Query 047539
Match_columns 87
No_of_seqs 100 out of 138
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 12:00:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047539.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047539hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07189 SF3b10: Splicing fact 100.0 2.4E-56 5.3E-61 293.5 9.2 79 5-83 1-79 (79)
2 KOG3485 Uncharacterized conser 100.0 1.1E-49 2.3E-54 264.7 7.5 83 4-86 2-85 (86)
3 PF10022 DUF2264: Uncharacteri 84.2 3.2 7E-05 33.5 5.7 75 4-83 172-255 (361)
4 COG4519 Uncharacterized protei 51.8 12 0.00026 25.5 1.9 17 29-45 75-91 (95)
5 PF13215 DUF4023: Protein of u 50.5 22 0.00047 20.8 2.6 24 4-27 8-31 (38)
6 PF02909 TetR_C: Tetracyclin r 47.3 54 0.0012 21.1 4.5 44 29-74 7-50 (139)
7 PF15178 TOM_sub5: Mitochondri 38.3 92 0.002 19.2 4.1 36 20-59 4-39 (51)
8 PF04614 Pex19: Pex19 protein 36.3 13 0.00027 28.5 0.1 16 67-83 201-216 (248)
9 PF03181 BURP: BURP domain; I 34.5 42 0.00092 25.5 2.7 35 48-86 46-80 (216)
10 PF07627 PSCyt3: Protein of un 34.0 38 0.00082 22.9 2.2 41 44-84 4-45 (101)
11 cd07594 BAR_Endophilin_B The B 33.0 1E+02 0.0023 23.5 4.7 32 30-74 29-60 (229)
12 PF12616 DUF3775: Protein of u 31.6 1.5E+02 0.0031 19.2 4.7 52 5-58 11-69 (75)
13 PF05750 Rubella_Capsid: Rubel 27.8 29 0.00062 27.3 0.9 12 73-84 192-203 (300)
14 KOG2468 Dolichol kinase [Lipid 24.8 29 0.00064 29.9 0.5 10 40-49 423-432 (510)
15 PF11333 DUF3135: Protein of u 22.4 94 0.002 20.3 2.4 32 48-79 3-36 (83)
16 cd00252 SPARC_EC SPARC_EC; ext 21.7 1.1E+02 0.0025 20.7 2.8 19 31-49 15-35 (116)
17 KOG3541 Predicted guanine nucl 21.1 69 0.0015 27.5 1.9 36 41-76 262-299 (477)
18 TIGR00994 3a0901s05TIC20 chlor 20.4 98 0.0021 24.8 2.6 24 52-75 174-198 (267)
19 PF13978 DUF4223: Protein of u 20.3 71 0.0015 20.0 1.4 13 71-83 43-55 (56)
No 1
>PF07189 SF3b10: Splicing factor 3B subunit 10 (SF3b10); InterPro: IPR009846 This family consists of several eukaryotic splicing factor 3B subunit 5 (SF3b5) proteins. SF3b5 is a 10 kDa subunit of the splicing factor SF3b. SF3b associates with the splicing factor SF3a and a 12S RNA unit to form the U2 small nuclear ribonucleoproteins complex. SF3b5 and SF3b14b are also thought to facilitate the interaction of U2 with the branch site []. Also included in this entry is RDS3 complex subunit 10, another protein involved in mRNA splicing [].
