Query 026269
Match_columns 241
No_of_seqs 130 out of 395
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 05:48:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026269.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026269hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04755 PAP_fibrillin: PAP_fi 100.0 1.5E-41 3.3E-46 289.8 20.8 169 65-235 1-198 (198)
2 PF14869 DUF4488: Domain of un 75.2 45 0.00097 27.4 11.7 68 113-192 3-71 (133)
3 PF08212 Lipocalin_2: Lipocali 68.3 60 0.0013 26.0 10.1 56 173-239 54-115 (143)
4 PF05973 Gp49: Phage derived p 52.1 43 0.00093 24.6 5.3 43 84-126 6-51 (91)
5 COG3040 Blc Bacterial lipocali 43.3 1.7E+02 0.0036 25.2 7.9 78 145-239 59-143 (174)
6 TIGR02116 toxin_Txe_YoeB toxin 36.0 48 0.001 24.0 3.2 31 86-117 17-48 (80)
7 PF14467 DUF4426: Domain of un 34.2 1.3E+02 0.0028 24.2 5.7 69 114-192 5-76 (122)
8 PF11010 DUF2848: Protein of u 33.2 43 0.00093 29.2 2.9 24 88-111 7-30 (194)
9 PF12283 Protein_K: Bacterioph 31.1 83 0.0018 21.6 3.4 36 64-102 5-41 (56)
10 COG4115 Uncharacterized protei 30.6 83 0.0018 23.8 3.7 36 88-124 23-71 (84)
11 PF02295 z-alpha: Adenosine de 28.0 1.5E+02 0.0033 21.0 4.7 40 64-104 2-49 (66)
12 cd03715 RT_ZFREV_like RT_ZFREV 25.6 1.5E+02 0.0033 25.0 5.1 42 81-122 6-57 (210)
13 PF03076 GP3: Equine arteritis 23.8 57 0.0012 26.6 1.9 19 206-224 120-138 (160)
14 PF06251 Caps_synth_GfcC: Caps 23.7 1E+02 0.0022 26.8 3.7 62 64-127 55-130 (229)
15 cd01645 RT_Rtv RT_Rtv: Reverse 23.4 1.7E+02 0.0036 25.0 5.0 43 80-122 5-56 (213)
16 PF07624 PSD2: Protein of unkn 22.5 1.5E+02 0.0031 21.5 3.8 41 63-103 8-59 (76)
17 PF10047 DUF2281: Protein of u 21.8 2.1E+02 0.0046 20.1 4.4 48 68-121 2-49 (66)
18 PF14252 DUF4347: Domain of un 20.5 1E+02 0.0023 25.8 3.0 37 90-126 105-147 (165)
19 PHA00097 K protein K 20.3 1.7E+02 0.0038 20.0 3.4 36 64-102 5-41 (56)
No 1
>PF04755 PAP_fibrillin: PAP_fibrillin; InterPro: IPR006843 This family identifies a conserved domain found in a number of plastid lipid-associated proteins (PAPs) that are thought to form together with other plastoglobulins a coat on the surface of the lipoprotein particle. The coat may contain receptors for attachment to the thylakoid membrane as well as regulatory proteins that may function in the transfer of lipids to and from the thylakoid membranes.). This entry also represents a number of putative fibrillin proteins.; GO: 0005198 structural molecule activity, 0009507 chloroplast
Probab=100.00 E-value=1.5e-41 Score=289.81 Aligned_cols=169 Identities=28% Similarity=0.510 Sum_probs=146.3
Q ss_pred HHHHHHHHHhhhccCCCccCCHhhHHHHHHHHHHHHHhCC-CCCCCC-CCcceeeEEEEecCCCCCCCCCCCccccceee
Q 026269 65 DDLVASILSKVNQSDGGVSLAKEEHKEVAEVAQELQKYCV-EAPVKC-PLIFGEWDVVYCSVPTSPGGGYRSAFGRLFFK 142 (241)
Q Consensus 65 ~~lK~~LL~aia~t~rG~~as~~~r~~I~~li~~LE~~np-~~P~~s-~lL~G~W~LvyTs~~~~~~g~~r~~~G~~~~~ 142 (241)
+++|++||+++++++||+.++++++++|+++|++||++|| ++|+++ ++|+|+|+|+|||+......+++... ....
