Query psy9915
Match_columns 191
No_of_seqs 133 out of 953
Neff 6.8
Searched_HMMs 46136
Date Fri Aug 16 22:53:19 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9915.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9915hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2408|consensus 100.0 1E-58 2.2E-63 437.1 13.9 188 2-190 279-488 (719)
2 PF03098 An_peroxidase: Animal 100.0 4.6E-58 1E-62 422.9 9.7 179 1-189 117-327 (530)
3 PLN02283 alpha-dioxygenase 100.0 1.8E-50 3.8E-55 377.1 15.7 164 2-188 185-395 (633)
4 PF10929 DUF2811: Protein of u 80.9 1.5 3.2E-05 29.1 2.2 17 121-137 18-34 (57)
5 COG4362 Nitric oxide synthase, 68.0 6.5 0.00014 34.2 3.5 33 152-184 125-157 (355)
6 PF12758 DUF3813: Protein of u 39.9 20 0.00044 24.2 1.6 13 130-142 3-15 (63)
7 PF11522 Pik1: Yeast phosphati 38.4 15 0.00033 23.7 0.8 30 133-163 4-40 (51)
8 PF14043 WVELL: WVELL protein 36.8 67 0.0015 22.4 3.8 28 113-144 4-31 (75)
9 PF04542 Sigma70_r2: Sigma-70 24.2 1.3E+02 0.0029 18.8 3.6 34 109-142 2-36 (71)
10 PF11691 DUF3288: Protein of u 21.9 1.5E+02 0.0032 21.5 3.5 42 100-141 26-74 (90)
11 PRK09651 RNA polymerase sigma 21.2 1.6E+02 0.0035 22.6 4.1 34 103-136 10-44 (172)
12 PF14730 DUF4468: Domain of un 20.8 1E+02 0.0022 21.6 2.6 23 124-146 7-29 (91)
13 PF09957 DUF2191: Uncharacteri 20.6 67 0.0015 20.1 1.4 13 129-141 8-20 (47)
14 PF12424 ATP_Ca_trans_C: Plasm 20.5 23 0.0005 24.0 -0.8 20 106-125 2-21 (66)
15 PF13456 RVT_3: Reverse transc 20.0 69 0.0015 21.1 1.5 13 111-123 71-83 (87)
No 1
>KOG2408|consensus
Probab=100.00 E-value=1e-58 Score=437.15 Aligned_cols=188 Identities=49% Similarity=0.859 Sum_probs=169.8
Q ss_pred ceeeccccCCCCC--CCCCcccccccCCCccccCCCCCCCHHHHHHhhccCC--Cceeeee--cCCCccCCCCCCCCCCC
Q psy9915 2 TCMEFIRSSPAPS--CTLGPREQLNQVSSYLDASVVYGNTEELANRLRTFQK--GELKMFI--TPDGRELLPVSTDPLDG 75 (191)
Q Consensus 2 ~C~~f~Rs~~~~~--~~~~preq~N~~Ts~lD~S~iYGs~~~~~~~LR~~~~--G~L~~~~--~~~g~~~lP~~~~~~~~ 75 (191)
.||+|+||.+++. +..++|||+|++|+|||+|.|||++.+.+.+||.|++ |+|++.. ..+|..++|.+.+.++.
