Query 026960
Match_columns 230
No_of_seqs 98 out of 100
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 03:02:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026960.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026960hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00019 photosystem I reactio 100.0 2E-102 5E-107 677.7 17.8 217 2-230 1-218 (223)
2 CHL00132 psaF photosystem I su 100.0 4E-100 8E-105 649.5 16.0 177 54-230 1-178 (185)
3 PF02507 PSI_PsaF: Photosystem 100.0 1.7E-96 4E-101 623.2 -2.8 173 57-229 1-174 (175)
4 PF11471 Sugarporin_N: Maltopo 85.3 1.8 3.9E-05 31.7 4.3 29 94-132 30-58 (60)
5 PF08599 Nbs1_C: DNA damage re 60.0 4.8 0.0001 30.6 1.1 24 129-153 4-27 (65)
6 PF11853 DUF3373: Protein of u 58.9 7.9 0.00017 38.6 2.7 57 54-127 1-59 (489)
7 PF06585 JHBP: Haemolymph juve 58.4 10 0.00022 32.1 3.0 30 78-107 26-56 (248)
8 PRK10386 curli assembly protei 46.7 16 0.00034 30.8 2.3 29 54-82 1-32 (130)
9 PF11241 DUF3043: Protein of u 44.5 8 0.00017 33.7 0.2 26 147-173 69-94 (170)
10 PF01323 DSBA: DSBA-like thior 35.1 54 0.0012 25.9 3.6 27 119-152 150-176 (193)
11 COG2077 Tpx Peroxiredoxin [Pos 34.2 15 0.00033 32.0 0.3 42 98-150 64-105 (158)
12 PF01471 PG_binding_1: Putativ 32.6 55 0.0012 21.8 2.8 37 97-133 4-41 (57)
13 PRK00571 atpC F0F1 ATP synthas 32.6 1E+02 0.0022 24.8 4.8 43 91-134 91-133 (135)
14 COG5568 Uncharacterized small 32.1 22 0.00048 28.3 0.9 15 138-152 53-67 (85)
15 PRK15128 23S rRNA m(5)C1962 me 32.1 55 0.0012 31.1 3.7 14 137-150 104-118 (396)
16 PRK10780 periplasmic chaperone 31.6 78 0.0017 26.1 4.1 11 54-64 1-11 (165)
17 PF02315 MDH: Methanol dehydro 31.3 13 0.00029 29.9 -0.4 70 54-135 1-83 (93)
18 KOG0721 Molecular chaperone (D 29.7 47 0.001 30.6 2.7 64 78-154 104-189 (230)
19 TIGR03516 ppisom_GldI peptidyl 28.6 88 0.0019 26.7 4.0 26 54-79 1-27 (177)
20 PRK13452 atpC F0F1 ATP synthas 28.6 1.3E+02 0.0028 25.1 4.9 44 91-134 92-135 (145)
21 PF02203 TarH: Tar ligand bind 26.1 1.1E+02 0.0024 23.8 3.9 48 86-133 79-126 (171)
22 TIGR03017 EpsF chain length de 25.7 1.5E+02 0.0034 27.3 5.3 46 85-131 251-300 (444)
23 PF09716 ETRAMP: Malarial earl 25.2 49 0.0011 25.3 1.7 27 81-107 19-48 (84)
24 PF09435 DUF2015: Fungal prote 24.9 1.2E+02 0.0026 25.7 4.0 42 92-146 84-125 (128)
25 PRK13446 atpC F0F1 ATP synthas 22.7 1.9E+02 0.0041 23.5 4.7 43 91-134 91-133 (136)
26 PRK10455 periplasmic protein; 22.2 42 0.00092 28.5 1.0 23 54-76 1-23 (161)
27 PF14975 DUF4512: Domain of un 21.7 41 0.00088 26.8 0.7 11 158-168 5-15 (88)
28 PF13192 Thioredoxin_3: Thiore 21.4 46 0.001 23.7 0.9 55 84-158 10-64 (76)
29 PF13696 zf-CCHC_2: Zinc knuck 21.3 35 0.00076 22.6 0.2 14 137-152 12-25 (32)
30 PF12596 Tnp_P_element_C: 87kD 21.3 38 0.00083 27.6 0.5 14 165-181 78-91 (106)
31 PF14283 DUF4366: Domain of un 21.1 78 0.0017 28.3 2.4 31 55-85 1-31 (218)
32 TIGR02780 TrbJ_Ti P-type conju 20.7 3.3E+02 0.0071 24.2 6.2 27 71-101 19-45 (246)
33 PF06953 ArsD: Arsenical resis 20.7 31 0.00068 28.4 -0.1 20 140-159 69-88 (123)
34 COG1341 Predicted GTPase or GT 20.6 26 0.00056 34.3 -0.7 26 166-191 176-202 (398)
35 PF10672 Methyltrans_SAM: S-ad 20.4 37 0.00081 31.2 0.3 9 142-150 12-20 (286)
No 1
>PLN00019 photosystem I reaction center subunit III; Provisional
Probab=100.00 E-value=2.1e-102 Score=677.71 Aligned_cols=217 Identities=69% Similarity=1.056 Sum_probs=198.0
Q ss_pred ccccCCCCCCCCCCCCCcCcccccccccceeeeccCCCCCCCccCcccCCchHHHHHHHHHHHHHhhhC-CCccccccCC
Q 026960 2 SLTIPTNLSKPLLKPRSNSQLSHAKLSKQMITCSSSAGSEETSSSSGKAAKPLQAFSAALALSSILLSA-PQPAVADISG 80 (230)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~mrr~~A~ll~~~l~~~~-~~~A~Advag 80 (230)
++++|+|||++.+++..... ++..+..++||++. . +....|++++++++++++++.+ |++|.||++|
T Consensus 1 ~~~~~~~l~~~~~~~~~~~~---~~~~~~~~~csa~~-----~----~~~~~m~~~~al~~~~~~~~~~~~~~a~Ad~ag 68 (223)
T PLN00019 1 SATIPANLSKPVLAKAARVA---APRRSARVVCSASK-----A----SAAGKFAAALALAAILLAAPMVAPPEALADIAG 68 (223)
T ss_pred CCcccccccccccccccccc---cCcceEEEEeeccc-----h----hHHHHHHHHHHHHHHHHHHhhcCCccccccccC
Confidence 47899999977665543322 24567889999863 1 1134599999999988888775 5599999999
Q ss_pred CccCccCHHHHHHHHHHHHHHHHhhhccCCCChhHHHHhhcHHHHHHHHHhcccCcCccCCCCCceeeecCCCcccccch
Q 026960 81 LTPCKESKQFAKREKQQLKKLESSLKLYAPDSAPALAIKATMEKTKRRFDNYGKYGLLCGSDGLPHLIVSGDQRHWGEFI 160 (230)
Q Consensus 81 LtPCseS~aF~kR~k~~vkkLe~rlkkY~~~S~palAl~a~i~~tk~RFe~Y~~~~lLCG~DGLPHLIvdG~~~HaGeF~ 160 (230)
||||+|||+||||+++++||||+|||||++||+|+|||++||++||+||||||++|||||+|||||||+||||+|+|||+
T Consensus 69 LtPCses~aF~kR~~~~~k~Le~rlkkY~~~s~palAl~~~i~~tk~RFe~Y~~agLLCG~DGLPHLIvdG~~~HaGeF~ 148 (223)
T PLN00019 69 LTPCKESKAFAKREKQEIKKLESRLKLYAPDSAPALALNATIEKTKRRFDNYGKAGLLCGADGLPHLIVDGDQAHLGEFI 148 (223)
T ss_pred CccCccCHHHHHHHHHHHHHHHHhhhccCCCCchhhhhhhchHHHHHHHHHhhhhccccCCCCCceeecCCCccccchhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hchhHHHhhhhccccchhHHHHHHhCCCCCccceeeeehhHHHHHHHccccchHHHHhhhhcCeeeccCC
Q 026960 161 TPGLLFLYIAGWIGWVGRSYLIAISGEKKPAMKEIIIDVPLASRLVFRGFSWPVAAYREFVNGELVVKDV 230 (230)
Q Consensus 161 IPgllFLYIAGwIGW~GRsYL~av~~~k~p~ekEIIIDVPLAlk~m~~Gf~WPlaA~~E~~sG~L~a~d~ 230 (230)
|||++|||||||||||||+|||+++++|||+|||||||||||++||++||+||++||||++||+|+++|.
