Query psy9604
Match_columns 133
No_of_seqs 122 out of 754
Neff 6.2
Searched_HMMs 46136
Date Sat Aug 17 00:03:40 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9604.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9604hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2408|consensus 100.0 1.8E-40 3.9E-45 295.6 8.3 124 8-133 593-717 (719)
2 PF03098 An_peroxidase: Animal 100.0 3.2E-34 6.9E-39 248.1 7.8 98 7-108 433-530 (530)
3 PLN02283 alpha-dioxygenase 99.9 5E-26 1.1E-30 201.0 7.3 92 7-100 508-601 (633)
4 PF08880 QLQ: QLQ; InterPro: 45.5 18 0.0004 20.8 1.8 25 74-98 1-26 (37)
5 TIGR02167 Liste_lipo_26 bacter 45.0 13 0.00029 19.6 1.1 15 118-132 3-17 (26)
6 PF12080 GldM_C: GldM C-termin 27.9 27 0.00059 26.6 0.8 25 45-69 150-174 (181)
7 PF11919 DUF3437: Domain of un 24.2 17 0.00036 24.9 -0.9 41 42-88 43-83 (90)
8 PRK02866 cyanate hydratase; Va 23.9 1.5E+02 0.0032 22.2 4.1 46 7-56 44-108 (147)
9 PF11198 DUF2857: Protein of u 22.6 1.1E+02 0.0023 23.3 3.1 44 49-96 4-49 (180)
10 PF14040 DNase_NucA_NucB: Deox 21.5 32 0.0007 24.5 0.1 23 40-68 88-113 (114)
11 TIGR00292 thiazole biosynthesi 20.9 41 0.00089 26.7 0.6 26 28-53 215-240 (254)
12 PF04273 DUF442: Putative phos 20.9 61 0.0013 22.7 1.4 32 62-98 6-37 (110)
13 KOG3951|consensus 20.3 94 0.002 25.8 2.5 47 12-60 85-135 (321)
No 1
>KOG2408|consensus
Probab=100.00 E-value=1.8e-40 Score=295.56 Aligned_cols=124 Identities=40% Similarity=0.703 Sum_probs=117.7
Q ss_pred CCHHHHHHHHHHhCCCCchhhhhhhhcCCCCCCCCCcchHHHHHHHHHHHHhhhcCcccccccCCCCCCCHHHHHHHhhc
Q psy9604 8 FFELDIEQLKSVYSSVDLIDLYVGGLYERPTKDGGLFGPTFRNLVAEQFYRWKHGDRYFLTFANQSGSFTLEQLDELRKT 87 (133)
Q Consensus 8 ~~~~~~~~L~~lY~~vddIDL~vGgl~E~~~~~G~~vGptf~cii~~QF~rlr~gDRf~ye~~~~~~~ft~~ql~~I~~~ 87 (133)
+.++++++|+++|+++||||||||+++|+++ +|++||||++|||++||.|+|+|||||||| .+++.||++||+|||++
T Consensus 593 i~~~~~~kl~~lY~~~ddiDL~vG~~~E~~~-~g~~vGPTl~cii~~Qf~r~r~gDRf~yen-~~~~~Ft~~QL~ei~k~ 670 (719)
T KOG2408|consen 593 IEPEIINKLRTLYGTPDDIDLYVGLLLEKPL-PGGLVGPTLACIIAEQFLRLRDGDRFWYEN-FNPGVFTPEQLEEIRKV 670 (719)
T ss_pred hhHHHHHHHHHhcCCchhhcccccccccccC-CCceecccHHHHHHHHHHHHhccCceeecC-CCCCccCHHHHHHHHHh
Confidence 4478999999999999999999999999999 999999999999999999999999999999 78999999999999999
Q ss_pred cccchhhccccccccccc-ccccccCCCCCccCCCCCCCCCccCCcC
Q psy9604 88 SSGWLFCQGGNDISLVHP-NNMNKALPGNGLRPCSKLPQLDLTKWKV 133 (133)
Q Consensus 88 sla~iic~n~~~~~~vq~-~vF~~~~~~n~~~~C~~ip~~dl~~W~~ 133 (133)
|||+|||+|...+..++. ++|..++..|.+++|++||.+||++|++
T Consensus 671 sLariiC~N~~~~~~~~~~~~f~~~~~~~~~~~c~~ip~~dl~~w~~ 717 (719)
T KOG2408|consen 671 SLARIICDNGTKITKVSRFDVFDFPDAPNDPVPCSSIPGLDLNAWRE 717 (719)