Probab=100.00 E-value=2.4e-56 Score=293.51 Aligned_cols=79 Identities=61% Similarity=1.056 Sum_probs=78.3
Q ss_pred hHhhHHHHHHHHHhhhcCCCCCCccHHHHHHHhhhhhHhhhhCChhHHHHHHHhhCcchHHHHHHHHHHhhCCCCCCCC
Q 047539 5 DRFNINSQLEHLQAKYVGTGHADLNRFEWAVNIQRDSYASYIGHYPMLAYFAIAENESIGREHYNFMQKMLLPCGLPPE 83 (87)
Q Consensus 5 dk~~~~~qle~Lq~KY~GtG~~DTTk~EW~tn~hRDT~aS~~gH~~lL~Y~aia~nes~~r~r~~ll~kM~~pcg~pp~ 83 (87)
||+|+++||||||+||+||||+|||||||++||||||||||+||++||+|||||+|+|++|+|++||+||+|||||||+
T Consensus 1 Dk~~~~~qle~Lq~KY~GtG~~dTTk~EW~tnihRDT~aS~~gH~~lL~Y~aia~ne~~~r~r~~ll~kM~~p~g~pp~ 79 (79)
T PF07189_consen 1 DKYRIQQQLEHLQSKYVGTGHADTTKEEWLTNIHRDTYASIIGHPDLLEYFAIAENESKARVRFNLLEKMVQPCGPPPP 79 (79)
T ss_pred ChhhHHHHHHHHHHHhCCCCCCCcCHHHHHHHHHHHHHHHHhcCHHHHHHHHHhcCCCHHHHHHHHHHHHhccCCCCCC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999999996
No 2
>KOG3485 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.1e-49 Score=264.70 Aligned_cols=83 Identities=67% Similarity=1.208 Sum_probs=79.3
Q ss_pred hhHhhHHHHHHHHHhhhcCCCCCCccHHHHHHHhhhhhHhhhhCChhHHHHHHHhhCcchHHHHHHHHHHhhCCCCC-CC
Q 047539 4 SDRFNINSQLEHLQAKYVGTGHADLNRFEWAVNIQRDSYASYIGHYPMLAYFAIAENESIGREHYNFMQKMLLPCGL-PP 82 (87)
Q Consensus 4 ~dk~~~~~qle~Lq~KY~GtG~~DTTk~EW~tn~hRDT~aS~~gH~~lL~Y~aia~nes~~r~r~~ll~kM~~pcg~-pp 82 (87)
+|||++++||||||+||+||||+||||+||++||||||++|+|||+++|.||+||||||++|+|+|+|+||++|||| ||
T Consensus 2 ~dRf~i~aqLEhLQskYvGtg~a~~tk~ew~vnq~RdS~~S~vgh~~~l~Y~a~ae~Ep~~rvr~N~lekml~pcg~wpp 81 (86)
T KOG3485|consen 2 GDRFNIHAQLEHLQSKYVGTGHADTTKFEWLVNQHRDSLASYVGHYPLLNYFAIAENEPKARVRFNLLEKMLQPCGPWPP 81 (86)
T ss_pred cchhhHHHHHHHHHHHhhcccccccchHHHHHhcchhhhhhhcCCchHHHHHHHhccCchhhhhhcHHHHhhcccCCCCC
Confidence 49999999999999999999999999999999999999999999999999999999999999999999999999999 55
Q ss_pred CCCC
Q 047539 83 ERED 86 (87)
Q Consensus 83 ~~~~ 86 (87)
.+++
T Consensus 82 ~~e~ 85 (86)
T KOG3485|consen 82 EKEE 85 (86)
T ss_pred cccc
Confidence 5544
No 3
>PF10022 DUF2264: Uncharacterized protein conserved in bacteria (DUF2264); InterPro: IPR016624 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=84.21 E-value=3.2 Score=33.51 Aligned_cols=75 Identities=27% Similarity=0.356 Sum_probs=58.8
Q ss_pred hhHhhHHHHHHHHHhhhcCCCCCCccHHHHHHHhhhhhHhhhhCChhHHHHHHHhhCcchH---HHHH------HHHHHh
Q 047539 4 SDRFNINSQLEHLQAKYVGTGHADLNRFEWAVNIQRDSYASYIGHYPMLAYFAIAENESIG---REHY------NFMQKM 74 (87)
Q Consensus 4 ~dk~~~~~qle~Lq~KY~GtG~~DTTk~EW~tn~hRDT~aS~~gH~~lL~Y~aia~nes~~---r~r~------~ll~kM 74 (87)
-|..++..-++.+.+=|+|=|=-.-.. +-|.|=|+|.+-|+-+|-|..++....+. +.+. +-.++|
T Consensus 172 ~d~~~i~~~l~~~e~~Y~GdGWY~DG~-----~~~~DYYns~aih~y~l~~~~~~~~~~~~~~~~~~~Ra~~fa~~~~~~ 246 (361)
T PF10022_consen 172 YDEERIDYDLERIEEWYLGDGWYSDGP-----EFQFDYYNSWAIHPYLLLYARLMGDEDPERAARYRQRAQRFAEDYERM 246 (361)