T Consensus 149 IPgllFLYIAGwIGW~GRsYL~a~~~~k~p~ekEIIIDVplA~k~m~~G~~WPlaA~~E~~sG~L~a~d~ 218 (223)
T PLN00019 149 TPGLGFLYIAGWIGWVGRSYLIAVSTEAKPTEKEIIIDVPLALRLMFRGFIWPVAAYRELRNGTLVAKDS 218 (223)
T ss_pred hhhHHHHHHhhhhhhhhHHHHHHhhccCCcccceEEEehHHHHHHHHhhcccHHHHHHHhhcCceecccc
Confidence 9999999999999999999999999999999999999999999999999999999999999999999984
No 2
>CHL00132 psaF photosystem I subunit III; Validated
Probab=100.00 E-value=3.6e-100 Score=649.51 Aligned_cols=177 Identities=53% Similarity=0.968 Sum_probs=174.3
Q ss_pred HHHHHHHHHHHHHhhhCCC-ccccccCCCccCccCHHHHHHHHHHHHHHHHhhhccCCCChhHHHHhhcHHHHHHHHHhc
Q 026960 54 LQAFSAALALSSILLSAPQ-PAVADISGLTPCKESKQFAKREKQQLKKLESSLKLYAPDSAPALAIKATMEKTKRRFDNY 132 (230)
Q Consensus 54 mrr~~A~ll~~~l~~~~~~-~A~AdvagLtPCseS~aF~kR~k~~vkkLe~rlkkY~~~S~palAl~a~i~~tk~RFe~Y 132 (230)
||||+++++++++|+++++ +|.||++|||||+|||+||||+++++||||+|||||+++|||+|||++||++||+|||||
T Consensus 1 mrrl~~l~l~~~l~~~~~p~~a~ad~agLtpCses~aF~kR~~~~~k~Le~rlk~Y~~~s~p~lal~~qi~~tk~RFe~Y 80 (185)
T CHL00132 1 MKKFNLLFLLLAALLLFNPIAAFADVAGLTPCSESPAFQKRLNNSVKKLENRLAKYEANSPPALALQQQIDKTKARFDKY 80 (185)
T ss_pred ChhHHHHHHHHHHHHhcCCccccccccCCccCccCHHHHHHHHHHHHHHHhhhhccCCCCChHHHHHHHHHHHHHHHHHh
Confidence 8999999999999999877 699999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCcCccCCCCCceeeecCCCcccccchhchhHHHhhhhccccchhHHHHHHhCCCCCccceeeeehhHHHHHHHccccc
Q 026960 133 GKYGLLCGSDGLPHLIVSGDQRHWGEFITPGLLFLYIAGWIGWVGRSYLIAISGEKKPAMKEIIIDVPLASRLVFRGFSW 212 (230)
Q Consensus 133 ~~~~lLCG~DGLPHLIvdG~~~HaGeF~IPgllFLYIAGwIGW~GRsYL~av~~~k~p~ekEIIIDVPLAlk~m~~Gf~W 212 (230)
|++++|||+|||||||+||||+|+|||+|||+||||||||||||||+|||+++++|||+|||||||||||++||++||+|
T Consensus 81 ~~~~lLCG~DGLPHLI~dG~~~HaGeF~IPgllFLYIAGwIGW~GR~YL~a~~~~k~p~ekEIiIDvplA~k~m~~G~~W 160 (185)
T CHL00132 81 GRSGLLCGTDGLPHLITDGRWSHAGEFTIPGLLFLYITGWIGWVGRKYLRAVSTTKNPTEKEIIIDVPLALKIMSSGFIW 160 (185)
T ss_pred cccccccCCCCCceeecCCCcccchhhhhhhHHHHHHhhhhhhhhHHHHHHHhcCCCcccceeeeehHHHHHHHHhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHhhhhcCeeeccCC
Q 026960 213 PVAAYREFVNGELVVKDV 230 (230)
Q Consensus 213 PlaA~~E~~sG~L~a~d~ 230 (230)
|++||||++||+|+++|.
T Consensus 161 PlaA~~E~~sG~L~a~d~ 178 (185)
T CHL00132 161 PLSAWQEFTSGQLLAPND 178 (185)
T ss_pred HHHHHHHhhcCceecccc
Confidence 999999999999999984
No 3
>PF02507 PSI_PsaF: Photosystem I reaction centre subunit III; InterPro: IPR003666 Photosystem I (PSI) is an integral membrane protein complex that uses light energy to mediate electron transfer from plastocyanin to ferredoxin. Subunit III (or PsaF) is one of at least 14 different subunits that compose the photosystem I reaction centre (PSI-RC) [].; GO: 0015979 photosynthesis, 0009522 photosystem I, 0009538 photosystem I reaction center; PDB: 3PCQ_F 1JB0_F 2WSC_F 2WSF_F 2O01_F 2WSE_F.