T Consensus 1 ~~~K~~Ll~~~~~~~rG~~~~~~~~~~i~~~v~~LE~~np~~~p~~s~~~L~G~W~Lvytt~~~~~~~l~~~~~--~~~~ 78 (198)
T PF04755_consen 1 QDLKQELLQAVAGTNRGLRASPEDREEIEELVEELEALNPTPDPADSLPLLDGRWELVYTTSPEIRSLLQRGRL--PGVR 78 (198)
T ss_pred ChHHHHHHHHHhccCCCccCCHHHHHHHHHHHHHHHHhCCCCCCcCCchhcCcEEEEEeecCCCcccccccccc--cccc
Confidence 4799999999999999999999999999999999999999 899998 89999999999999987433333221 1356
Q ss_pred cceeEEEEcCCC-eEEEEEEeccCCceeEEEEEEEEEEEcCCcEEEEEEeCCeEEec-----------------------
Q 026269 143 TKEMIQAVEAPD-TVRNKVSFTALGFLDGEVSLKGKLNALDEKWIQVVFEPPELKVG----------------------- 198 (241)
Q Consensus 143 ~g~v~Q~Id~~~-~v~N~v~~~~~~~l~g~v~v~a~~~~~~~~rv~V~Fe~~~i~~g----------------------- 198 (241)
++++||+||.++ ++.|+|++..+|.+.+.+.+.+++++.++.|+.++|+++.+...
T Consensus 79 ~~~v~Q~id~~~~~~~N~v~~~~~~~~~~~~~v~a~~~~~~~~rv~v~f~~~~l~~~~~l~~~l~~~~~~~~~v~~~~~~ 158 (198)
T PF04755_consen 79 VGRVFQTIDADNGRVENVVELSGFPLLEGSVSVRASLEVRSPRRVEVTFERASLKPPSLLKGVLGPLKDALNNVPRGISD 158 (198)
T ss_pred ccceEEEEECCCceEEEEEEEeccCceEEEEEEEEEEEEccccEEEEEEEeeEEcccceeeccchhhhhhhhhccccccc
Confidence 799999999988 89999999988888999999999999999999999999888530
Q ss_pred --ceeeeeC-CcceeEEEEEEecCCeEEEeCCCCcEEEEE
Q 026269 199 --GLEFRYG-GQSEVKLQITYIDEKIRLGLGSRGSLFVFQ 235 (241)
Q Consensus 199 --~l~~pl~-~~~~g~ld~TYLDe~lRIsRG~~G~lFVl~ 235 (241)
+++++++ ..++||||||||||||||+||++|++|||.
T Consensus 159 ~~~~~~~~~~~~~~g~l~~tYLDedlRI~Rg~~G~~fVl~ 198 (198)
T PF04755_consen 159 ELPVPLPLPGGSPKGWLDTTYLDEDLRISRGNKGSLFVLK 198 (198)
T ss_pred ccccccccCCCCCceEEEEEEECCCeEEEEcCCCCEEEeC
Confidence 1122333 568999999999999999999999999984
No 2
>PF14869 DUF4488: Domain of unknown function (DUF4488)
Probab=75.23 E-value=45 Score=27.39 Aligned_cols=68 Identities=15% Similarity=0.221 Sum_probs=41.9
Q ss_pred cceeeEEE-EecCCCCCCCCCCCccccceeecceeEEEEcCCCeEEEEEEeccCCceeEEEEEEEEEEEcCCcEEEEEEe
Q 026269 113 IFGEWDVV-YCSVPTSPGGGYRSAFGRLFFKTKEMIQAVEAPDTVRNKVSFTALGFLDGEVSLKGKLNALDEKWIQVVFE 191 (241)
Q Consensus 113 L~G~W~Lv-yTs~~~~~~g~~r~~~G~~~~~~g~v~Q~Id~~~~v~N~v~~~~~~~l~g~v~v~a~~~~~~~~rv~V~Fe 191 (241)
|.|.|+++ |.+..... +. -+....++-++..++++.|+.-...- ...+...|+++..++....-..+
T Consensus 3 l~GVWQ~c~~~~~~~~~-~g--------~l~~~~~lKilS~Dgtf~Ni~~~~~~---~aiIt~~GtY~~~sD~~Y~E~Ie 70 (133)
T PF14869_consen 3 LQGVWQLCHYVSESPEV-PG--------KLKPSNVLKILSDDGTFVNITMIPKS---GAIITGYGTYEQPSDNIYVESIE 70 (133)
T ss_pred ceEEEEEEEEeecCccc-Cc--------eEeecccEEEEcCCCcEEEEEEeCCC---CcEEEEeEEEEEcCCccceeeec
Confidence 78999999 43333221 11 12345568889988899999874432 24456678888776654444444
Q ss_pred C
Q 026269 192 P 192 (241)
Q Consensus 192 ~ 192 (241)
+
T Consensus 71 K 71 (133)
T PF14869_consen 71 K 71 (133)
T ss_pred c
Confidence 3
No 3
>PF08212 Lipocalin_2: Lipocalin-like domain; InterPro: IPR000566 Proteins which transport small hydrophobic molecules such as steroids, bilins, retinoids, and lipids share limited regions of sequence homology and a common tertiary structure architecture [, , , , ]. This is an eight stranded antiparallel beta-barrel with a repeated + 1 topology enclosing a internal ligand binding site [, ]. The name 'lipocalin' has been proposed [] for this protein family, but cytosolic fatty-acid binding proteins are also included. The sequences of most members of the family, the core or kernal lipocalins, are characterised by three short conserved stretches of residues, while others, the outlier lipocalin group, share only one or two of these [, ]. Proteins known to belong to this family include alpha-1-microglobulin (protein HC); alpha-1-acid glycoprotein (orosomucoid) []; aphrodisin; apolipoprotein D; beta-lactoglobulin; complement component C8 gamma chain []; crustacyanin []; epididymal-retinoic acid binding protein (E-RABP) []; insectacyanin; odorant-binding protein (OBP); human pregnancy-associated endometrial alpha-2 globulin; probasin (PB), a rat prostatic protein; prostaglandin D synthase (5.3.99.2 from EC) []; purpurin; Von Ebner's gland protein (VEGP) []; and lizard epididymal secretory protein IV (LESP IV) [].; GO: 0005488 binding; PDB: 3EBW_B 1QWD_A 2ACO_A 3MBT_A.