T Consensus 279 ~C~~f~Rs~~~~~~~~~~~~reQlNq~T~~lD~S~IYGss~~~~~~lR~f~~~~g~l~~~~~~~~~~~~~lP~~~~~~~~ 358 (719)
T KOG2408|consen 279 RCLPFVRSLPACGSGYNLGPREQLNQLTSFLDASVIYGSSDEDARKLRLFKDGKGLLRVDTGLFENGRPLLPFSTDPPNS 358 (719)
T ss_pred cceeceecCCCccccccCChhhhhccccccccchhccCCCHHHHHHHhcccCcccceeecccccccCcccCCCCCCCCcc
Confidence 5999999999863 4778999999999999999999999999999999998 5666641 24777899998877777
Q ss_pred CcccccccccccccccCCCCcccchHHHHHHHHHHhhhhHHHHHHHhhCCCCChhHHHHHHHHHHHHhhheEEe------
Q psy9915 76 CNEKQQNAQGRYCFMSGDARANENTHLTSMHLLLARQHNTLARQLVTLNPDWDDETVYQESRRILGAQMQHVTS------ 149 (191)
Q Consensus 76 c~~~~~~~~~~~cf~~GD~R~ne~p~l~~lhtlf~ReHNria~~L~~~np~W~de~lfqeAR~Iv~a~~Q~I~y------ 149 (191)
|...... ....||++||.|+|++|+|+++||+|+|||||||++|++.||+|+||+|||||||||+|++|||||
T Consensus 359 c~~~~~~-~~~~cf~aGD~R~~~~pgL~~~hti~lREHNRiA~~Lk~~np~W~dE~lfQeaRkI~~A~~q~Ity~e~LP~ 437 (719)
T KOG2408|consen 359 CRSKPPG-APKPCFTAGDERANEQPGLAALHTLFLREHNRIATELKALNPHWSDERLFQEARKIVGAQVQHITYNEYLPK 437 (719)
T ss_pred ccccCCC-CCCcccccCccccccCcchHHHHHHHHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHHhhhhHHhhhhh
Confidence 8765421 345799999999999999999999999999999999999999999999999999999999999999
Q ss_pred ----------cCCCCCCCCCCCchhHHHHHHHHHhhhccccCccccccccC
Q psy9915 150 ----------GYSNDYKPDVDPTVSNNFATSAFRFAHTLIPGPTKNVSVYR 190 (191)
Q Consensus 150 ----------g~~~~Y~~~v~p~i~~eFa~aA~RfgHs~i~~~~~~~~~~~ 190 (191)
|+|.||++++||+|+||||+||||||||||++.|.++|.+.
T Consensus 438 ilG~~~~~~~g~~~gY~~~~dp~IsneFataAfRfgHsli~~~~~~l~~~~ 488 (719)
T KOG2408|consen 438 LLGAPLKVSLGGYRGYDPNVDPTISNEFATAAFRFGHSLIPPFFQRLDENF 488 (719)
T ss_pred hcCcccccCCccccCcCCCCChhhhhhhhHHHHhhhcccCchhhhhhcccC
Confidence 56899999999999999999999999999999999998763
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=4.6e-58 Score=422.86 Aligned_cols=179 Identities=51% Similarity=0.917 Sum_probs=140.2
Q ss_pred CceeeccccCCCCC----CCCCcccccccCCCccccCCCCCCCHHHHHHhhc-cCCCceeee----ecCCCccCCCCCCC
Q psy9915 1 MTCMEFIRSSPAPS----CTLGPREQLNQVSSYLDASVVYGNTEELANRLRT-FQKGELKMF----ITPDGRELLPVSTD 71 (191)
Q Consensus 1 ~~C~~f~Rs~~~~~----~~~~preq~N~~Ts~lD~S~iYGs~~~~~~~LR~-~~~G~L~~~----~~~~g~~~lP~~~~ 71 (191)
++||+|.||.+++. |.. ||||+|++|+|||||+|||++++.+.+||+ +++|+|++. ...++.++||.+..