Probab=100.00 E-value=1.7e-96 Score=623.17 Aligned_cols=173 Identities=62% Similarity=1.060 Sum_probs=141.6
Q ss_pred HHHHHHHHHHhhhC-CCccccccCCCccCccCHHHHHHHHHHHHHHHHhhhccCCCChhHHHHhhcHHHHHHHHHhcccC
Q 026960 57 FSAALALSSILLSA-PQPAVADISGLTPCKESKQFAKREKQQLKKLESSLKLYAPDSAPALAIKATMEKTKRRFDNYGKY 135 (230)
Q Consensus 57 ~~A~ll~~~l~~~~-~~~A~AdvagLtPCseS~aF~kR~k~~vkkLe~rlkkY~~~S~palAl~a~i~~tk~RFe~Y~~~ 135 (230)
|+++++++++|+++ |++|+||++|||||||||+||||++++|||||+|||||+|||+|||||++||++||+||||||++
T Consensus 1 ~~aliLl~~L~l~~ap~~a~aD~~gLtPC~eS~aF~kr~k~~~~~l~~rlkky~~~S~p~lal~~~i~~tk~Rf~~Y~~a 80 (175)
T PF02507_consen 1 LFALILLFSLWLFFAPPAAAADVAGLTPCSESPAFQKRAKNSVKKLEKRLKKYEPDSAPALALQAQIEKTKARFERYSKA 80 (175)
T ss_dssp ----------------------GCC-EECCC-HHHHHHHHTTGGGSTTGSGSSSTTHCS--STTTTSHHHHCCHCHCTTS
T ss_pred ChHHHHHHHHHHHcCchhhhccccCCCCCcCCHHHHHHHHHHHHhcccccccCCCCCccccccchhhHHHHHHHHHHHHh
Confidence 46788888888776 66789999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCccCCCCCceeeecCCCcccccchhchhHHHhhhhccccchhHHHHHHhCCCCCccceeeeehhHHHHHHHccccchHH
Q 026960 136 GLLCGSDGLPHLIVSGDQRHWGEFITPGLLFLYIAGWIGWVGRSYLIAISGEKKPAMKEIIIDVPLASRLVFRGFSWPVA 215 (230)
Q Consensus 136 ~lLCG~DGLPHLIvdG~~~HaGeF~IPgllFLYIAGwIGW~GRsYL~av~~~k~p~ekEIIIDVPLAlk~m~~Gf~WPla 215 (230)
|||||+|||||||+||||+|+|||+|||++|||||||||||||+|||+++++|||+|||||||||||++||++||+||++
T Consensus 81 glLCG~DGLPHLI~dg~~~hagef~iP~~~FlYiAGwIGW~GR~YL~a~~~~~~p~ekEIiIDvplA~~~m~~g~~WPl~ 160 (175)
T PF02507_consen 81 GLLCGKDGLPHLIVDGRWSHAGEFLIPGLLFLYIAGWIGWAGRSYLIAIKKTKKPTEKEIIIDVPLALKCMLSGFAWPLA 160 (175)
T ss_dssp -TCEBTTTCB-B--SSSCCCTTTTCHHHHHHHHHCCCCCCCCCCCCCCCCTTT-TTCCCCC-SCHHHCCCHHGGCCHCCC
T ss_pred hcccCCCCCceeecCCCcceeehhhhhhHHHHHHhhhhchhhHHHHHHHhccCCcccceEEEehHHHHHHHHHhhhhHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhhcCeeeccC
Q 026960 216 AYREFVNGELVVKD 229 (230)
Q Consensus 216 A~~E~~sG~L~a~d 229 (230)
||+|++||+|+++|
T Consensus 161 A~~E~~sG~L~~~d 174 (175)
T PF02507_consen 161 AFKELTSGKLTAKD 174 (175)
T ss_dssp HHHHCCTTSSTGGG
T ss_pred HHHHHhcCeeecCC
Confidence 99999999999998
No 4
>PF11471 Sugarporin_N: Maltoporin periplasmic N-terminal extension; InterPro: IPR021570 This N-terminal domain is found in members of the sugar porin family 1.B.3 from TC, They are related to LamB - the well characterised maltoporin of Escherichia coli for which the three-dimensional structures with and without its substrate have been obtained by X-ray diffraction. The protein consists of an 18 beta-stranded beta-barrel in contrast to proteins of the general bacterial porin family (GBP) and the Rhodobacter PorCa Porin (RPP) family which consist of 16 beta-stranded beta-barrels. Although maltoporin contains a wider beta-barrel than the porins of the GBP and RPP families (1.B.1 from TC and 1.B.7 from TC), it exhibits a narrower channel, showing only 5% of the ionic conductance of the latter porins.
Probab=85.29 E-value=1.8 Score=31.71 Aligned_cols=29 Identities=21% Similarity=0.243 Sum_probs=18.9
Q ss_pred HHHHHHHHHHhhhccCCCChhHHHHhhcHHHHHHHHHhc
Q 026960 94 EKQQLKKLESSLKLYAPDSAPALAIKATMEKTKRRFDNY 132 (230)
Q Consensus 94 ~k~~vkkLe~rlkkY~~~S~palAl~a~i~~tk~RFe~Y 132 (230)
..+.+..||+||.. .++..+++++|...|
T Consensus 30 iEqRLa~LE~rL~~----------ae~ra~~ae~~~~~~ 58 (60)
T PF11471_consen 30 IEQRLAALEQRLQA----------AEQRAQAAEARAKQA 58 (60)
T ss_pred HHHHHHHHHHHHHH----------HHHHHHHHHHHHHHh
Confidence 45556688888775 355666677776655
No 5
>PF08599 Nbs1_C: DNA damage repair protein Nbs1; InterPro: IPR013908 This C-terminal region of the DNA damage repair protein Nbs1 has been identified to be necessary for the binding of Mre11 and Tel1 [].
Probab=59.95 E-value=4.8 Score=30.62 Aligned_cols=24 Identities=38% Similarity=0.657 Sum_probs=17.3
Q ss_pred HHhcccCcCccCCCCCceeeecCCC
Q 026960 129 FDNYGKYGLLCGSDGLPHLIVSGDQ 153 (230)
Q Consensus 129 Fe~Y~~~~lLCG~DGLPHLIvdG~~ 153 (230)
|.++-| ...=|.+||||+|-.-++
T Consensus 4 FKkFkK-v~~pGa~~lP~IIGGSDL 27 (65)
T PF08599_consen 4 FKKFKK-VAYPGAGGLPHIIGGSDL 27 (65)
T ss_pred hhhhcc-cccCCCCCCCeeecchhh
Confidence 555555 357799999999976553
No 6
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=58.86 E-value=7.9 Score=38.58 Aligned_cols=57 Identities=21% Similarity=0.336 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHhhh-CCCcccc-ccCCCccCccCHHHHHHHHHHHHHHHHhhhccCCCChhHHHHhhcHHHHHH
Q 026960 54 LQAFSAALALSSILLS-APQPAVA-DISGLTPCKESKQFAKREKQQLKKLESSLKLYAPDSAPALAIKATMEKTKR 127 (230)
Q Consensus 54 mrr~~A~ll~~~l~~~-~~~~A~A-dvagLtPCseS~aF~kR~k~~vkkLe~rlkkY~~~S~palAl~a~i~~tk~ 127 (230)
||+++++++++++++. .+..|.+ |+.-+. =.+.+++++.+|+++++ .++.+++++++
T Consensus 1 Mkk~~~l~l~aall~~s~~~~a~~~~~~~~q-------kie~L~kql~~Lk~q~~----------~l~~~v~k~e~ 59 (489)
T PF11853_consen 1 MKKLISLSLAAALLFLSLPAAAMADDIDLLQ-------KIEALKKQLEELKAQQD----------DLNDRVDKVEK 59 (489)
T ss_pred CchhHHHHHHHHHHHhccchhhhhhhhHHHH-------HHHHHHHHHHHHHHhhc----------ccccccchhhH
Confidence 7888888888875433 2333333 221111 13344556666666555 34555555554
No 7
>PF06585 JHBP: Haemolymph juvenile hormone binding protein (JHBP); InterPro: IPR010562 This family consists of several insect specific haemolymph juvenile hormone binding proteins (JHBP). Juvenile hormone (JH) has a profound effect on insects. It regulates embryogenesis, maintains the status quo of larva development and stimulates reproductive maturation in the adult forms. JH is transported from the sites of its synthesis to target tissues by a haemolymph carrier called juvenile hormone-binding protein (JHBP). JHBP protects the JH molecules from hydrolysis by non-specific esterases present in the insect haemolymph []. The crystal structure of the JHBP from Galleria mellonella (Wax moth) shows an unusual fold consisting of a long alpha-helix wrapped in a much curved antiparallel beta-sheet. The folding pattern for this structure closely resembles that found in some tandem-repeat mammalian lipid-binding and bactericidal permeability-increasing proteins, with a similar organisation of the major cavity and a disulphide bond linking the long helix and the beta-sheet. It would appear that JHBP forms two cavities, only one of which, the one near the N- and C-termini, binds the hormone; binding induces a conformational change, of unknown significance [, ].; PDB: 3A1Z_D 3AOS_B 3AOT_A 2RQF_A 2RCK_A 3E8W_A 3E8T_A.