Probab=68.35 E-value=60 Score=25.97 Aligned_cols=56 Identities=20% Similarity=0.289 Sum_probs=36.9
Q ss_pred EEEEEEEEcC---CcEEEEEEeCCeEEecceeeeeCCcceeEEEEEEecCC---eEEEeCCCCcEEEEEeccC
Q 026269 173 SLKGKLNALD---EKWIQVVFEPPELKVGGLEFRYGGQSEVKLQITYIDEK---IRLGLGSRGSLFVFQRRTQ 239 (241)
Q Consensus 173 ~v~a~~~~~~---~~rv~V~Fe~~~i~~g~l~~pl~~~~~g~ld~TYLDe~---lRIsRG~~G~lFVl~R~~~ 239 (241)
.+.|+..+.+ +.++.|+|... +....+-..|.|+|.+ .=|+-.++..++||.|...
T Consensus 54 ~~~g~a~~~~~~~~~~l~V~f~~~-----------~~~~~~~YwVl~~D~dY~~~iv~~~~~~~~WILsR~p~ 115 (143)
T PF08212_consen 54 TIRGTATVVDPSGPAKLKVRFPGI-----------PFPPKGNYWVLYTDYDYSWAIVGSPDREYLWILSRTPQ 115 (143)
T ss_dssp EEEEEEEESSBTTSSEEEEESST--------------TEEEEEEEEEEBTTSSEEEEEECCCCEEEEEESSSS
T ss_pred EEEeEEEEcCCCCccEEEEEEecc-----------ccCCCcceEEEEEcCCccEEEEecCCCCEEEEEeCCCC
Confidence 3455555544 34566665541 1256778889999988 4455667888999999864
No 4
>PF05973 Gp49: Phage derived protein Gp49-like (DUF891); InterPro: IPR009241 This entry consists of several hypothetical viral and bacterial proteins some are annotated as addiction module killer proteins.
Probab=52.14 E-value=43 Score=24.62 Aligned_cols=43 Identities=14% Similarity=0.135 Sum_probs=31.8
Q ss_pred CCHhhHHHHHHHHHHHHHhCC--CCCCCCCCc-ceeeEEEEecCCC
Q 026269 84 LAKEEHKEVAEVAQELQKYCV--EAPVKCPLI-FGEWDVVYCSVPT 126 (241)
Q Consensus 84 as~~~r~~I~~li~~LE~~np--~~P~~s~lL-~G~W~LvyTs~~~ 126 (241)
.+++.+.+|...++.|+..+| ..|....+= +|-|||.......