T ss_pred CcHHHHHHHHHHHHHHhccCCccccCC-----ccCCcchHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHHHHHH
Confidence 366788899999999999998544333 67999999999999999999999977643 3333 235789
Q ss_pred hCCCCCCCC
Q 047539 75 LLPCGLPPE 83 (87)
Q Consensus 75 ~~pcg~pp~ 83 (87)
+.|.|.+|+
T Consensus 247 f~~dG~~~~ 255 (361)
T PF10022_consen 247 FSPDGAAPP 255 (361)
T ss_pred cCCCCCcCC
Confidence 999996664
No 4
>COG4519 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.78 E-value=12 Score=25.54 Aligned_cols=17 Identities=35% Similarity=0.485 Sum_probs=15.0
Q ss_pred cHHHHHHHhhhhhHhhh
Q 047539 29 NRFEWAVNIQRDSYASY 45 (87)
Q Consensus 29 Tk~EW~tn~hRDT~aS~ 45 (87)
-+.||++.+|||..|++
T Consensus 75 ~~~~Wv~E~h~~IaAal 91 (95)
T COG4519 75 VRREWVVEQHRRIAAAL 91 (95)
T ss_pred hhHHHHHHHHHHHHHHh
Confidence 36799999999999986
No 5
>PF13215 DUF4023: Protein of unknown function (DUF4023)
Probab=50.46 E-value=22 Score=20.77 Aligned_cols=24 Identities=17% Similarity=0.320 Sum_probs=20.4
Q ss_pred hhHhhHHHHHHHHHhhhcCCCCCC
Q 047539 4 SDRFNINSQLEHLQAKYVGTGHAD 27 (87)
Q Consensus 4 ~dk~~~~~qle~Lq~KY~GtG~~D 27 (87)
-+|+++.+--...-.+..|.|||+
T Consensus 8 v~Kl~e~Q~K~e~Nk~~qG~G~P~ 31 (38)
T PF13215_consen 8 VEKLNETQEKQEKNKKHQGKGNPS 31 (38)
T ss_pred HHHHHHHHHHHHHHHhccCCCCch
Confidence 378888888888888889999997
No 6
>PF02909 TetR_C: Tetracyclin repressor, C-terminal all-alpha domain; InterPro: IPR004111 The antibiotic tetracycline has a broad spectrum of activity, acting to inhibit bacterial protein synthesis by binding to the 30S ribosomal subunit, which prevents the association of the aminoacyl-tRNA to the ribosomal acceptor A site. Tetracycline binding is reversible, therefore diluting out the antibiotic can reverse its effects. Tetracycline resistance genes are often located on mobile elements, such as plasmids, transposons and/or conjugative transposons, which can sometimes be transferred between bacterial species. In certain cases, tetracycline can enhance the transfer of these elements, thereby promoting resistance amongst a bacterial colony. There are three types of tetracycline resistance: tetracycline efflux, ribosomal protection, and tetracycline modification [, ]: Tetracycline efflux proteins belong to the major facilitator superfamily. Efflux proteins are membrane-associated proteins that recognise and export tetracycline from the cell. They are found in both Gram-positive and Gram-negative bacteria []. There are at least 22 different tetracycline efflux proteins, grouped according to sequence similarity: Group 1 are Tet(A), Tet(B), Tet(C), Tet(D), Tet(E), Tet(G), Tet(H), Tet(J), Tet(Z) and Tet(30); Group 2 are Tet(K) and Tet(L); Group 3 are Otr(B) and Tcr(3); Group 4 is TetA(P); Group 5 is Tet(V). In addition, there are the efflux proteins Tet(31), Tet(33), Tet(V), Tet(Y), Tet(34), and