T ss_pred hchheeecCCcccccccccCCccccccCCCCCCccccchhhhhhhhh
Confidence 999999999555888877 9999999889999999999999999985
No 2
>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=100.00 E-value=3.2e-34 Score=248.14 Aligned_cols=98 Identities=45% Similarity=0.801 Sum_probs=90.8
Q ss_pred cCCHHHHHHHHHHhCCCCchhhhhhhhcCCCCCCCCCcchHHHHHHHHHHHHhhhcCcccccccCCCCCCCHHHHHHHhh
Q psy9604 7 FFFELDIEQLKSVYSSVDLIDLYVGGLYERPTKDGGLFGPTFRNLVAEQFYRWKHGDRYFLTFANQSGSFTLEQLDELRK 86 (133)
Q Consensus 7 ~~~~~~~~~L~~lY~~vddIDL~vGgl~E~~~~~G~~vGptf~cii~~QF~rlr~gDRf~ye~~~~~~~ft~~ql~~I~~ 86 (133)
..+++++++|+++|++++|||||+|+|+|+++ +|+++||||+|||++||.|+|+|||||||| ++.||++|+++||+
T Consensus 433 ~~~~~i~~~L~~~Y~~vddvDL~vG~laE~~~-~G~~lGpt~~~Ii~~qf~~l~~gDRf~yen---~~~ft~~ql~~i~~ 508 (530)
T PF03098_consen 433 ISDEEIAAALRALYGHVDDVDLWVGGLAEKPV-PGGLLGPTFSCIIAEQFSRLRRGDRFWYEN---PGSFTPEQLEEIRK 508 (530)
T ss_dssp HTSHHHHHHHHHHHSSGGGSBHHHHHHHS-BS-TTSSSBHHHHHHHHHHHHHHHHTSTTGTTS---CTTCTHHHHHHHTT
T ss_pred hhHHHHHHHHHHhccchhcccccceeeeeccc-cCCCCCHHHHhHHHHHHHHHHhcCcccccC---cCcCCHHHHHHHHH
Confidence 35677889999999999999999999999999 899999999999999999999999999996 58999999999999
Q ss_pred ccccchhhcccccccccccccc
Q psy9604 87 TSSGWLFCQGGNDISLVHPNNM 108 (133)
Q Consensus 87 ~sla~iic~n~~~~~~vq~~vF 108 (133)
+|||+|||+|+++++.||+|||
T Consensus 509 ~tla~iic~n~~~~~~iq~~~F 530 (530)
T PF03098_consen 509 TTLARIICDNTDDITRIQPNAF 530 (530)
T ss_dssp T-HHHHHHHHSTS-SEEESSTT
T ss_pred CCHHHHHHhcCCccccCCCCCC
Confidence 9999999999988999999998
No 3
>PLN02283 alpha-dioxygenase
Probab=99.92 E-value=5e-26 Score=200.96 Aligned_cols=92 Identities=24% Similarity=0.207 Sum_probs=85.9
Q ss_pred cCCHHHHHHHHHHhC-CCCchhhhhhhhcCCCCCCCCCcchHHHHHHHHHHHHhhhcCcccccccCCCCCCCHHHHHHHh
Q psy9604 7 FFFELDIEQLKSVYS-SVDLIDLYVGGLYERPTKDGGLFGPTFRNLVAEQFYRWKHGDRYFLTFANQSGSFTLEQLDELR 85 (133)
Q Consensus 7 ~~~~~~~~~L~~lY~-~vddIDL~vGgl~E~~~~~G~~vGptf~cii~~QF~rlr~gDRf~ye~~~~~~~ft~~ql~~I~ 85 (133)
.-+++++++|+++|+ +|||||||||+++|+++ +|+.+||||.||+..||.|+++|||||||+. +|+.||++|+++|+
T Consensus 508 t~d~e~~~~L~~lY~~~vddVDL~VG~laE~~v-~G~~vG~T~~~i~~~~a~r~~~gDRF~~en~-np~~fT~~gl~~I~ 585 (633)
T PLN02283 508 TDDEEAIEVLREVYGDDVEKLDLLVGLMAEKKI-KGFAISETAFFIFLLMASRRLEADRFFTSNF-NEKTYTKKGLEWVN 585 (633)
T ss_pred CCCHHHHHHHHHHhCCCHHHHHhhhhheecccC-CCCCcCHHHHHHHHHHHHHHhcCCCCeEecC-CcCcCCHHHHHHHH
Confidence 457899999999998 89999999999999999 9999999999999999999999999999975 58999999999999
Q ss_pred hc-cccchhhcccccc
Q psy9604 86 KT-SSGWLFCQGGNDI 100 (133)
Q Consensus 86 ~~-sla~iic~n~~~~ 100 (133)
++ ||++|||+|...+
T Consensus 586 ~t~tl~dvl~r~~p~~ 601 (633)
T PLN02283 586 TTESLKDVIDRHYPEM 601 (633)
T ss_pred ccCcHHHHHHHhCcch
Confidence 97 9999999998754