T Consensus 6 L~~~~~~~i~~~l~~l~~~G~~l~~~~~k~l~~~~i~ElR~~~~~~ 51 (91)
T PF05973_consen 6 LPDKERAKILAQLERLEEHGPSLGEPLFKHLKGDGIYELRVRGGSN 51 (91)
T ss_pred CCHHHHHHHHHHHHHHHhcCCccCCCcccccCcCCeEEEEEeecCC
Confidence 456778999999999998885 444444444 7999999876553
No 5
>COG3040 Blc Bacterial lipocalin [Cell envelope biogenesis, outer membrane]
Probab=43.32 E-value=1.7e+02 Score=25.15 Aligned_cols=78 Identities=15% Similarity=0.160 Sum_probs=48.0
Q ss_pred eeEEEEcCCC-eEEEEEEeccCCceeEEEEEEEEEEEcCC---cEEEEEEeCCeEEecceeeeeCCcceeEEEEEEecCC
Q 026269 145 EMIQAVEAPD-TVRNKVSFTALGFLDGEVSLKGKLNALDE---KWIQVVFEPPELKVGGLEFRYGGQSEVKLQITYIDEK 220 (241)
Q Consensus 145 ~v~Q~Id~~~-~v~N~v~~~~~~~l~g~v~v~a~~~~~~~---~rv~V~Fe~~~i~~g~l~~pl~~~~~g~ld~TYLDe~ 220 (241)
..|-..|... .|.|.-.... +- +-. .+.|+-.+.++ .++.|+|-. |.. |-..++|+|+|
T Consensus 59 A~Y~l~d~~~I~V~n~c~~~~-~~-~~~-~ieGkA~i~~~~~~a~LkVsF~~------------pF~--g~Y~Vl~~d~e 121 (174)
T COG3040 59 ATYSLRDDGGISVINRCRTGD-GG-KWS-QIEGKAKIVDNATRAKLKVSFFG------------PFY--GDYWVLALDPE 121 (174)
T ss_pred eEEEEecCCceEEEeccccCC-CC-Cce-eecceEEEecCccccEEEEEecC------------Ccc--ccEEEEEECCC
Confidence 4465666655 6777743321 10 111 45566666554 456666643 222 77889999999
Q ss_pred eEEEe---CCCCcEEEEEeccC
Q 026269 221 IRLGL---GSRGSLFVFQRRTQ 239 (241)
Q Consensus 221 lRIsR---G~~G~lFVl~R~~~ 239 (241)
=+..= .++--+|++.|...
T Consensus 122 Ys~aiVgsPdr~ylWlLsRtP~ 143 (174)
T COG3040 122 YSWAIVGSPDREYLWLLSRTPT 143 (174)
T ss_pred ccEEEEeCCCcceEEEEecCCC
Confidence 88654 46778999999763
No 6
>TIGR02116 toxin_Txe_YoeB toxin-antitoxin system, toxin component, Txe/YoeB family. The Axe-Txe pair in Enterococcus faecium and the homologous YefM-YoeB pair in Escherichia coli have been shown to act as an antitoxin-toxin pair. This model describes the toxin component. Nearly every example found is next to an identifiable antitoxin, as indicated by matches to TIGR01552 and/or pfam02604.
Probab=35.97 E-value=48 Score=23.96 Aligned_cols=31 Identities=16% Similarity=0.194 Sum_probs=18.9
Q ss_pred HhhHHHHHHHHHHHHHhCC-CCCCCCCCcceee
Q 026269 86 KEEHKEVAEVAQELQKYCV-EAPVKCPLIFGEW 117 (241)
Q Consensus 86 ~~~r~~I~~li~~LE~~np-~~P~~s~lL~G~W 117 (241)
++.++.|.++|++|+ .|| +.......|.|.|
T Consensus 17 ~~~~~~i~~~i~~l~-~~P~~~~~~~~~L~G~~ 48 (80)
T TIGR02116 17 KKLKKKINELIKDVR-RDPFKGKGKPEPLKGDL 48 (80)
T ss_pred HHHHHHHHHHHHHHH-cCCCCCCCCcccCCCCC
Confidence 456788999999886 466 3222223355544
No 7
>PF14467 DUF4426: Domain of unknown function (DUF4426); PDB: 3UC2_D.
Probab=34.19 E-value=1.3e+02 Score=24.23 Aligned_cols=69 Identities=13% Similarity=0.116 Sum_probs=36.0
Q ss_pred ceeeEEEEecCCCCCCCCCCCccccceeecceeEEEEcCCC-eEEEEEEeccC--CceeEEEEEEEEEEEcCCcEEEEEE
Q 026269 114 FGEWDVVYCSVPTSPGGGYRSAFGRLFFKTKEMIQAVEAPD-TVRNKVSFTAL--GFLDGEVSLKGKLNALDEKWIQVVF 190 (241)
Q Consensus 114 ~G~W~LvyTs~~~~~~g~~r~~~G~~~~~~g~v~Q~Id~~~-~v~N~v~~~~~--~~l~g~v~v~a~~~~~~~~rv~V~F 190 (241)
.|.|++-|+--.++.+.. .+.+-|++..... -+.|+..+..- +.-...+.|+|....+.+....+.|
T Consensus 5 ~gd~~vHY~af~StfL~P----------eIA~~y~i~RSk~~gllNIsVl~~~~~~~~av~a~v~G~a~nL~gq~~~L~F 74 (122)
T PF14467_consen 5 FGDYEVHYSAFNSTFLTP----------EIARAYGIQRSKYRGLLNISVLDKSDGGKPAVPAQVSGTARNLLGQQRTLEF 74 (122)
T ss_dssp ETTEEEEEEEEEGGGS-H----------HHHHHTT----TTEEEEEEEEEETT----EE--EEEEEEEE-TT--EEEE--
T ss_pred cCCEEEEEEEcccccCCH----------HHHHHcCCcccCCeEEEEEEEecCCCccCCccceEEEEEEeccccceeeeeE
Confidence 589999998766542111 2334455555555 56787766632 1112245678888888889999999
Q ss_pred eC
Q 026269 191 EP 192 (241)
Q Consensus 191 e~ 192 (241)
.+
T Consensus 75 re 76 (122)
T PF14467_consen 75 RE 76 (122)
T ss_dssp EE
T ss_pred EE
Confidence 87
No 8
>PF11010 DUF2848: Protein of unknown function (DUF2848); InterPro: IPR021269 This bacterial family of proteins has no known function.