Tet(35). Ribosomal protection proteins are cytoplasmic proteins that display homology with the elongation factors EF-Tu and EF-G. Protection proteins bind the ribosome, causing an alteration in ribosomal conformation that prevents tetracycline from binding. There are at least ten ribosomal protection proteins: Tet(M), Tet(O), Tet(S), Tet(W), Tet(32), Tet(36), Tet(Q), Tet(T), Otr(A), and TetB(P). Both Tet(M) and Tet(O) have ribosome-dependent GTPase activity, the hydrolysis of GTP providing the energy for the ribosomal conformational changes. Tetracycline modification proteins include the enzymes Tet(37) and Tet(X), both of which inactivate tetracycline. In addition, there are the tetracycline resistance proteins Tet(U) and Otr(C). The expression of several of these tet genes is controlled by a family of tetracycline transcriptional regulators known as TetR. TetR family regulators are involved in the transcriptional control of multidrug efflux pumps, pathways for the biosynthesis of antibiotics, response to osmotic stress and toxic chemicals, control of catabolic pathways, differentiation processes, and pathogenicity []. The TetR proteins identified in over 115 genera of bacteria and archaea share a common helix-turn-helix (HTH) structure in their DNA-binding domain. However, TetR proteins can work in different ways: they can bind a target operator directly to exert their effect (e.g. TetR binds Tet(A) gene to repress it in the absence of tetracycline), or they can be involved in complex regulatory cascades in which the TetR protein can either be modulated by another regulator or TetR can trigger the cellular response. This entry represents the C-terminal domain found in the tetracycline transcriptional repressor TetR, which binds to the Tet(A) gene to repress its expression in the absence of tetracycline []. Tet(A) is a membrane-associated efflux protein that exports tetracycline from the cell before it can attach to ribosomes and inhibit polypeptide chain growth. TetR occurs as a homodimer and uses two helix-turn-helix (HTH) motifs to bind tandem DNA operators, thereby blocking the expression of the associated genes, TetA and TetR. The structure of the class D TetR repressor protein [] involves 10 alpha-helices, with connecting turns and loops. The three N-terminal helices constitute the DNA-binding HTH domain, which has an inverse orientation compared with HTH motifs in other DNA-binding proteins. The core of the protein, formed by helices 5-10, is responsible for dimerisation and contains, for each monomer, a binding pocket that accommodates tetracycline in the presence of a divalent cation.; GO: 0045892 negative regulation of transcription, DNA-dependent; PDB: 2Y30_B 3ZQL_C 2Y31_B 2Y2Z_A 2VPR_A 3B6A_A 3B6C_A 2OPT_A 2NS7_B 2NS8_C ....