No 4
>PF08880 QLQ: QLQ; InterPro: IPR014978 QLQ is named after the conserved Gln, Leu, Gln motif. QLQ is found at the N terminus of SWI2/SNF2 protein, which has been shown to be involved in protein-protein interactions. QLQ has been postulated to be involved in mediating protein interactions []. ; GO: 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=45.49 E-value=18 Score=20.78 Aligned_cols=25 Identities=28% Similarity=0.280 Sum_probs=19.1
Q ss_pred CCCCHHHHHHHhh-ccccchhhcccc
Q psy9604 74 GSFTLEQLDELRK-TSSGWLFCQGGN 98 (133)
Q Consensus 74 ~~ft~~ql~~I~~-~sla~iic~n~~ 98 (133)
+.||++|+.++|. +..-+.|-+|..
T Consensus 1 s~FT~~Ql~~L~~Qi~ayK~l~~~~p 26 (37)
T PF08880_consen 1 SPFTPAQLQELRAQILAYKYLARNQP 26 (37)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHcCCC
Confidence 4799999999985 555677777655
No 5
>TIGR02167 Liste_lipo_26 bacterial surface protein 26-residue repeat. This model describes a tandem peptide repeat sequence of 25 or 26 residues, found in predicted surface proteins (often lipoproteins) from Listeria monocytogenes, L. innocua, Enterococcus faecalis, Lactobacillus plantarum, Mycoplasma mycoides, Helicobacter hepaticus, and other species.
Probab=44.98 E-value=13 Score=19.55 Aligned_cols=15 Identities=40% Similarity=0.973 Sum_probs=12.8
Q ss_pred cCCCCCCCCCccCCc
Q psy9604 118 RPCSKLPQLDLTKWK 132 (133)
Q Consensus 118 ~~C~~ip~~dl~~W~ 132 (133)
..|+++.++|+..|.
T Consensus 3 ~~~~~~~~ldls~wd 17 (26)
T TIGR02167 3 SGCSSLTSLDVSNWD 17 (26)
T ss_pred Ccccccccccccccc
Confidence 369999999999994
No 6
>PF12080 GldM_C: GldM C-terminal domain; InterPro: IPR022719 This domain is found in bacteria at the C terminus of the GldM protein. This domain is typically between 169 to 182 amino acids in length and has two completely conserved residues (Y and N) that may be functionally important. GldM, is named for the member from Bacteriodetes Flavobacterium johnsoniae, which is required for a type of rapid gliding motility found in certain members of the Bacteriodetes [].
Probab=27.92 E-value=27 Score=26.60 Aligned_cols=25 Identities=24% Similarity=0.442 Sum_probs=21.1
Q ss_pred chHHHHHHHHHHHHhhhcCcccccc
Q psy9604 45 GPTFRNLVAEQFYRWKHGDRYFLTF 69 (133)
Q Consensus 45 Gptf~cii~~QF~rlr~gDRf~ye~ 69 (133)
|..|.--....+.+++.|||++..+
T Consensus 150 G~~~s~~~~~~l~~~~~Gd~i~I~~ 174 (181)
T PF12080_consen 150 GNKFSARAKSALRKAKRGDRIYISD 174 (181)
T ss_pred cccccHHHHHHHHhcCCCCEEEEEE
Confidence 6677777889999999999998765
No 7
>PF11919 DUF3437: Domain of unknown function (DUF3437); InterPro: IPR021843 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 142 to 163 amino acids in length. ; PDB: 3L5Q_6 1VSY_5.