T Consensus 117 ~~c~~~~Rs~~~~~~~~~~~~-~req~N~~T~~lD~S~vYGs~~~~~~~LR~~~~~G~L~~~~~~~~~~~~~~~lp~~~~ 195 (530)
T PF03098_consen 117 VRCMPFTRSAPAPDPGQSCSL-PREQINQATSYLDLSQVYGSSEEQARRLRSSFKGGKLKSDNGEFPPPNGGGLLPSDDP 195 (530)
T ss_dssp TSEE--B-B-BSSTSSS-SSS-STTBEE-STSSSS-HHHH-SSHHHHHHTBESSTTTEB--ETSSEEBBTTBES--B-TS
T ss_pred CCCcccccccccccCCCCCcc-chhhhccccceeecccccCCCHHHHHHhhcchhhhhhhcccccccccCCCCCCCCCcc
Confidence 47999999998842 444 999999999999999999999999999999 999999972 12466778888652
Q ss_pred CCCCCcccccccccccccccCCCCcccchHHHHHHHHHHhhhhHHHHHHHhhCCCCChhHHHHHHHHHHHHhhheEEe--
Q psy9915 72 PLDGCNEKQQNAQGRYCFMSGDARANENTHLTSMHLLLARQHNTLARQLVTLNPDWDDETVYQESRRILGAQMQHVTS-- 149 (191)
Q Consensus 72 ~~~~c~~~~~~~~~~~cf~~GD~R~ne~p~l~~lhtlf~ReHNria~~L~~~np~W~de~lfqeAR~Iv~a~~Q~I~y-- 149 (191)
+.. .+..||++||.|+||+|+|+++||||+|||||||++|++.||+|+||+||||||+||+|+||||||
T Consensus 196 ~~~---------~~~~~f~~GD~R~ne~~~l~~lhtlflReHNria~~L~~~np~w~de~lFqeAR~iv~a~~Q~Ivy~E 266 (530)
T PF03098_consen 196 PTD---------SGCRCFLAGDPRVNENPGLTALHTLFLREHNRIADELKKINPHWDDERLFQEARRIVIAQYQHIVYNE 266 (530)
T ss_dssp CSS---------GHHGSB-TSSTTTTSBHHHHHHHHHHHHHHHHHHHHHHHHSTTS-HHHHHHHHHHHHHHHHHHHHHHT
T ss_pred ccc---------ccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHHHHHhhhhHhh
Confidence 211 111699999999999999999999999999999999999999999999999999999999999999
Q ss_pred ---------------------cCCCCCCCCCCCchhHHHHHHHHHhhhccccCcccccccc
Q psy9915 150 ---------------------GYSNDYKPDVDPTVSNNFATSAFRFAHTLIPGPTKNVSVY 189 (191)
Q Consensus 150 ---------------------g~~~~Y~~~v~p~i~~eFa~aA~RfgHs~i~~~~~~~~~~ 189 (191)
|.+.+|++.++|+|++|||+||||||||||++.+.+.++.
T Consensus 267 ~LP~llG~~~~~~~~~~~~~~g~~~~y~~~~~~~i~~EFa~aA~RfgHs~i~~~~~~~~~~ 327 (530)
T PF03098_consen 267 YLPALLGPEAMNKFLLPPLNNGYYKGYDPSVDPSISNEFAAAAYRFGHSMIPDTYDRWDEN 327 (530)
T ss_dssp THHHHHGHGGHHHHS-G----GCGTTS-TTS--S-BTTH-HHHGGGGGGGS-SEEEEBTTT
T ss_pred hhhhhcchhhhhhccccccccccccCCCCCCCCchhHHHHHHHHHhhheeehhhhhhcccc
Confidence 2578999999999999999999999999999999998764
No 3
>PLN02283 alpha-dioxygenase
Probab=100.00 E-value=1.8e-50 Score=377.07 Aligned_cols=164 Identities=28% Similarity=0.463 Sum_probs=141.7
Q ss_pred ceeeccccCCCCC--CCCCcccccccCCCccccCCCCCCCHHHHHHhhccCCCceeeeecCCCccCCCCCCCCCCCCccc
Q psy9915 2 TCMEFIRSSPAPS--CTLGPREQLNQVSSYLDASVVYGNTEELANRLRTFQKGELKMFITPDGRELLPVSTDPLDGCNEK 79 (191)
Q Consensus 2 ~C~~f~Rs~~~~~--~~~~preq~N~~Ts~lD~S~iYGs~~~~~~~LR~~~~G~L~~~~~~~g~~~lP~~~~~~~~c~~~ 79 (191)
+||+|.||.++++ |. .+++|+|++|||||+|+|||++++++++||++++||||+. .+ .++|.+.