Probab=47.29 E-value=54 Score=21.09 Aligned_cols=44 Identities=14% Similarity=0.086 Sum_probs=32.0
Q ss_pred cHHHHHHHhhhhhHhhhhCChhHHHHHHHhhCcchHHHHHHHHHHh
Q 047539 29 NRFEWAVNIQRDSYASYIGHYPMLAYFAIAENESIGREHYNFMQKM 74 (87)
Q Consensus 29 Tk~EW~tn~hRDT~aS~~gH~~lL~Y~aia~nes~~r~r~~ll~kM 74 (87)
.=.||+...-+.....+.-||.+..+++-....++. .+.++|.+
T Consensus 7 ~W~~~l~~~a~~~r~~~~~hP~~~~~~~~~~~~~p~--~l~~~e~~ 50 (139)
T PF02909_consen 7 DWRERLRALARAYRAALLRHPWLAELLLARPPPGPN--ALRLMEAM 50 (139)
T ss_dssp EHHHHHHHHHHHHHHHHHTSTTHHHHHHTSSCTSHH--HHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHCcCHHHHHHhcCCCChh--HHHHHHHH
Confidence 457899999999999999999999997654333333 33444444
No 7
>PF15178 TOM_sub5: Mitochondrial import receptor subunit TOM5 homolog
Probab=38.33 E-value=92 Score=19.16 Aligned_cols=36 Identities=22% Similarity=0.328 Sum_probs=27.8
Q ss_pred hcCCCCCCccHHHHHHHhhhhhHhhhhCChhHHHHHHHhh
Q 047539 20 YVGTGHADLNRFEWAVNIQRDSYASYIGHYPMLAYFAIAE 59 (87)
Q Consensus 20 Y~GtG~~DTTk~EW~tn~hRDT~aS~~gH~~lL~Y~aia~ 59 (87)
-.|+| +...-+|--....+|+++|+ .+.|-|+|+-.
T Consensus 4 ~egl~-pk~DPeE~k~kmR~dvissv---rnFliyVALlR 39 (51)
T PF15178_consen 4 IEGLG-PKMDPEEMKRKMREDVISSV---RNFLIYVALLR 39 (51)
T ss_pred cccCC-CCCCHHHHHHHHHHHHHHHH---HHHHHHHHHHH
Confidence 45666 44566788888999999998 57888988864
No 8
>PF04614 Pex19: Pex19 protein family; InterPro: IPR006708 Peroxisome(s) form an intracellular compartment, bounded by a typical lipid bilayer membrane. Peroxisome functions are often specialised by organism and cell type; two widely distributed and well-conserved functions are H2O2-based respiration and fatty acid beta-oxidation. Other functions include ether lipid (plasmalogen) synthesis and cholesterol synthesis in animals, the glyoxylate cycle in germinating seeds ("glyoxysomes"), photorespiration in leaves, glycolysis in trypanosomes ("glycosomes"), and methanol and/or amine oxidation and assimilation in some yeasts. PEX genes encode the machinery ("peroxins") required to assemble the peroxisome. Membrane assembly and maintenance requires three of these (peroxins 3, 16, and 19) and may occur without the import of the matrix (lumen) enzymes. Matrix protein import follows a branched pathway of soluble recycling receptors, with one branch for each class of peroxisome targeting sequence (two are well characterised), and a common trunk for all. At least one of these receptors, Pex5p, enters and exits peroxisomes as it functions. Proliferation of the organelle is regulated by Pex11p. Peroxisome biogenesis is remarkably conserved among eukaryotes. A group of fatal, inherited neuropathologies are recognised as peroxisome biogenesis diseases. ; GO: 0005777 peroxisome; PDB: 2WL8_B 2W85_B.
Probab=36.27 E-value=13 Score=28.47 Aligned_cols=16 Identities=44% Similarity=0.692 Sum_probs=8.3
Q ss_pred HHHHHHHhhCCCCCCCC
Q 047539 67 HYNFMQKMLLPCGLPPE 83 (87)
Q Consensus 67 r~~ll~kM~~pcg~pp~ 83 (87)
=..|+.+| |-||.||.