Probab=58.39 E-value=10 Score=32.09 Aligned_cols=30 Identities=20% Similarity=0.370 Sum_probs=16.4
Q ss_pred cCCCccCccC-HHHHHHHHHHHHHHHHhhhc
Q 026960 78 ISGLTPCKES-KQFAKREKQQLKKLESSLKL 107 (230)
Q Consensus 78 vagLtPCseS-~aF~kR~k~~vkkLe~rlkk 107 (230)
-..+++|+.+ |.+.+-.++.++++-.++++
T Consensus 26 p~~~~~C~~~~~~~~~cl~~~~~~~~~~l~~ 56 (248)
T PF06585_consen 26 PSYIKPCKRSDPNLNECLRESIENFRPYLAK 56 (248)
T ss_dssp S-S---BBTT----HHHHHHHHHHHHHHHTC
T ss_pred CcccCcCCCCCccHHHHHHHHHHHHHHhhcC
Confidence 5789999988 66888887777765554443
No 8
>PRK10386 curli assembly protein CsgE; Provisional
Probab=46.72 E-value=16 Score=30.75 Aligned_cols=29 Identities=17% Similarity=0.303 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHhhhCCCccccc---cCCCc
Q 026960 54 LQAFSAALALSSILLSAPQPAVAD---ISGLT 82 (230)
Q Consensus 54 mrr~~A~ll~~~l~~~~~~~A~Ad---vagLt 82 (230)
|||+...++++.+++..+..++|| +.||.
T Consensus 1 ~~r~~~~~l~~~~l~~~~~~~a~~eiEi~GLI 32 (130)
T PRK10386 1 MKRYLRWIVAAELLFAAGNLHAAVEVEVPGLL 32 (130)
T ss_pred ChhHHHHHHHHHHHHhCccccccccccccceE
Confidence 789888888887777766554444 77775
No 9
>PF11241 DUF3043: Protein of unknown function (DUF3043); InterPro: IPR021403 Some members in this family of proteins with unknown function are annotated as membrane proteins. This cannot be confirmed.
Probab=44.45 E-value=8 Score=33.67 Aligned_cols=26 Identities=27% Similarity=0.488 Sum_probs=22.8
Q ss_pred eeecCCCcccccchhchhHHHhhhhcc
Q 026960 147 LIVSGDQRHWGEFITPGLLFLYIAGWI 173 (230)
Q Consensus 147 LIvdG~~~HaGeF~IPgllFLYIAGwI 173 (230)
=+||.|| +.|||++|..+.+.+..++
T Consensus 69 D~VDsR~-~i~e~fmP~alv~lv~~~v 94 (170)
T PF11241_consen 69 DYVDSRR-NIGEFFMPVALVLLVLSFV 94 (170)
T ss_pred hhhhccc-chHHHHHHHHHHHHHHHHH
Confidence 3789999 6699999999999988888
No 10
>PF01323 DSBA: DSBA-like thioredoxin domain; InterPro: IPR001853 DSBA is a sub-family of the Thioredoxin family []. The efficient and correct folding of bacterial disulphide bonded proteins in vivo is dependent upon a class of periplasmic oxidoreductase proteins called DsbA, after the Escherichia coli enzyme. The bacterial protein-folding factor DsbA is the most oxidizing of the thioredoxin family. DsbA catalyses disulphide-bond formation during the folding of secreted proteins. The extremely oxidizing nature of DsbA has been proposed to result from either domain motion or stabilising active-site interactions in the reduced form. DsbA's highly oxidizing nature is a result of hydrogen bond, electrostatic and helix-dipole interactions that favour the thiolate over the disulphide at the active site []. In the pathogenic bacterium Vibrio cholerae, the DsbA homologue (TcpG) is responsible for the folding, maturation and secretion of virulence factors. While the overall architecture of TcpG and DsbA is similar and the surface features are retained in TcpG, there are significant differences. For example, the kinked active site helix results from a three-residue loop in DsbA, but is caused by a proline in TcpG (making TcpG more similar to thioredoxin in this respect). Furthermore, the proposed peptide binding groove of TcpG is substantially shortened compared with that of DsbA due to a six-residue deletion. Also, the hydrophobic pocket of TcpG is more shallow and the acidic patch is much less extensive than that of E. coli DsbA [].; GO: 0015035 protein disulfide oxidoreductase activity; PDB: 3GL5_A 3DKS_D 3RPP_C 3RPN_B 1YZX_A 3L9V_C 2IMD_A 2IME_A 2IMF_A 2B3S_B ....
Probab=35.08 E-value=54 Score=25.91 Aligned_cols=27 Identities=30% Similarity=0.557 Sum_probs=21.2
Q ss_pred hhcHHHHHHHHHhcccCcCccCCCCCceeeecCC
Q 026960 119 KATMEKTKRRFDNYGKYGLLCGSDGLPHLIVSGD 152 (230)
Q Consensus 119 ~a~i~~tk~RFe~Y~~~~lLCG~DGLPHLIvdG~ 152 (230)
.+.+++..++..+|| -.|.|++|+||+
T Consensus 150 ~~~~~~~~~~a~~~g-------v~GvP~~vv~g~ 176 (193)
T PF01323_consen 150 KAALEEDTAEARQLG-------VFGVPTFVVNGK 176 (193)
T ss_dssp HHHHHHHHHHHHHTT-------CSSSSEEEETTT
T ss_pred HHHHHHHHHHHHHcC-------CcccCEEEECCE
Confidence 456666777777776 369999999998
No 11
>COG2077 Tpx Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=34.20 E-value=15 Score=31.99 Aligned_cols=42 Identities=21% Similarity=0.516 Sum_probs=29.3
Q ss_pred HHHHHHhhhccCCCChhHHHHhhcHHHHHHHHHhcccCcCccCCCCCceeeec
Q 026960 98 LKKLESSLKLYAPDSAPALAIKATMEKTKRRFDNYGKYGLLCGSDGLPHLIVS 150 (230)
Q Consensus 98 vkkLe~rlkkY~~~S~palAl~a~i~~tk~RFe~Y~~~~lLCG~DGLPHLIvd 150 (230)
+++..++.++|+- ..-|-+..+..=+|+|| ||++|+..+|.=
T Consensus 64 vr~Fn~~aa~~~~--~~Vl~IS~DLPFAq~Rf---------C~aeGi~nv~~l 105 (158)
T COG2077 64 VRKFNEEAAKLGN--TVVLCISMDLPFAQKRF---------CGAEGIENVITL 105 (158)
T ss_pred HHHHHHHHhccCC--cEEEEEeCCChhHHhhh---------hhhcCcccceEh
Confidence 3344444455543 44567788899999996 999999987763
No 12
>PF01471 PG_binding_1: Putative peptidoglycan binding domain; InterPro: IPR002477 This entry represents peptidoglycan binding domain (PGBD), as well as related domains that share the same structure. PGBD may have a general peptidoglycan binding function, has a core structure consisting of a closed, three-helical bundle with a left-handed twist. It is found at the N or C terminus of a variety of enzymes involved in bacterial cell wall degradation [, , ]. Examples are: Muramoyl-pentapeptide carboxypeptidase (3.4.17.8 from EC) N-acetylmuramoyl-L-alanine amidase cwlA precursor (cell wall hydrolase, autolysin, 3.5.1.28 from EC) Autolytic lysozyme (1,4-beta-N-acetylmuramidase, autolysin, 3.2.1.17 from EC) Membrane-bound lytic murein transglycosylase B Zinc-containing D-alanyl-D-alanine-cleaving carboxypeptidase, VanX []. Many of the proteins having this domain are as yet uncharacterised. However, some are known to belong to MEROPS peptidase family M15 (clan MD), subfamily M15A metallopeptidases. A number of the proteins belonging to subfamily M15A are non-peptidase homologues as they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. Eukaryotic enzymes can contain structurally similar PGBD-like domains. Matrix metalloproteinases (MMP), which catalyse extracellular matrix degradation, have N-terminal domains that resemble PGBD. Examples are gelatinase A (MMP-2), which degrades type IV collagen [], stromelysin-1 (MMP-3), which plays a role in arthritis and tumour invasion [, ], and gelatinase B (MMP-9) secreted by neutrophils as part of the innate immune defence mechanism []. Several MMPs are implicated in cancer progression, since degradation of the extracellular matrix is an essential step in the cascade of metastasis [].; GO: 0008152 metabolic process; PDB: 1L6J_A 3BKH_A 3BKV_A 1GXD_A 1EAK_D 1CK7_A 1SLM_A 1LBU_A 1SU3_B.