Probab=33.17 E-value=43 Score=29.18 Aligned_cols=24 Identities=25% Similarity=0.422 Sum_probs=20.8
Q ss_pred hHHHHHHHHHHHHHhCCCCCCCCC
Q 026269 88 EHKEVAEVAQELQKYCVEAPVKCP 111 (241)
Q Consensus 88 ~r~~I~~li~~LE~~np~~P~~s~ 111 (241)
++++|+.-|+||++++.+.|.+.|
T Consensus 7 d~~av~~HI~EL~~lGVp~Ps~vP 30 (194)
T PF11010_consen 7 DQEAVEHHIEELAALGVPPPSSVP 30 (194)
T ss_pred CHHHHHHHHHHHHHhCCCCCCCCC
Confidence 578999999999999987777766
No 9
>PF12283 Protein_K: Bacteriophage protein K; InterPro: IPR020962 This family of proteins is found in the microviridae (isometric ssDNA phages) and are approximately 60 amino acids in length. The function of these proteins are unknown. In phi X174 site-directed mutagenesis of gene K produces small plaques on su- hosts. The mutant phage has an identical latent period, but a more reduced burst size than that of the wild-type phi X174. The reduced burst size in the gene K mutant suggests that the gene K protein, although not essential, has a role in increasing infectivity by increasing the burst size three to six fold [].
Probab=31.12 E-value=83 Score=21.63 Aligned_cols=36 Identities=17% Similarity=0.274 Sum_probs=28.2
Q ss_pred hHHHHHHHHHhhhccCC-CccCCHhhHHHHHHHHHHHHHh
Q 026269 64 PDDLVASILSKVNQSDG-GVSLAKEEHKEVAEVAQELQKY 102 (241)
Q Consensus 64 ~~~lK~~LL~aia~t~r-G~~as~~~r~~I~~li~~LE~~ 102 (241)
..-+||+||-+....+| |+.+ +-++|.....+||.+
T Consensus 5 ~tli~qellll~yelnrsgllv---ene~i~~~l~~le~l 41 (56)
T PF12283_consen 5 TTLIKQELLLLTYELNRSGLLV---ENEEIQSQLKQLEKL 41 (56)
T ss_pred HHHHHHHHHHHHHHhccccccc---ccHHHHHHHHHHHHH
Confidence 45689999999998888 4443 236788999999987
No 10
>COG4115 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.57 E-value=83 Score=23.80 Aligned_cols=36 Identities=25% Similarity=0.410 Sum_probs=23.1
Q ss_pred hHHHHHHHHHHHHHh-----CCCCCCCCCCcceee--------EEEEecC
Q 026269 88 EHKEVAEVAQELQKY-----CVEAPVKCPLIFGEW--------DVVYCSV 124 (241)
Q Consensus 88 ~r~~I~~li~~LE~~-----np~~P~~s~lL~G~W--------~LvyTs~ 124 (241)
....|++||.++..- ++|+|+.. .+.|.| +|+|+-.