T Consensus 185 ~~~~f~RT~~~~~~~~~-~~~~qiN~~Ts~lD~S~IYGss~~~~~~LRtf~~GkLk~~--~~--~~l~~~~--------- 250 (633)
T PLN02283 185 KSFKFYKTKEVPTGSPD-IKTGSLNIRTPWWDGSVIYGSNEKGLRRVRTFKDGKLKIS--ED--GLLLHDE--------- 250 (633)
T ss_pred cccccccCCCCCCCCCC-CCccccccccceeecccccCCCHHHHHhhhCCCCCccCcC--CC--CCCCCCc---------
Confidence 6999999987753 33 3899999999999999999999999999999999999974 23 3565431
Q ss_pred ccccccccccccCCCCcccchHHHHHHHHHHhhhhHHHHHHHhhCCCCChhHHHHHHHHHHHHhhheEEe--------cC
Q psy9915 80 QQNAQGRYCFMSGDARANENTHLTSMHLLLARQHNTLARQLVTLNPDWDDETVYQESRRILGAQMQHVTS--------GY 151 (191)
Q Consensus 80 ~~~~~~~~cf~~GD~R~ne~p~l~~lhtlf~ReHNria~~L~~~np~W~de~lfqeAR~Iv~a~~Q~I~y--------g~ 151 (191)
..||++||.| |++|+|+++||||+|||||||++|+++||+|+||+||||||+||+|+||||+| |.
T Consensus 251 ------~~~~~~Gd~r-n~~pGL~~lhtLF~REHNrIad~L~~~nP~w~DE~LFQeAR~Iv~A~~q~I~~~EylP~iLg~ 323 (633)
T PLN02283 251 ------DGIPISGDVR-NSWAGVSLLQALFVKEHNAVCDALKEEYPDFDDEELYRHARLVTSAVIAKIHTIDWTVELLKT 323 (633)
T ss_pred ------cCCcccCccc-cccHHHHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHheeeeeeeccHHhcCC
Confidence 1289999999 89999999999999999999999999999999999999999999999999999 10
Q ss_pred ---------------------------------CCCCC----CCCCCchhHHHHHHHHHhhhccccCccccccc
Q psy9915 152 ---------------------------------SNDYK----PDVDPTVSNNFATSAFRFAHTLIPGPTKNVSV 188 (191)
Q Consensus 152 ---------------------------------~~~Y~----~~v~p~i~~eFa~aA~RfgHs~i~~~~~~~~~ 188 (191)
|.||+ +.|+++|++|| +||||| ||+||+.+.+.+.
T Consensus 324 ~~~~~~~~~~w~gllg~~~~~~~g~~~~~~~~g~~gy~~~~~~~v~~~is~EF-~aaYR~-Hslip~~~~~~~~ 395 (633)
T PLN02283 324 DTLLAGMRANWYGLLGKKFKDTFGHIGGPILSGLVGLKKPNNHGVPYSLTEEF-TSVYRM-HSLLPDHLILRDI 395 (633)
T ss_pred cccccccccccccccchhhhhhcccccccccccccCCCccccCCCCcchhHHH-HHHHhh-hhcCCCceecccc
Confidence 12343 46788999999 579998 9999999887764
No 4
>PF10929 DUF2811: Protein of unknown function (DUF2811); InterPro: IPR021231 This is a bacterial family of uncharacterised proteins.