Probab=32.55 E-value=55 Score=21.83 Aligned_cols=37 Identities=11% Similarity=0.099 Sum_probs=24.8
Q ss_pred HHHHHHHhhhccCCC-ChhHHHHhhcHHHHHHHHHhcc
Q 026960 97 QLKKLESSLKLYAPD-SAPALAIKATMEKTKRRFDNYG 133 (230)
Q Consensus 97 ~vkkLe~rlkkY~~~-S~palAl~a~i~~tk~RFe~Y~ 133 (230)
.|+.++.+|++|--. .++--.+...+..+-++|.+.-
T Consensus 4 ~v~~lq~~L~~~gy~~~~~~g~~~~~t~~Av~~fQ~~~ 41 (57)
T PF01471_consen 4 DVKALQQYLNRLGYYPGPVDGIFDPETREAVKAFQKAN 41 (57)
T ss_dssp HHHHHHHHHHHTTTT-SSTTSBSHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHcCCCCCCCCCCcCHHHHHHHHHHHHHc
Confidence 566677777765443 2333556778888889998776
No 13
>PRK00571 atpC F0F1 ATP synthase subunit epsilon; Validated
Probab=32.55 E-value=1e+02 Score=24.83 Aligned_cols=43 Identities=16% Similarity=0.187 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHhhhccCCCChhHHHHhhcHHHHHHHHHhccc
Q 026960 91 AKREKQQLKKLESSLKLYAPDSAPALAIKATMEKTKRRFDNYGK 134 (230)
Q Consensus 91 ~kR~k~~vkkLe~rlkkY~~~S~palAl~a~i~~tk~RFe~Y~~ 134 (230)
.+|+++.++..|++|++.+ +..-....+.+++++..|.+.+.+
T Consensus 91 ~~~a~~~~~~ae~~l~~~~-~~~~~~~a~~~l~~a~~rl~~~~~ 133 (135)
T PRK00571 91 EARAEEAKERAEEALENKH-DDVDYARAQAALARAIARLRVAEK 133 (135)
T ss_pred HHHHHHHHHHHHHHHhhCC-ChHHHHHHHHHHHHHHHHHHHHhc
Confidence 4677777888889998843 444566778889999999887653
No 14
>COG5568 Uncharacterized small protein [Function unknown]
Probab=32.14 E-value=22 Score=28.25 Aligned_cols=15 Identities=40% Similarity=0.694 Sum_probs=14.1
Q ss_pred ccCCCCCceeeecCC
Q 026960 138 LCGSDGLPHLIVSGD 152 (230)
Q Consensus 138 LCG~DGLPHLIvdG~ 152 (230)
|||.||-|-|..|-|
T Consensus 53 lfgAdG~pilLsD~R 67 (85)
T COG5568 53 LFGADGEPILLSDNR 67 (85)
T ss_pred hhccCCceEEEecch
Confidence 999999999999976
No 15
>PRK15128 23S rRNA m(5)C1962 methyltransferase; Provisional
Probab=32.08 E-value=55 Score=31.10 Aligned_cols=14 Identities=50% Similarity=1.032 Sum_probs=12.2
Q ss_pred CccC-CCCCceeeec
Q 026960 137 LLCG-SDGLPHLIVS 150 (230)
Q Consensus 137 lLCG-~DGLPHLIvd 150 (230)
|+=| .||||.||+|
T Consensus 104 lv~~e~DglpGliVD 118 (396)
T PRK15128 104 LIAGESDGLPGITID 118 (396)
T ss_pred EEeccCCCCCcEEEE
Confidence 5667 6999999999
No 16
>PRK10780 periplasmic chaperone; Provisional
Probab=31.57 E-value=78 Score=26.13 Aligned_cols=11 Identities=18% Similarity=0.314 Sum_probs=6.7
Q ss_pred HHHHHHHHHHH
Q 026960 54 LQAFSAALALS 64 (230)
Q Consensus 54 mrr~~A~ll~~ 64 (230)
||+++.+++++
T Consensus 1 Mkk~~~~~~l~ 11 (165)
T PRK10780 1 MKKWLLAAGLG 11 (165)
T ss_pred ChHHHHHHHHH
Confidence 67877654443
No 17
>PF02315 MDH: Methanol dehydrogenase beta subunit; InterPro: IPR003420 Methanol dehydrogenase (MDH) (1.1.99.8 from EC), found in Gram-negative bacteria, is a pyrroloquinoline quinone (PQQ)-containing enzyme which oxidises methanol to formaldehyde. It is located in the periplasmic space and passes electrons derived from the oxidation of methanol to the soluble cytochrome cL []. The enzyme is a tetramer composed of two large alpha subunits and two smaller beta subunits. The alpha subunit binds the PQQ cofactor and contains the active site, while the function of the beta subunit is currently unknown []. The alpha subunit forms an eight-bladed propeller structure, with several novel tryptophan-docking motifs linking the individual blades together. This entry represents the beta subunit of methanol dehydrogenase.; GO: 0004022 alcohol dehydrogenase (NAD) activity, 0015946 methanol oxidation, 0055114 oxidation-reduction process; PDB: 1LRW_B 2D0V_J 2AD6_B 1G72_B 4AAH_D 2AD8_D 2AD7_D 1H4J_D 1H4I_B 1W6S_B ....
Probab=31.27 E-value=13 Score=29.91 Aligned_cols=70 Identities=27% Similarity=0.410 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHhhhCCCccccccCCCccCcc-------CHHHHHHHHHHHHHHHHhhhccCCCChhH-H-----HHhh
Q 026960 54 LQAFSAALALSSILLSAPQPAVADISGLTPCKE-------SKQFAKREKQQLKKLESSLKLYAPDSAPA-L-----AIKA 120 (230)
Q Consensus 54 mrr~~A~ll~~~l~~~~~~~A~AdvagLtPCse-------S~aF~kR~k~~vkkLe~rlkkY~~~S~pa-l-----Al~a 120 (230)
||+++.+.+++.++ +.+.+|.| ..=|-|++ .|-|-++.. -.||+|.--|. | ++++
T Consensus 1 Mk~~~~~~~~~~~~-~~a~~A~A--YDGt~CkapG~CWEpkPGyPekia---------GSKYDPkHdp~ELnKQ~~si~~ 68 (93)
T PF02315_consen 1 MKTVLLAAAAAAAL-ATAGAALA--YDGTNCKAPGNCWEPKPGYPEKIA---------GSKYDPKHDPKELNKQQESIKA 68 (93)
T ss_dssp ---------------------------S---SBTTB-----TTS-SS-T---------TSTT-----HHHHTHHHHHHHH
T ss_pred ChhhHHHHHHHHHH-hcchhhhh--ccCcccCCCccccCCCCCCccccc---------ccccCCCCCHHHHHHHHHHHHH
Confidence 56665544444443 23334444 44577876 355655443 46788877666 3 4555
Q ss_pred cHHHHHHHHHhcccC
Q 026960 121 TMEKTKRRFDNYGKY 135 (230)
Q Consensus 121 ~i~~tk~RFe~Y~~~ 135 (230)
--++-++|-+++-+.
