 6666654
No 10
>PF11591 2Fe-2S_Ferredox: Ferredoxin chloroplastic transit peptide; InterPro: IPR023383 This entry represent the N-terminal transit peptide of a number of algal petF genes. The peptide is removed during transit into the chloroplast lumen. The structure of chloroplast ferredoxin in water is unstructured however in a 30:70 molar-ratio mixture of 2,2,2-trifluoroethanol, residues 3 to 13 form an alpha-helix. The rest of the peptide remains unstructured []. This domain is the N-terminal of the [2Fe-2S), ferredoxin, from, C.reinhardtii:, petF., This, protein, catalyses, the, final, reaction, in, a, pathway, which, allows, the, production, of, H(2), from, water, in, the, chloroplast, ]. ; PDB: 1FCT_A.
Probab=26.86 E-value=22 Score=17.72 Aligned_cols=10 Identities=60% Similarity=0.856 Sum_probs=4.2
Q ss_pred CCCCHHHHhH
Q psy5589 20 DRPSPRTLST 29 (60)
Q Consensus 20 ~LP~pR~VS~ 29 (60)
.+|++|.+|.
T Consensus 23 arpsart~s~ 32 (34)
T PF11591_consen 23 ARPSARTVSV 32 (34)
T ss_dssp TSSS-S----
T ss_pred cCcccceeec
Confidence 4899999985
No 11
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=26.71 E-value=42 Score=26.11 Aligned_cols=17 Identities=24% Similarity=0.341 Sum_probs=13.8
Q ss_pred hhHHHHHHHHHHHhhcC
Q psy5589 44 RTALLAFFGKFWRKILK 60 (60)
Q Consensus 44 ~t~l~m~fGQfi~h~~~ 60 (60)
.-.+.+-|.||++|+.|
T Consensus 502 ~~~l~~~w~~~~~~~~~ 518 (620)
T PRK14954 502 LEKLRMEWNQFLEHLLK 518 (620)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 35678889999999864
No 12
>COG2880 Uncharacterized protein conserved in archaea [Function unknown]
Probab=25.92 E-value=15 Score=21.11 Aligned_cols=13 Identities=23% Similarity=0.353 Sum_probs=10.6
Q ss_pred CCCCCCccccCcC
Q psy5589 5 TPPAYSDGVYMLA 17 (60)
Q Consensus 5 lp~~Y~DGv~~P~ 17 (60)
+.|.|+|||-.|-
T Consensus 7 IEaiYEnGVfKPL 19 (67)
T COG2880 7 IEAIYENGVLKPL 19 (67)
T ss_pred HHHHHhccccccc
Confidence 4578999999994
No 13
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=21.28 E-value=92 Score=20.21 Aligned_cols=20 Identities=30% Similarity=0.403 Sum_probs=13.8
Q ss_pred ccccCcCCCCCCCHHHHhHHH
Q psy5589 11 DGVYMLAGMDRPSPRTLSTLF 31 (60)
Q Consensus 11 DGv~~P~G~~LP~pR~VS~~i 31 (60)
+|...| |..||+-|+++..+
T Consensus 22 ~g~l~p-G~~LPsE~eLae~~ 41 (239)
T PRK04984 22 NNRFPP-GSILPAERELSELI 41 (239)
T ss_pred cCCCCC-CCcCCCHHHHHHHH
Confidence 344433 88899999887765
Done!