T Consensus 201 i~~lmqem-Q~~G~PP~ 216 (248)
T PF04614_consen 201 IMELMQEM-QELGQPPE 216 (248)
T ss_dssp HHHHHHHH-HHT----G
T ss_pred HHHHHHHH-HHcCCCcH
Confidence 35677887 66999995
No 9
>PF03181 BURP: BURP domain; InterPro: IPR004873 The BURP domain is a ~230-residue module, which has been named for the four members of the group initially identified, BNM2, USP, RD22, and PG1beta. It is found in the C-terminal part of a number of plant cell wall proteins, which are defined not only by the BURP domain, but also by the overall similarity in their modular construction. The BURP domain proteins consists of either three or four modules: (i) an N-terminal hydrophobic domain - a presumptive transit peptide, joined to (ii) a short conserved segment or other short segment, (iii) an optional segment consisting of repeated units which is unique to each member, and (iv) the C-terminal BURP domain. Although the BURP domain proteins share primary structural features, their expression patterns and the conditions under which they are expressed differ. The presence of the conserved BURP domain in diverse plant proteins suggests an important and fundamental functional role for this domain []. It is possible that the BURP domain represents a general motif for localization of proteins within the cell wall matrix. The other structural domains associated with the BURP domain may specify other target sites for intermolecular interactions []. Some proteins known to contain a BURP domain are listed below [, , ]: Brassica protein BNM2, which is expressed during the induction of microspore embryogenesis. Field bean USPs, abundant non-storage seed proteins with unknown function. Soybean USP-like proteins ADR6 (or SALI5-4A), an auxin-repressible, aluminium-inducible protein and SALI3-2, a protein that is up-regulated by aluminium. Soybean seed coat BURP-domain protein 1 (SCB1). It might play a role in the differentiation of the seed coat parenchyma cells. Arabidopsis RD22 drought induced protein. Maize ZRP2, a protein of unknown function in cortex parenchyma. Tomato PG1beta, the beta-subunit of polygalacturonase isozyme 1 (PG1), which is expressed in ripening fruits. Cereal RAFTIN. It is essential specifically for the maturation phase of pollen development.
Probab=34.54 E-value=42 Score=25.47 Aligned_cols=35 Identities=20% Similarity=0.439 Sum_probs=25.6
Q ss_pred ChhHHHHHHHhhCcchHHHHHHHHHHhhCCCCCCCCCCC
Q 047539 48 HYPMLAYFAIAENESIGREHYNFMQKMLLPCGLPPERED 86 (87)
Q Consensus 48 H~~lL~Y~aia~nes~~r~r~~ll~kM~~pcg~pp~~~~ 86 (87)
-+.+|.+|+|..|-..+..- +.=+.-|..||.+.|
T Consensus 46 l~~iL~~Fsi~~~S~~A~~m----~~Tl~~Ce~~~~~GE 80 (216)
T PF03181_consen 46 LPEILQMFSIPPGSPMAKAM----KNTLEECESPPIKGE 80 (216)
T ss_pred HHHHHHHhcCCCCCHHHHHH----HHHHHHhhcCCCCCc
Confidence 47899999999998777643 333444998887755
No 10
>PF07627 PSCyt3: Protein of unknown function (DUF1588); InterPro: IPR013039 A region of similarity shared by several Rhodopirellula baltica cytochrome-like proteins that are predicted to be secreted. These proteins also contain IPR011478 from INTERPRO, IPR013036 from INTERPRO, IPR013042 from INTERPRO and IPR013043 from INTERPRO.
Probab=33.96 E-value=38 Score=22.90 Aligned_cols=41 Identities=12% Similarity=0.150 Sum_probs=26.6
Q ss_pred hhhCChhHHHHHHHhhC-cchHHHHHHHHHHhhCCCCCCCCC
Q 047539 44 SYIGHYPMLAYFAIAEN-ESIGREHYNFMQKMLLPCGLPPER 84 (87)
Q Consensus 44 S~~gH~~lL~Y~aia~n-es~~r~r~~ll~kM~~pcg~pp~~ 84 (87)
-+.+|.++|+-.|-... -++.|=++-+=+=|.+|..|||+.