T Consensus 69 me~RN~kR~~~fkkT 83 (93)
T PF02315_consen 69 MEERNAKRVENFKKT 83 (93)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhc
Confidence 667778888888764
No 18
>KOG0721 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=29.69 E-value=47 Score=30.59 Aligned_cols=64 Identities=33% Similarity=0.573 Sum_probs=42.7
Q ss_pred cCCCccCccCHHHHHHHHHHHHHHHHhhhccCCCChhH------------HHHhhc-HHHHHHHHHhcccCcCccCCCC-
Q 026960 78 ISGLTPCKESKQFAKREKQQLKKLESSLKLYAPDSAPA------------LAIKAT-MEKTKRRFDNYGKYGLLCGSDG- 143 (230)
Q Consensus 78 vagLtPCseS~aF~kR~k~~vkkLe~rlkkY~~~S~pa------------lAl~a~-i~~tk~RFe~Y~~~~lLCG~DG- 143 (230)
|-||-|=+.-+.-.|+-+ . =..||-||-.|- -|.++- .+++..-||+||. +||
T Consensus 104 ILGl~pgas~~eIKkaYR----~---LSik~HPDK~~~~~~~e~~~~~I~KAY~aLTD~~sreN~ekYG~------PDGp 170 (230)
T KOG0721|consen 104 ILGLDPGASEKEIKKAYR----R---LSIKYHPDKQPPEEGDEEFFEAIAKAYQALTDKKSRENWEKYGN------PDGP 170 (230)
T ss_pred hhCCCCCCCHHHHHHHHH----H---hhhhhCCCcCCCcchhHHHHHHHHHHHHHhcchhhHHHHHHhCC------CCCc
Confidence 789999888766666554 1 124788887432 233332 2455667889986 688
Q ss_pred --------CceeeecCCCc
Q 026960 144 --------LPHLIVSGDQR 154 (230)
Q Consensus 144 --------LPHLIvdG~~~ 154 (230)
||.-|+|+.-+
T Consensus 171 q~~s~GIALPk~Ivd~~~s 189 (230)
T KOG0721|consen 171 QATSFGIALPKWIVDKEGS 189 (230)
T ss_pred cchhhHhhhHHHHHhcCCC
Confidence 89999997644
No 19
>TIGR03516 ppisom_GldI peptidyl-prolyl isomerase, gliding motility-associated. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldI is a FKBP-type peptidyl-prolyl cis-trans isomerase (pfam00254) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockout of this gene abolishes the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. This family is only found in Bacteroidetes containing the suite of genes proposed to confer the gliding motility phenotype.
Probab=28.64 E-value=88 Score=26.68 Aligned_cols=26 Identities=27% Similarity=0.300 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHhhhCC-CccccccC
Q 026960 54 LQAFSAALALSSILLSAP-QPAVADIS 79 (230)
Q Consensus 54 mrr~~A~ll~~~l~~~~~-~~A~Adva 79 (230)
||+++++++++.++++.. +.+.--|+
T Consensus 1 ~~~~~~~~~~~~~~~~c~~~~~~~pv~ 27 (177)
T TIGR03516 1 MKHLIAVILLLLLLLGCKTPEARRPIS 27 (177)
T ss_pred CceeHHHHHHHHHHhhcCCCCCCCCcC
Confidence 678888888877776643 33444454
No 20
>PRK13452 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=28.58 E-value=1.3e+02 Score=25.06 Aligned_cols=44 Identities=9% Similarity=0.098 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHhhhccCCCChhHHHHhhcHHHHHHHHHhccc
Q 026960 91 AKREKQQLKKLESSLKLYAPDSAPALAIKATMEKTKRRFDNYGK 134 (230)
Q Consensus 91 ~kR~k~~vkkLe~rlkkY~~~S~palAl~a~i~~tk~RFe~Y~~ 134 (230)
.+|+++.+...|++|++...+.--....++.+.++.+|.+.+..
T Consensus 92 ~~~ae~a~~~Ae~~L~~~~~~~~~~~~a~~~L~rA~~Rl~~~~~ 135 (145)
T PRK13452 92 QAEAEKARARAKEVLKNPDASKLDIEAANKRLKEADARLKALNS 135 (145)
T ss_pred HHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHhh
Confidence 57888888889999988743333345567889999999986543
No 21
>PF02203 TarH: Tar ligand binding domain homologue; InterPro: IPR003122 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []. Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the ligand-binding domain found in a number of methyl-accepting chemotaxis receptors.; GO: 0004888 transmembrane signaling receptor activity, 0006935 chemotaxis, 0007165 signal transduction, 0016020 membrane; PDB: 2ASR_A 3ATP_A 2D4U_A 2LIG_A 1VLS_A 1LIH_A 1WAT_B 1VLT_B 1WAS_A 1JMW_A.
Probab=26.13 E-value=1.1e+02 Score=23.84 Aligned_cols=48 Identities=17% Similarity=0.310 Sum_probs=31.2
Q ss_pred cCHHHHHHHHHHHHHHHHhhhccCCCChhHHHHhhcHHHHHHHHHhcc
Q 026960 86 ESKQFAKREKQQLKKLESSLKLYAPDSAPALAIKATMEKTKRRFDNYG 133 (230)
Q Consensus 86 eS~aF~kR~k~~vkkLe~rlkkY~~~S~palAl~a~i~~tk~RFe~Y~ 133 (230)
++.....++.+.+++.+++++.|.......-.-.+-.+..+++|+.|-
T Consensus 79 ~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 126 (171)
T PF02203_consen 79 DAAELLARAEQNLEQAEQAFDAFKALPHASPEERALADELEASFDAYL 126 (171)
T ss_dssp CCHHHHHHHHHHHHHHHHHHHHHHCS---GTGGHHHHHHHHHHHHH-H
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHccCCCCcchHHHHHHHHHHHHHHH
Confidence 447777778888888888888887544333234455667777888855
No 22
>TIGR03017 EpsF chain length determinant protein EpsF. Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=25.71 E-value=1.5e+02 Score=27.28 Aligned_cols=46 Identities=15% Similarity=0.224 Sum_probs=34.6
Q ss_pred ccCHHHHHHHHHHHHHHHHhh----hccCCCChhHHHHhhcHHHHHHHHHh
Q 026960 85 KESKQFAKREKQQLKKLESSL----KLYAPDSAPALAIKATMEKTKRRFDN 131 (230)
Q Consensus 85 seS~aF~kR~k~~vkkLe~rl----kkY~~~S~palAl~a~i~~tk~RFe~ 131 (230)
.+++.++ .+++++..+|.++ ..|.+++|...+++++++..++..+.