T Consensus 23 ~~kki~~Li~~i~rdPfkg~gkpEpLk~-~~~g~wSRRIn~eHRlVY~v~ 71 (84)
T COG4115 23 LKKKINELIKEIKRDPFKGIGKPEPLKG-DYSGYWSRRINHEHRLVYTVD 71 (84)
T ss_pred HHHHHHHHHHHhccCccccCCCCccCcc-cccchhhhhcccceeEEEEec
Confidence 457788888888764 23777774 355655 5666543
No 11
>PF02295 z-alpha: Adenosine deaminase z-alpha domain; InterPro: IPR000607 Double-stranded RNA-specific adenosine deaminase (3.5 from EC) converts multiple adenosines to inosines and creates I/U mismatched base pairs in double-helical RNA substrates without apparent sequence specificity. DRADA has been found to modify adenosines in AU-rich regions more frequently, probably due to the relative ease of melting A/U base pairs compared to G/C base pairs. The protein functions to modify viral RNA genomes, and may be responsible for hypermutation of certain negative-stranded viruses. DRADA edits the mRNAs for the glutamate receptor subunits by site-selective adenosine deamination. The DRADA repeat is also found in viral E3 proteins, which contain a double-stranded RNA-binding domain.; GO: 0003723 RNA binding, 0003726 double-stranded RNA adenosine deaminase activity; PDB: 1OYI_A 3EYI_A 2L4M_A 2HEO_D 1J75_A 1SFU_B 3IRR_B 2ACJ_C 3F22_B 2L54_A ....
Probab=28.02 E-value=1.5e+02 Score=20.98 Aligned_cols=40 Identities=28% Similarity=0.261 Sum_probs=30.8
Q ss_pred hHHHHHHHHHhhhccCCCccCCHh--------hHHHHHHHHHHHHHhCC
Q 026269 64 PDDLVASILSKVNQSDGGVSLAKE--------EHKEVAEVAQELQKYCV 104 (241)
Q Consensus 64 ~~~lK~~LL~aia~t~rG~~as~~--------~r~~I~~li~~LE~~np 104 (241)
.+++++.+|+.+...+ |..++.- .+.+|+..+..||..+-
T Consensus 2 ~~~~ee~Il~~L~~~g-~~~a~~ia~~~~L~~~kk~VN~~LY~L~k~g~ 49 (66)
T PF02295_consen 2 MQDLEEKILDFLKELG-GSTATAIAKALGLSVPKKEVNRVLYRLEKQGK 49 (66)
T ss_dssp HHHHHHHHHHHHHHHT-SSEEEHHHHHHHHTS-HHHHHHHHHHHHHTTS
T ss_pred chhHHHHHHHHHHhcC-CccHHHHHHHhCcchhHHHHHHHHHHHHHCCC
Confidence 3678999999998877 6544321 27899999999999873
No 12
>cd03715 RT_ZFREV_like RT_ZFREV_like: A subfamily of reverse transcriptases (RTs) found in sequences similar to the intact endogenous retrovirus ZFERV from zebrafish and to Moloney murine leukemia virus RT. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. These elements can be divided into two major groups. One group contains retroviruses and DNA viruses whose propagation involves an RNA intermediate. They are grouped together with transposable elements containing long terminal repeats (LTRs). The other group, also called poly(A)-type retrotransposons, contain fungal mitochondrial introns and transposable elements that lack LTRs. Phylogenetic analysis suggests that ZFERV belongs to a distinct group of retroviruses.
Probab=25.57 E-value=1.5e+02 Score=25.00 Aligned_cols=42 Identities=21% Similarity=0.304 Sum_probs=30.2
Q ss_pred CccCCHhhHHHHHHHHHHHHHhCC----CCCCCCC-----Ccce-eeEEEEe
Q 026269 81 GVSLAKEEHKEVAEVAQELQKYCV----EAPVKCP-----LIFG-EWDVVYC 122 (241)
Q Consensus 81 G~~as~~~r~~I~~li~~LE~~np----~~P~~s~-----lL~G-~W~LvyT 122 (241)
....++++++++.+.|++|++.+- ..|-.+| .=+| +|+++.-
T Consensus 6 ~~~~~~~~~~~~~~~v~~ll~~G~I~~~~s~~~sp~~~V~Kk~g~~~R~~vD 57 (210)
T cd03715 6 QYPLPREAREGITPHIQELLEAGILVPCQSPWNTPILPVKKPGGNDYRMVQD 57 (210)
T ss_pred CCCCCHHHHHHHHHHHHHHHHCCCeECCCCCCCCceEEEEeCCCCcceEEEE
Confidence 345788999999999999999873 3333333 2367 8888754
No 13
>PF03076 GP3: Equine arteritis virus GP3; InterPro: IPR004310 This entry contains proteins encoded by ORF3 of Equine arteritis virus. They are possible envelope glcoproteins.
Probab=23.76 E-value=57 Score=26.58 Aligned_cols=19 Identities=32% Similarity=0.513 Sum_probs=15.4
Q ss_pred CcceeEEEEEEecCCeEEE
Q 026269 206 GQSEVKLQITYIDEKIRLG 224 (241)
Q Consensus 206 ~~~~g~ld~TYLDe~lRIs 224 (241)
..+-|.+...|+|||||+-
T Consensus 120 ~~glg~~sfsfidedlrlh 138 (160)
T PF03076_consen 120 TAGLGQLSFSFIDEDLRLH 138 (160)
T ss_pred CCCcceEEEEEecccceee
Confidence 3456888999999999974
No 14
>PF06251 Caps_synth_GfcC: Capsule biosynthesis GfcC; InterPro: IPR010425 This entry represents uncharacterised bacterial proteins that contain a central beta-grasp like domain related to the SLBB domain [].; PDB: 3P42_B.