T Consensus 4 GlLt~~~~Lt~~s~~~~tsPv~RG~~v~~~lLc~~~ppPP~~ 45 (101)
T PF07627_consen 4 GLLTQGAFLTRTSDGDRTSPVHRGVWVRERLLCQPPPPPPPN 45 (101)
T ss_pred hhhhhHHHHhccCCCCCCCchHHHHHHHHHHcCCCCCCCCCC
Confidence 46778888888876664 455664444444466777777763
No 11
>cd07594 BAR_Endophilin_B The Bin/Amphiphysin/Rvs (BAR) domain of Endophilin-B. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Endophilins play roles in synaptic vesicle formation, virus budding, mitochondrial morphology maintenance, receptor-mediated endocytosis inhibition, and endosomal sorting. Endophilins contain an N-terminal N-BAR domain (BAR domain with an additional N-terminal amphipathic helix), followed by a variable region containing proline clusters, and a C-terminal SH3 domain. They are classified into two types, A and B. Vertebrates contain two endophilin-B isoforms. Endophilin-B proteins are cytoplasmic proteins expressed mainly in the heart, placenta, and skeletal muscle.
Probab=33.00 E-value=1e+02 Score=23.47 Aligned_cols=32 Identities=16% Similarity=0.164 Sum_probs=26.7
Q ss_pred HHHHHHHhhhhhHhhhhCChhHHHHHHHhhCcchHHHHHHHHHHh
Q 047539 30 RFEWAVNIQRDSYASYIGHYPMLAYFAIAENESIGREHYNFMQKM 74 (87)
Q Consensus 30 k~EW~tn~hRDT~aS~~gH~~lL~Y~aia~nes~~r~r~~ll~kM 74 (87)
..+|..+|++.|-+-+.+.|+. |++-.+.+||
T Consensus 29 ~~~~~e~i~~~~~~~lqpNp~~-------------r~~~~~~~k~ 60 (229)
T cd07594 29 TKVWTEKILKQTEAVLQPNPNV-------------RVEDFIYEKL 60 (229)
T ss_pred HHHHHHHHHHHHHHHhCCChhh-------------hHHHHHHHHh
Confidence 4589999999999999988764 7777777887
No 12
>PF12616 DUF3775: Protein of unknown function (DUF3775); InterPro: IPR022254 This domain family is found in bacteria, and is approximately 80 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=31.63 E-value=1.5e+02 Score=19.15 Aligned_cols=52 Identities=19% Similarity=0.353 Sum_probs=38.4
Q ss_pred hHhhHHHHHHHHHhhhcCCCCCCccHHHHHH--Hhh-----hhhHhhhhCChhHHHHHHHh
Q 047539 5 DRFNINSQLEHLQAKYVGTGHADLNRFEWAV--NIQ-----RDSYASYIGHYPMLAYFAIA 58 (87)
Q Consensus 5 dk~~~~~qle~Lq~KY~GtG~~DTTk~EW~t--n~h-----RDT~aS~~gH~~lL~Y~aia 58 (87)
+.++..+|.+.+---|+|=| |-+-.||-. ..- ..|..=++|+|.+-.|+.=+
T Consensus 11 ~~l~~deqaeLvALmwiGRG--d~~~eew~~a~~~A~~~~~~~ta~YLl~~p~ladyLe~G 69 (75)
T PF12616_consen 11 EDLNEDEQAELVALMWIGRG--DFEAEEWEEAVAEARERASARTADYLLGTPMLADYLEEG 69 (75)
T ss_pred HhCCHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHHHhccchHHHHHHcCCcHHHHHHHH
Confidence 66888899999999999999 666666643 222 23555589999999997543
No 13
>PF05750 Rubella_Capsid: Rubella capsid protein; InterPro: IPR008819 Rubella virus is an enveloped positive-strand RNA virus of the family Togaviridae. Virions are composed of three structural proteins: a capsid and two membrane-spanning glycoproteins, E2 and E1. During virus assembly, the capsid interacts with genomic RNA to form nucleocapsids. It has been discovered that capsid phosphorylation serves to negatively regulate binding of viral genomic RNA. This may delay the initiation of nucleocapsid assembly until sufficient amounts of virus glycoproteins accumulate at the budding site and/or prevent non-specific binding to cellular RNA when levels of genomic RNA are low. It follows that at a late stage in replication, the capsid may undergo dephosphorylation before nucleocapsid assembly occurs []. This family is found together with IPR008820 from INTERPRO and IPR008821 from INTERPRO.; GO: 0016021 integral to membrane, 0019013 viral nucleocapsid
Probab=27.80 E-value=29 Score=27.32 Aligned_cols=12 Identities=42% Similarity=0.794 Sum_probs=9.7
Q ss_pred HhhCCCCCCCCC
Q 047539 73 KMLLPCGLPPER 84 (87)
Q Consensus 73 kM~~pcg~pp~~ 84 (87)
-|..||||-|+.