T Consensus 251 ~~~~~i~-~l~~~l~~le~~l~~l~~~y~~~hP~v~~l~~~i~~l~~~l~~ 300 (444)
T TIGR03017 251 IANPIIQ-NLKTDIARAESKLAELSQRLGPNHPQYKRAQAEINSLKSQLNA 300 (444)
T ss_pred hcChHHH-HHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHH
Confidence 4566665 3556776776664 45999999999999999988887654
No 23
>PF09716 ETRAMP: Malarial early transcribed membrane protein (ETRAMP); InterPro: IPR006389 These sequences represent a family of proteins from the malaria parasite Plasmodium falciparum, several of which have been shown to be expressed specifically in the ring stage as well as the rodent parasite Plasmodium yoelii []. A homologue from Plasmodium chabaudi was localized to the parasitophorous vacuole membrane []. Members have an initial hydrophobic, Phe/Tyr-rich stretch long enough to span the membrane, a highly charged region rich in Lys, a second putative transmembrane region, and a second highly charged, low complexity sequence region. Some members have up to 100 residues of additional C-terminal sequence. These genes have been shown to be found in the sub-telomeric regions of both Plasmodium falciparum and P. yoelii chromosomes.
Probab=25.20 E-value=49 Score=25.31 Aligned_cols=27 Identities=33% Similarity=0.628 Sum_probs=17.1
Q ss_pred CccCccCHHHHHHHH---HHHHHHHHhhhc
Q 026960 81 LTPCKESKQFAKREK---QQLKKLESSLKL 107 (230)
Q Consensus 81 LtPCseS~aF~kR~k---~~vkkLe~rlkk 107 (230)
|+||..+-...++.+ +.+++-++.+.+
T Consensus 19 l~p~~~~~~~~~~~~~~~~~lk~~d~~i~k 48 (84)
T PF09716_consen 19 LTPCLCNNVVEKKKKGDLKALKKIDDKIEK 48 (84)
T ss_pred CcCcccccccccccchhHHHHhhhhHHHHH
Confidence 388887777777766 556554444444
No 24
>PF09435 DUF2015: Fungal protein of unknown function (DUF2015); InterPro: IPR018559 This entry represents uncharacterised proteins found in fungi.
Probab=24.90 E-value=1.2e+02 Score=25.70 Aligned_cols=42 Identities=29% Similarity=0.531 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHhhhccCCCChhHHHHhhcHHHHHHHHHhcccCcCccCCCCCce
Q 026960 92 KREKQQLKKLESSLKLYAPDSAPALAIKATMEKTKRRFDNYGKYGLLCGSDGLPH 146 (230)
Q Consensus 92 kR~k~~vkkLe~rlkkY~~~S~palAl~a~i~~tk~RFe~Y~~~~lLCG~DGLPH 146 (230)
+..|.||+++=++.+- .=| +|...-+++||.+=| -|+||+|.
T Consensus 84 ~~ak~EI~~IM~~~~v-~FD-------eARliy~~~~f~~Ng-----I~pdG~P~ 125 (128)
T PF09435_consen 84 DAAKREIRRIMKRRRV-NFD-------EARLIYTERRFKKNG-----IGPDGRPL 125 (128)
T ss_pred HHHHHHHHHHHHHcCC-CHH-------HHHHHHHHHHHHHcC-----CCCCCCCC
Confidence 4556777776553321 222 677788899998877 48999994
No 25
>PRK13446 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=22.70 E-value=1.9e+02 Score=23.52 Aligned_cols=43 Identities=26% Similarity=0.424 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHhhhccCCCChhHHHHhhcHHHHHHHHHhccc
Q 026960 91 AKREKQQLKKLESSLKLYAPDSAPALAIKATMEKTKRRFDNYGK 134 (230)
Q Consensus 91 ~kR~k~~vkkLe~rlkkY~~~S~palAl~a~i~~tk~RFe~Y~~ 134 (230)
.+|+++.+...|++|++-+.+ --....+.++.++..|.+-+.+
T Consensus 91 ~~~a~~~~~~A~~~l~~~~~~-~~~~~a~~~l~~a~~rl~~~~~ 133 (136)
T PRK13446 91 VERARAALERAEQRLKKLTPE-DDSARAEAALERALIRLQVAGK 133 (136)
T ss_pred HHHHHHHHHHHHHHHHhCCCh-HHHHHHHHHHHHHHHHHHHHhh
Confidence 567778888888899884432 3345568888999999887764
No 26
>PRK10455 periplasmic protein; Reviewed
Probab=22.22 E-value=42 Score=28.45 Aligned_cols=23 Identities=26% Similarity=0.336 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHhhhCCCcccc
Q 026960 54 LQAFSAALALSSILLSAPQPAVA 76 (230)
Q Consensus 54 mrr~~A~ll~~~l~~~~~~~A~A 76 (230)
||++.+++++++|.+++...|.|
T Consensus 1 mrk~t~~~~as~l~~g~~~~a~a 23 (161)
T PRK10455 1 MRKLTALFVASTLALGAANLAHA 23 (161)
T ss_pred ChhHHHHHHHHHHHHHHHHHHHH
Confidence 68888887777777676543333
No 27
>PF14975 DUF4512: Domain of unknown function (DUF4512)
Probab=21.67 E-value=41 Score=26.76 Aligned_cols=11 Identities=36% Similarity=0.818 Sum_probs=10.1
Q ss_pred cchhchhHHHh
Q 026960 158 EFITPGLLFLY 168 (230)
Q Consensus 158 eF~IPgllFLY 168 (230)
.|+||.||++|
T Consensus 5 CivIPvLLwIy 15 (88)
T PF14975_consen 5 CIVIPVLLWIY 15 (88)
T ss_pred hhHHHHHHHHH
Confidence 68999999998
No 28
>PF13192 Thioredoxin_3: Thioredoxin domain; PDB: 1ZYP_B 1ZYN_A 1HYU_A 1ILO_A 1J08_F 2YWM_B 2AYT_B 2HLS_B 1A8L_A 2K8S_B ....
Probab=21.43 E-value=46 Score=23.70 Aligned_cols=55 Identities=16% Similarity=0.361 Sum_probs=35.8
Q ss_pred CccCHHHHHHHHHHHHHHHHhhhccCCCChhHHHHhhcHHHHHHHHHhcccCcCccCCCCCceeeecCCCccccc
Q 026960 84 CKESKQFAKREKQQLKKLESSLKLYAPDSAPALAIKATMEKTKRRFDNYGKYGLLCGSDGLPHLIVSGDQRHWGE 158 (230)
Q Consensus 84 CseS~aF~kR~k~~vkkLe~rlkkY~~~S~palAl~a~i~~tk~RFe~Y~~~~lLCG~DGLPHLIvdG~~~HaGe 158 (230)
|..-+...+.+++.++.+.-...-|+. ..-...++|| =-+.|.|++||+..|.|.
T Consensus 10 C~~C~~~~~~~~~~~~~~~i~~ei~~~-------------~~~~~~~~yg-------v~~vPalvIng~~~~~G~ 64 (76)
T PF13192_consen 10 CPYCPELVQLLKEAAEELGIEVEIIDI-------------EDFEEIEKYG-------VMSVPALVINGKVVFVGR 64 (76)
T ss_dssp CTTHHHHHHHHHHHHHHTTEEEEEEET-------------TTHHHHHHTT--------SSSSEEEETTEEEEESS
T ss_pred CCCcHHHHHHHHHHHHhcCCeEEEEEc-------------cCHHHHHHcC-------CCCCCEEEECCEEEEEec
Confidence 877787777777766665322222221 2233446676 358999999999999886
No 29
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=21.34 E-value=35 Score=22.63 Aligned_cols=14 Identities=36% Similarity=0.641 Sum_probs=11.3
Q ss_pred CccCCCCCceeeecCC
Q 026960 137 LLCGSDGLPHLIVSGD 152 (230)
Q Consensus 137 lLCG~DGLPHLIvdG~ 152 (230)
-+||..| |+|-|=.