Probab=23.69 E-value=1e+02 Score=26.84 Aligned_cols=62 Identities=18% Similarity=0.231 Sum_probs=37.6
Q ss_pred hHHHHHHHHHhhhccCCCccCCHhhHHHHHHHHHHHHHhCC--------------CCCCCCCCcceeeEEEEecCCCC
Q 026269 64 PDDLVASILSKVNQSDGGVSLAKEEHKEVAEVAQELQKYCV--------------EAPVKCPLIFGEWDVVYCSVPTS 127 (241)
Q Consensus 64 ~~~lK~~LL~aia~t~rG~~as~~~r~~I~~li~~LE~~np--------------~~P~~s~lL~G~W~LvyTs~~~~ 127 (241)
.++.|++|+..++.... ..+.+..+....++++|+.... .++...++|.|.++|..-..+..
T Consensus 55 ~~~~~~~ll~~L~~l~~--~~~~~~~~~~~~l~~qL~~~~~~gR~~i~lD~d~~r~~~~~n~~L~ggd~L~vP~rp~~ 130 (229)
T PF06251_consen 55 AEQQKQQLLAQLAQLEQ--SADSDQAAAAQQLIQQLQSLEATGRVVINLDPDWVRLNPEYNPLLEGGDRLYVPPRPNT 130 (229)
T ss_dssp HHHHHHHHHHHHHHHHH--HS-HHHHHHHHHHHHHHTT--B----S----TTS-EESTTSS-B-ECEEEEE-----SE
T ss_pred HHHHHHHHHHHHHHHhh--ccchhHHHHHHHHHHHHHhccccceEEEecCHHHhhccccCCCcCCCCcEEEECCCCCE
Confidence 67888888888775433 3455677888999999987642 12334578999999998877764
No 15
>cd01645 RT_Rtv RT_Rtv: Reverse transcriptases (RTs) from retroviruses (Rtvs). RTs catalyze the conversion of single-stranded RNA into double-stranded viral DNA for integration into host chromosomes. Proteins in this subfamily contain long terminal repeats (LTRs) and are multifunctional enzymes with RNA-directed DNA polymerase, DNA directed DNA polymerase, and ribonuclease hybrid (RNase H) activities. The viral RNA genome enters the cytoplasm as part of a nucleoprotein complex, and the process of reverse transcription generates in the cytoplasm forming a linear DNA duplex via an intricate series of steps. This duplex DNA is colinear with its RNA template, but contains terminal duplications known as LTRs that are not present in viral RNA. It has been proposed that two specialized template switches, known as strand-transfer reactions or "jumps", are required to generate the LTRs.
Probab=23.41 E-value=1.7e+02 Score=24.98 Aligned_cols=43 Identities=21% Similarity=0.290 Sum_probs=31.4
Q ss_pred CCccCCHhhHHHHHHHHHHHHHhCC----CCCCCCC-----CcceeeEEEEe
Q 026269 80 GGVSLAKEEHKEVAEVAQELQKYCV----EAPVKCP-----LIFGEWDVVYC 122 (241)
Q Consensus 80 rG~~as~~~r~~I~~li~~LE~~np----~~P~~s~-----lL~G~W~LvyT 122 (241)
+....++++++++.+.|++|...+- ..|-.+| .=+|+|+++.-
T Consensus 5 ~~~p~~~~~~~~~~~~i~~ll~~g~I~~~~s~~~sp~~~v~K~~g~~R~~~D 56 (213)
T cd01645 5 KQWPLTEEKLEALTELVTEQLKEGHIEPSTSPWNTPVFVIKKKSGKWRLLHD 56 (213)
T ss_pred CccCCCHHHHHHHHHHHHHHHHCCceecCCCCCcCcEEEEEcCCCCeEEEec
Confidence 3445789999999999999998873 3444444 23689998853
No 16
>PF07624 PSD2: Protein of unknown function (DUF1585); InterPro: IPR011478 This entry represents a conserved region at the C terminus of a family of cytochrome-like proteins found in bacteria such as Rhodopirellula baltica and Solibacter usitatus. These proteins also contain IPR013036 from INTERPRO, IPR013039 from INTERPRO, IPR013042 from INTERPRO and IPR013043 from INTERPRO.