Probab=80.89 E-value=1.5 Score=29.07 Aligned_cols=17 Identities=24% Similarity=0.747 Sum_probs=14.6
Q ss_pred HhhCCCCChhHHHHHHH
Q psy9915 121 VTLNPDWDDETVYQESR 137 (191)
Q Consensus 121 ~~~np~W~de~lfqeAR 137 (191)
-..||.||..+|||.|=
T Consensus 18 ie~hP~WDQ~Rl~~aAL 34 (57)
T PF10929_consen 18 IETHPNWDQYRLFQAAL 34 (57)
T ss_pred HHcCCCchHHHHHHHHH
Confidence 34699999999999983
No 5
>COG4362 Nitric oxide synthase, oxygenase domain [Inorganic ion transport and metabolism / Amino acid transport and metabolism]
Probab=67.99 E-value=6.5 Score=34.15 Aligned_cols=33 Identities=15% Similarity=0.202 Sum_probs=26.8
Q ss_pred CCCCCCCCCCchhHHHHHHHHHhhhccccCccc
Q psy9915 152 SNDYKPDVDPTVSNNFATSAFRFAHTLIPGPTK 184 (191)
Q Consensus 152 ~~~Y~~~v~p~i~~eFa~aA~RfgHs~i~~~~~ 184 (191)
|-||+.++.-.++-+|..|+-|+|-+--...|.
T Consensus 125 YAgye~digDP~~~~~t~~~~~lGW~g~~t~Fd 157 (355)
T COG4362 125 YAGYENDIGDPISADFTDACERLGWQGEGTRFD 157 (355)
T ss_pred hhcccccCCCccchHHHHHHHHhCCCCCCCccc
Confidence 789998887889999999999999876554443
No 6
>PF12758 DUF3813: Protein of unknown function (DUF3813); InterPro: IPR024217 This entry represents a family of Bacillus proteins. Their function is unknown.
Probab=39.93 E-value=20 Score=24.20 Aligned_cols=13 Identities=15% Similarity=0.450 Sum_probs=11.1
Q ss_pred hHHHHHHHHHHHH
Q psy9915 130 ETVYQESRRILGA 142 (191)
Q Consensus 130 e~lfqeAR~Iv~a 142 (191)
.+|||+||+.|--
T Consensus 3 N~LFqqAr~aV~~ 15 (63)
T PF12758_consen 3 NRLFQQARDAVEQ 15 (63)
T ss_pred chHHHHHHHHHHH
Confidence 5799999999973
No 7
>PF11522 Pik1: Yeast phosphatidylinositol-4-OH kinase Pik1; InterPro: IPR021601 Pik1 is a regulator of membrane traffic and participates in the mating-pheromone signal-transduction cascade. The protein is localised to the nucleus and cytoplasm in the Golgi. Pik1 is thought to have an actin-independent role in membrane transport []. ; GO: 0016773 phosphotransferase activity, alcohol group as acceptor; PDB: 2JU0_B.
Probab=38.37 E-value=15 Score=23.72 Aligned_cols=30 Identities=27% Similarity=0.517 Sum_probs=17.5
Q ss_pred HHHHHHHHHHhhheEEecCC-------CCCCCCCCCch
Q psy9915 133 YQESRRILGAQMQHVTSGYS-------NDYKPDVDPTV 163 (191)
Q Consensus 133 fqeAR~Iv~a~~Q~I~yg~~-------~~Y~~~v~p~i 163 (191)
||.+|++ +-..|+|+++.. ....+++-|.+
T Consensus 4 Fqv~RRv-~NklQ~ilFn~~~~~~~~~~k~~ENv~Pal 40 (51)
T PF11522_consen 4 FQVCRRV-INKLQHILFNTSSSDISKQQKFRENVLPAL 40 (51)
T ss_dssp THHHHHH-HHHHT--SS-SS-----TT--SS-SHHHHH
T ss_pred hHHHHHH-HHHHHHHHhCCCccccccccccccccchHH
Confidence 8999995 678999999532 35666666654
No 8
>PF14043 WVELL: WVELL protein
Probab=36.77 E-value=67 Score=22.40 Aligned_cols=28 Identities=21% Similarity=0.373 Sum_probs=22.5
Q ss_pred hhHHHHHHHhhCCCCChhHHHHHHHHHHHHhh
Q psy9915 113 HNTLARQLVTLNPDWDDETVYQESRRILGAQM 144 (191)
Q Consensus 113 HNria~~L~~~np~W~de~lfqeAR~Iv~a~~ 144 (191)
+.+++.+|...||..+ |.+||-+|.-.+
T Consensus 4 ~e~Lt~~LlekN~~Ls----~~qArtWVElLW 31 (75)
T PF14043_consen 4 FERLTNELLEKNPMLS----YEQARTWVELLW 31 (75)
T ss_pred HHHHHHHHHHhCCCCC----HHHHHHHHHHHH
Confidence 6789999999999887 667888876543
No 9