T Consensus 12 ~~C~~~G--H~i~dCP 25 (32)
T PF13696_consen 12 HRCGQKG--HWIQDCP 25 (32)
T ss_pred ecCCCCC--ccHhHCC
Confidence 3899999 9998743
No 30
>PF12596 Tnp_P_element_C: 87kDa Transposase; InterPro: IPR022242 This domain family is found in eukaryotes, and is typically between 78 and 110 amino acids in length. The family is found in association with PF05485 from PFAM. There are two completely conserved residues (D and G) that may be functionally important. This family is an 87kDa transposase protein which catalyses both the precise and imprecise excision of a nonautonomous P transposable element.
Probab=21.33 E-value=38 Score=27.64 Aligned_cols=14 Identities=36% Similarity=0.698 Sum_probs=10.1
Q ss_pred HHHhhhhccccchhHHH
Q 026960 165 LFLYIAGWIGWVGRSYL 181 (230)
Q Consensus 165 lFLYIAGwIGW~GRsYL 181 (230)
.|-||||| |+|++.
T Consensus 78 ~l~YiaGy---Va~k~~ 91 (106)
T PF12596_consen 78 GLEYIAGY---VAKKFR 91 (106)
T ss_pred HHHHHHHH---HHHHHH
Confidence 58999986 456664
No 31
>PF14283 DUF4366: Domain of unknown function (DUF4366)
Probab=21.13 E-value=78 Score=28.30 Aligned_cols=31 Identities=16% Similarity=0.003 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHhhhCCCccccccCCCccCc
Q 026960 55 QAFSAALALSSILLSAPQPAVADISGLTPCK 85 (230)
Q Consensus 55 rr~~A~ll~~~l~~~~~~~A~AdvagLtPCs 85 (230)
|+|+|+++++.++.+|..+|.|-...-++..
T Consensus 1 r~~~al~a~~~~~~~~s~~A~A~~~e~~~~~ 31 (218)
T PF14283_consen 1 RMLAALCAAVLLCGGFSVTAFAQGGEPEPEE 31 (218)
T ss_pred CHHHHHHHHHHHHhccCeeEEecCCCCCCcc
Confidence 3444444444444478888998665555544
No 32
>TIGR02780 TrbJ_Ti P-type conjugative transfer protein TrbJ. The TrbJ protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbJ is a homolog of the F-type TraE protein (which is believed to be an inner membrane pore-forming protein, TIGR02761) as well as the vir system VirB5 protein.
Probab=20.72 E-value=3.3e+02 Score=24.25 Aligned_cols=27 Identities=22% Similarity=0.417 Sum_probs=15.8
Q ss_pred CCccccccCCCccCccCHHHHHHHHHHHHHH
Q 026960 71 PQPAVADISGLTPCKESKQFAKREKQQLKKL 101 (230)
Q Consensus 71 ~~~A~AdvagLtPCseS~aF~kR~k~~vkkL 101 (230)
+++++| | .||-|-..|.+-..+.++.+
T Consensus 19 ~~~a~A---~-i~V~D~an~~q~i~~aa~~~ 45 (246)
T TIGR02780 19 PAPAGA---P-VTCINCANFSQQILTAAESV 45 (246)
T ss_pred cccccC---C-ceeecchhHHHHHHHHHHHH
Confidence 344555 2 38888888877654444433
No 33
>PF06953 ArsD: Arsenical resistance operon trans-acting repressor ArsD; InterPro: IPR010712 This family consists of several bacterial arsenical resistance operon trans-acting repressor ArsD proteins. ArsD is a trans-acting repressor of the arsRDABC operon that confers resistance to arsenicals and antimonials in Escherichia coli. It possesses two-pairs of vicinal cysteine residues, Cys(12)-Cys(13) and Cys(112)-Cys(113), that potentially form separate binding sites for the metalloids that trigger dissociation of ArsD from the operon. However, as a homodimer it has four vicinal cysteine pairs [].; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent, 0046685 response to arsenic-containing substance; PDB: 3MWH_A 3KGK_A 3KTB_B.
Probab=20.67 E-value=31 Score=28.36 Aligned_cols=20 Identities=30% Similarity=0.672 Sum_probs=15.7
Q ss_pred CCCCCceeeecCCCcccccc
Q 026960 140 GSDGLPHLIVSGDQRHWGEF 159 (230)
Q Consensus 140 G~DGLPHLIvdG~~~HaGeF 159 (230)
|.|+||=.+|||+.-..|.+
T Consensus 69 G~e~LPitlVdGeiv~~G~Y 88 (123)
T PF06953_consen 69 GAEALPITLVDGEIVKTGRY 88 (123)
T ss_dssp -GGG-SEEEETTEEEEESS-
T ss_pred CcccCCEEEECCEEEEecCC
Confidence 67999999999999888874
No 34
>COG1341 Predicted GTPase or GTP-binding protein [General function prediction only]
Probab=20.62 E-value=26 Score=34.28 Aligned_cols=26 Identities=35% Similarity=0.710 Sum_probs=22.2
Q ss_pred HHhhhhcc-ccchhHHHHHHhCCCCCc
Q 026960 166 FLYIAGWI-GWVGRSYLIAISGEKKPA 191 (230)
Q Consensus 166 FLYIAGwI-GW~GRsYL~av~~~k~p~ 191 (230)
.+-..||| ||-|..|+++.-+.-||+
T Consensus 176 lIdT~GWi~G~~g~elk~~li~~ikP~ 202 (398)
T COG1341 176 LIDTDGWIKGWGGLELKRALIDAIKPD 202 (398)
T ss_pred EEcCCCceeCchHHHHHHHHHhhcCCC
Confidence 46688998 999999999988877876
No 35
>PF10672 Methyltrans_SAM: S-adenosylmethionine-dependent methyltransferase; InterPro: IPR019614 Members of this entry are S-adenosylmethionine-dependent methyltransferases from gamma-proteobacterial species. The diversity in the roles of methylation is matched by the almost bewildering number of methyltransferase enzymes that catalyse the methylation reaction. Although several classes of methyltransferase enzymes are known, the great majority of methylation reactions are catalysed by the S-adenosylmethionine-dependent methyltransferases. SAM (S-adenosylmethionine, also known as AdoMet) is well known as the methyl donor for the majority of methyltransferases that modify DNA, RNA, histones and other proteins, dictating replicational, transcriptional and translational fidelity, mismatch repair, chromatin modelling, epigenetic modifications and imprinting [].; GO: 0008168 methyltransferase activity; PDB: 2IGT_B 1WXX_A 1WXW_D 2CWW_B 2AS0_B 3V8V_B 3V97_A 3C0K_A 2B78_A 3LDF_A.
Probab=20.43 E-value=37 Score=31.21 Aligned_cols=9 Identities=56% Similarity=0.866 Sum_probs=8.7
Q ss_pred CCCceeeec
Q 026960 142 DGLPHLIVS 150 (230)
Q Consensus 142 DGLPHLIvd 150 (230)
||||+|+||
T Consensus 12 ~GL~gl~VD 20 (286)
T PF10672_consen 12 PGLPGLTVD 20 (286)
T ss_dssp CTETTEEEE
T ss_pred CCCCCEEEE
Confidence 899999999
Done!