Probab=22.50 E-value=1.5e+02 Score=21.45 Aligned_cols=41 Identities=12% Similarity=0.197 Sum_probs=27.2
Q ss_pred ChHHHHHHHHHh-----------hhccCCCccCCHhhHHHHHHHHHHHHHhC
Q 026269 63 GPDDLVASILSK-----------VNQSDGGVSLAKEEHKEVAEVAQELQKYC 103 (241)
Q Consensus 63 ~~~~lK~~LL~a-----------ia~t~rG~~as~~~r~~I~~li~~LE~~n 103 (241)
+..++|+.|++- +-...-|...+..|+..|+++++++++.+
T Consensus 8 ~~~eLk~~L~~~~~~~~~~~~~kl~~YAlGR~~~~~D~~~i~~i~~~~~~~~ 59 (76)
T PF07624_consen 8 GAAELKQYLAERKDQFARCFAEKLLTYALGRPLEFSDRCEIDRIVEAFKANG 59 (76)
T ss_pred CHHHHHHHHHHCHHHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHHHHcC
Confidence 345555555544 33333455566788999999999998765
No 17
>PF10047 DUF2281: Protein of unknown function (DUF2281); InterPro: IPR018739 This domain is found in putative uncharacterised proteins, though some proteins contaning this domain are described as a transcritional regulator of the Xre family.
Probab=21.83 E-value=2.1e+02 Score=20.12 Aligned_cols=48 Identities=23% Similarity=0.353 Sum_probs=32.1
Q ss_pred HHHHHHhhhccCCCccCCHhhHHHHHHHHHHHHHhCCCCCCCCCCcceeeEEEE
Q 026269 68 VASILSKVNQSDGGVSLAKEEHKEVAEVAQELQKYCVEAPVKCPLIFGEWDVVY 121 (241)
Q Consensus 68 K~~LL~aia~t~rG~~as~~~r~~I~~li~~LE~~np~~P~~s~lL~G~W~Lvy 121 (241)
+++|++.+.. .+++.+++|.+-|+=|...++........+.|.|+=.+
T Consensus 2 ~~~l~~~i~~------LP~~~~~Evldfi~fL~~k~~~~~~~~~~~~~~~~G~l 49 (66)
T PF10047_consen 2 EEELLEKIQQ------LPEELQQEVLDFIEFLLQKYQQKESKKKKLLGDWKGKL 49 (66)
T ss_pred hHHHHHHHHH------CCHHHHHHHHHHHHHHHHhcccccccccccccccCCcc
Confidence 4566777753 57889999999999998887522222334666665433
No 18
>PF14252 DUF4347: Domain of unknown function (DUF4347)
Probab=20.48 E-value=1e+02 Score=25.84 Aligned_cols=37 Identities=22% Similarity=0.239 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHh---CC---CCCCCCCCcceeeEEEEecCCC
Q 026269 90 KEVAEVAQELQKY---CV---EAPVKCPLIFGEWDVVYCSVPT 126 (241)
Q Consensus 90 ~~I~~li~~LE~~---np---~~P~~s~lL~G~W~LvyTs~~~ 126 (241)
++=.++|++|+.+ +. .+++-+..+.|.|.|.|.+..-
T Consensus 105 ~~G~~fv~~L~~ltga~VAAS~~~tG~~~~GGdW~Le~~~G~i 147 (165)
T PF14252_consen 105 EEGQEFVQRLAQLTGADVAASTDLTGNAALGGDWDLEVQTGDI 147 (165)
T ss_pred hhHHHHHHHHHHHHCCCEEecCCCcCccccCCCCeeeeeeccc
Confidence 3445666667666 33 4555556799999999987653
No 19
>PHA00097 K protein K
Probab=20.25 E-value=1.7e+02 Score=20.01 Aligned_cols=36 Identities=17% Similarity=0.302 Sum_probs=27.9
Q ss_pred hHHHHHHHHHhhhccCC-CccCCHhhHHHHHHHHHHHHHh
Q 026269 64 PDDLVASILSKVNQSDG-GVSLAKEEHKEVAEVAQELQKY 102 (241)
Q Consensus 64 ~~~lK~~LL~aia~t~r-G~~as~~~r~~I~~li~~LE~~ 102 (241)
..-++|+||-+....+| |+.+ +-++|...+.+||.+
T Consensus 5 ttli~qelllltyelnrsgllv---eneeiqs~lk~le~l 41 (56)
T PHA00097 5 TTLILQELLLLTYELNRSGLLV---ENEEIQSQLKKLEKL 41 (56)
T ss_pred hHHHHHHHHHHHHhhcccccee---ccHHHHHHHHHHHHH
Confidence 35689999999998887 4443 236788999999987
Done!