>PF04542 Sigma70_r2: Sigma-70 region 2 ; InterPro: IPR007627 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 2 of sigma-70 is the most conserved region of the entire protein. All members of this class of sigma-factor contain region 2. The high conservation is due to region 2 containing both the -10 promoter recognition helix and the primary core RNA polymerase binding determinant. The core-binding helix, interacts with the clamp domain of the largest polymerase subunit, beta prime [, ]. The aromatic residues of the recognition helix, found at the C terminus of this domain are thought to mediate strand separation, thereby allowing transcription initiation [, ].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1OR7_B 1H3L_B 2Z2S_C 2Q1Z_C 2O7G_B 1SMY_F 1IW7_P 2BE5_F 2A6E_F 2CW0_F ....
Probab=24.23 E-value=1.3e+02 Score=18.84 Aligned_cols=34 Identities=26% Similarity=0.065 Sum_probs=21.0
Q ss_pred HHhhhhHHHHHHHhhCCCC-ChhHHHHHHHHHHHH
Q psy9915 109 LARQHNTLARQLVTLNPDW-DDETVYQESRRILGA 142 (191)
Q Consensus 109 f~ReHNria~~L~~~np~W-~de~lfqeAR~Iv~a 142 (191)
+-+.|..+...+....++. +.|+++|||--.+.-
T Consensus 2 ~~~~~~~l~~~~~~~~~~~~~~eD~~qe~~~~l~~ 36 (71)
T PF04542_consen 2 YERYYPLLYRYARRYTGDPEDAEDLVQEAFIKLWR 36 (71)
T ss_dssp HHHTHHHHHHHHHTCTTCSSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhCCHhhHHHHhhHHHHHHHh
Confidence 3445555655555555544 568999998665543
No 10
>PF11691 DUF3288: Protein of unknown function (DUF3288); InterPro: IPR021705 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=21.87 E-value=1.5e+02 Score=21.48 Aligned_cols=42 Identities=19% Similarity=0.431 Sum_probs=28.5
Q ss_pred hHHHHHHHHHHhhhhH-----HHHHHHhhCCCC--ChhHHHHHHHHHHH
Q psy9915 100 THLTSMHLLLARQHNT-----LARQLVTLNPDW--DDETVYQESRRILG 141 (191)
Q Consensus 100 p~l~~lhtlf~ReHNr-----ia~~L~~~np~W--~de~lfqeAR~Iv~ 141 (191)
-.|+-+.-|++|..|. |-+.|.+.=..| +.|+||..+|.|=-
T Consensus 26 ~~L~eLARL~iRY~gFPGA~diq~DL~kiL~~W~lteeeLf~kTR~I~~ 74 (90)
T PF11691_consen 26 YNLAELARLRIRYQGFPGARDIQKDLDKILQKWGLTEEELFEKTREIHA 74 (90)
T ss_pred hhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence 4577788899998883 233333333345 57999999999843
No 11
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=21.24 E-value=1.6e+02 Score=22.58 Aligned_cols=34 Identities=18% Similarity=0.152 Sum_probs=22.6
Q ss_pred HHHHHHHHhhhhHHHHHHHhhCCCCCh-hHHHHHH
Q psy9915 103 TSMHLLLARQHNTLARQLVTLNPDWDD-ETVYQES 136 (191)
Q Consensus 103 ~~lhtlf~ReHNria~~L~~~np~W~d-e~lfqeA 136 (191)
.++..+|.+.+.++...+.+..+.+.+ |+|.|++
T Consensus 10 ~af~~l~~~~~~~l~~~~~~~~~~~~~AEDlvQe~ 44 (172)
T PRK09651 10 LTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDT 44 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHH
Confidence 456777777777777776666555443 6677775
No 12
>PF14730 DUF4468: Domain of unknown function (DUF4468) with TBP-like fold
Probab=20.85 E-value=1e+02 Score=21.64 Aligned_cols=23 Identities=13% Similarity=0.458 Sum_probs=20.3
Q ss_pred CCCCChhHHHHHHHHHHHHhhhe
Q psy9915 124 NPDWDDETVYQESRRILGAQMQH 146 (191)
Q Consensus 124 np~W~de~lfqeAR~Iv~a~~Q~ 146 (191)
-|..+.++||+.|++++...++.