Probab=24.22 E-value=17 Score=24.90 Aligned_cols=41 Identities=22% Similarity=0.355 Sum_probs=25.4
Q ss_pred CCcchHHHHHHHHHHHHhhhcCcccccccCCCCCCCHHHHHHHhhcc
Q psy9604 42 GLFGPTFRNLVAEQFYRWKHGDRYFLTFANQSGSFTLEQLDELRKTS 88 (133)
Q Consensus 42 ~~vGptf~cii~~QF~rlr~gDRf~ye~~~~~~~ft~~ql~~I~~~s 88 (133)
+.+|-|....++ .|+|++. |- |.+. ...||++|++.|+.+.
T Consensus 43 ~~I~~tvk~tl~-eFkrtH~-D~-W~~~---~~~Ft~~ql~~l~~~~ 83 (90)
T PF11919_consen 43 QPIRTTVKKTLS-EFKRTHQ-DT-WHEH---KKKFTEDQLEDLEDVL 83 (90)
T ss_dssp SSHHHHTHHHHH-HHHHHTS-TT-HHHH---GGG--SSTTGGGSS--
T ss_pred chHHHHHHHHHH-HHHHhCc-cc-HHHH---HHhCCHHHHHHHHcCC
Confidence 456667766665 7999984 43 4443 3589999999887653
No 8
>PRK02866 cyanate hydratase; Validated
Probab=23.94 E-value=1.5e+02 Score=22.20 Aligned_cols=46 Identities=24% Similarity=0.365 Sum_probs=31.2
Q ss_pred cCCHHHHHHHHHHhCCCCchhhhhhhhcCCCCCCCC-------------------CcchHHHHHHHHHH
Q psy9604 7 FFFELDIEQLKSVYSSVDLIDLYVGGLYERPTKDGG-------------------LFGPTFRNLVAEQF 56 (133)
Q Consensus 7 ~~~~~~~~~L~~lY~~vddIDL~vGgl~E~~~~~G~-------------------~vGptf~cii~~QF 56 (133)
.++++.++++.++.+=.++ .+-.|.+-|. .|+ .-|||+..+|.++|
T Consensus 44 ~ls~e~A~kla~~LgL~~~---~~~~l~~~P~-rg~~~~~~ptdP~iYR~yE~v~vYG~~~K~~i~E~F 108 (147)
T PRK02866 44 TLPAEEAEKVAELLGLDED---AVALLQEVPY-RGSLPPAVPTDPLIYRFYEMVQVYGTTLKALIHEKF 108 (147)
T ss_pred CCCHHHHHHHHHHhCCCHH---HHHHHhcCCc-CCCCCCCCCCCcHHHHHHHHHHHhhHHHHHHHHHHh
Confidence 4678999999998864444 3445666776 664 24666777777766
No 9
>PF11198 DUF2857: Protein of unknown function (DUF2857); InterPro: IPR021364 This is a bacterial family of uncharacterised proteins.
Probab=22.56 E-value=1.1e+02 Score=23.32 Aligned_cols=44 Identities=20% Similarity=0.265 Sum_probs=33.0
Q ss_pred HHHHHHHHHHhhhcCcccccccCCCCCCCHHHHHHHhhccccch--hhcc
Q psy9604 49 RNLVAEQFYRWKHGDRYFLTFANQSGSFTLEQLDELRKTSSGWL--FCQG 96 (133)
Q Consensus 49 ~cii~~QF~rlr~gDRf~ye~~~~~~~ft~~ql~~I~~~sla~i--ic~n 96 (133)
..++..--..+|.||--.-+ .-.|++++++.+++.|+.+| |+..
T Consensus 4 ~avL~~~l~~l~~G~~~~c~----~lG~~~eel~~L~~ls~~~l~~L~~~ 49 (180)
T PF11198_consen 4 QAVLTQALHDLKEGNIRRCE----ALGFSPEELDALQQLSLDDLHYLANS 49 (180)
T ss_pred HHHHHHHHHHHHcccHHHHH----HcCCCHHHHHHHhCCCHHHHHHHhcC
Confidence 34566667788999822222 46899999999999999999 7733
No 10
>PF14040 DNase_NucA_NucB: Deoxyribonuclease NucA/NucB
Probab=21.51 E-value=32 Score=24.49 Aligned_cols=23 Identities=26% Similarity=0.601 Sum_probs=14.9
Q ss_pred CCCCcchHHHHHHHHHH---HHhhhcCccccc
Q psy9604 40 DGGLFGPTFRNLVAEQF---YRWKHGDRYFLT 68 (133)
Q Consensus 40 ~G~~vGptf~cii~~QF---~rlr~gDRf~ye 68 (133)
.|+.|| ...+| .|+.+||+||..