T Consensus 7 vpg~sk~~ly~~~~~W~~~~~~~ 29 (91)
T PF14730_consen 7 VPGMSKDQLYDRAKKWLAKNFKS 29 (91)
T ss_pred cCCCCHHHHHHHHHHHHHHhccc
Confidence 37889999999999999998864
No 13
>PF09957 DUF2191: Uncharacterized protein conserved in bacteria (DUF2191); InterPro: IPR019239 This entry, found in various hypothetical prokaryotic proteins, has no known function.
Probab=20.58 E-value=67 Score=20.12 Aligned_cols=13 Identities=31% Similarity=0.634 Sum_probs=11.0
Q ss_pred hhHHHHHHHHHHH
Q psy9915 129 DETVYQESRRILG 141 (191)
Q Consensus 129 de~lfqeAR~Iv~ 141 (191)
||+|.++|+++.+
T Consensus 8 Dd~Ll~eA~~l~g 20 (47)
T PF09957_consen 8 DDELLAEAMRLTG 20 (47)
T ss_pred CHHHHHHHHHHhC
Confidence 7899999998865
No 14
>PF12424 ATP_Ca_trans_C: Plasma membrane calcium transporter ATPase C terminal; InterPro: IPR022141 This domain family is found in eukaryotes, and is approximately 60 amino acids in length. The family is found in association with PF00689 from PFAM, PF00122 from PFAM, PF00702 from PFAM, PF00690 from PFAM. There is a conserved QTQ sequence motif. This family is the C-terminal of a calcium transporting ATPase located in the plasma membrane. ; GO: 0005388 calcium-transporting ATPase activity; PDB: 2KNE_B 1CFF_B.
Probab=20.46 E-value=23 Score=24.03 Aligned_cols=20 Identities=25% Similarity=0.371 Sum_probs=13.5
Q ss_pred HHHHHhhhhHHHHHHHhhCC
Q psy9915 106 HLLLARQHNTLARQLVTLNP 125 (191)
Q Consensus 106 htlf~ReHNria~~L~~~np 125 (191)
++||+|-.|||-.+++..|-
T Consensus 2 q~lw~rgl~r~QtQIrVV~A 21 (66)
T PF12424_consen 2 QILWFRGLNRIQTQIRVVNA 21 (66)
T ss_dssp CCCHHHHHHHHHHCH-----
T ss_pred CEEEEeCCCccHhHHHHHHH
Confidence 46899999999999887764
No 15
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=20.01 E-value=69 Score=21.12 Aligned_cols=13 Identities=31% Similarity=0.549 Sum_probs=11.5
Q ss_pred hhhhHHHHHHHhh
Q psy9915 111 RQHNTLARQLVTL 123 (191)
Q Consensus 111 ReHNria~~L~~~ 123 (191)
|+.|..|+.|++.
T Consensus 71 r~~N~~A~~LA~~ 83 (87)
T PF13456_consen 71 REQNKVADALAKF 83 (87)
T ss_dssp GGGSHHHHHHHHH
T ss_pred hHHhHHHHHHHHH
Confidence 8999999999863
Done!