T Consensus 88 aG~~~~------~L~~~y~~~~~~dG~~f~v~ 113 (114)
T PF14040_consen 88 AGSWVG------QLSGFYRDNRILDGDKFYVI 113 (114)
T ss_pred ccchhH------HHHhhHhhcCCCCCCEEEEe
Confidence 566666 23344 477799999864
No 11
>TIGR00292 thiazole biosynthesis enzyme. This enzyme is involved in the biosynthesis of the thiamine precursor thiazole, and is repressed by thiamine.This family includes c-thi1, a Citrus gene induced during natural and ethylene induced fruit maturation and is highly homologous to plant and yeast thi genes involved in thiamine biosynthesis.
Probab=20.95 E-value=41 Score=26.69 Aligned_cols=26 Identities=27% Similarity=0.491 Sum_probs=20.2
Q ss_pred hhhhhhcCCCCCCCCCcchHHHHHHH
Q psy9604 28 LYVGGLYERPTKDGGLFGPTFRNLVA 53 (133)
Q Consensus 28 L~vGgl~E~~~~~G~~vGptf~cii~ 53 (133)
|||.||+=..+..+.++||+|...+.
T Consensus 215 ~~~~gm~~~~~~~~~rmgp~fg~m~~ 240 (254)
T TIGR00292 215 LYVAGMAVAAVHGLPRMGPIFGGMLL 240 (254)
T ss_pred EEEechhhhhhcCCCCcCchHHHHHH
Confidence 78888887777345799999997664
No 12
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=20.85 E-value=61 Score=22.69 Aligned_cols=32 Identities=16% Similarity=0.131 Sum_probs=20.9
Q ss_pred cCcccccccCCCCCCCHHHHHHHhhccccchhhcccc
Q psy9604 62 GDRYFLTFANQSGSFTLEQLDELRKTSSGWLFCQGGN 98 (133)
Q Consensus 62 gDRf~ye~~~~~~~ft~~ql~~I~~~sla~iic~n~~ 98 (133)
.|+||.. +-.+++++.+|++..+..|||.-.+
T Consensus 6 ~~~~~vs-----~Q~~~~d~~~la~~GfktVInlRpd 37 (110)
T PF04273_consen 6 SDDLSVS-----GQPSPEDLAQLAAQGFKTVINLRPD 37 (110)
T ss_dssp ETTEEEE-----CS--HHHHHHHHHCT--EEEE-S-T
T ss_pred CCCeEEC-----CCCCHHHHHHHHHCCCcEEEECCCC
Confidence 4666644 3678999999999999999996555
No 13
>KOG3951|consensus
Probab=20.31 E-value=94 Score=25.78 Aligned_cols=47 Identities=21% Similarity=0.171 Sum_probs=34.3
Q ss_pred HHHHHHHHhCCCCchhhhhhhhcCCCCCCCCCcchHHH----HHHHHHHHHhh
Q psy9604 12 DIEQLKSVYSSVDLIDLYVGGLYERPTKDGGLFGPTFR----NLVAEQFYRWK 60 (133)
Q Consensus 12 ~~~~L~~lY~~vddIDL~vGgl~E~~~~~G~~vGptf~----cii~~QF~rlr 60 (133)
.+.++++.|+++..|+=.|-.+++... .|. +.|+-. ..+++||.++-
T Consensus 85 lV~r~k~~ye~~~~lek~v~~llg~L~-~~p-l~~~~~l~~~QalaKQfAeil 135 (321)
T KOG3951|consen 85 LVGRTKSYYEHVAKIEKIVPIILGSLS-SGP-LPLEEQLANKQALAKQFAEIL 135 (321)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc-CCC-CCchHHHHHHHHHHHHHHHHH
Confidence 467899999999999999988887766 433 233322 56788988764
Done!