T Consensus 192 lmynpcgpeppa 203 (300)
T PF05750_consen 192 LMYNPCGPEPPA 203 (300)
T ss_pred hhcCCCCCCChh
Confidence 378999998874
No 14
>KOG2468 consensus Dolichol kinase [Lipid transport and metabolism]
Probab=24.84 E-value=29 Score=29.92 Aligned_cols=10 Identities=50% Similarity=0.644 Sum_probs=9.1
Q ss_pred hhHhhhhCCh
Q 047539 40 DSYASYIGHY 49 (87)
Q Consensus 40 DT~aS~~gH~ 49 (87)
||.||++||.
T Consensus 423 DTmASiiG~r 432 (510)
T KOG2468|consen 423 DTMASIIGKR 432 (510)
T ss_pred hHHHHHHhhh
Confidence 8999999985
No 15
>PF11333 DUF3135: Protein of unknown function (DUF3135); InterPro: IPR021482 This family of proteins with unkown function appears to be restricted to Proteobacteria.
Probab=22.39 E-value=94 Score=20.33 Aligned_cols=32 Identities=9% Similarity=0.103 Sum_probs=24.8
Q ss_pred ChhHHHHHHHhhCcchH--HHHHHHHHHhhCCCC
Q 047539 48 HYPMLAYFAIAENESIG--REHYNFMQKMLLPCG 79 (87)
Q Consensus 48 H~~lL~Y~aia~nes~~--r~r~~ll~kM~~pcg 79 (87)
.|+.-+...+|++.|.+ .+|.++++.|+.-|.
T Consensus 3 lp~FD~L~~LA~~dPe~fe~lr~~~~ee~I~~a~ 36 (83)
T PF11333_consen 3 LPDFDELKELAQNDPEAFEQLRQELIEEMIESAP 36 (83)
T ss_pred CCCHHHHHHHHHhCHHHHHHHHHHHHHHHHHhCC
Confidence 35666778899988875 499999999987553
No 16
>cd00252 SPARC_EC SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate cell-matrix interactions; binds to such proteins as collagen and vitronectin and binds to endothelial cells thus inhibiting cellular proliferation. The EC domain interacts with a follistatin-like (FS) domain which appears to stabilize Ca2+ binding. The two EF-hands interact canonically but their conserved disulfide bonds confer a tight association between the EF-hand pair and an acid/amphiphilic N-terminal helix. Proposed active form involves a Ca2+ dependent symmetric homodimerization of EC-FS modules.
Probab=21.72 E-value=1.1e+02 Score=20.71 Aligned_cols=19 Identities=21% Similarity=0.279 Sum_probs=14.0
Q ss_pred HHHHHHhhhhhHhhh--hCCh
Q 047539 31 FEWAVNIQRDSYASY--IGHY 49 (87)
Q Consensus 31 ~EW~tn~hRDT~aS~--~gH~ 49 (87)
-||+.|+|+|.+--. -||.
T Consensus 15 ~dW~~~~~~~~~~~~~~~~~~ 35 (116)
T cd00252 15 RDWFKNVHEDLKERDELEKHK 35 (116)
T ss_pred HHHHHHHHHHHhhcccchhhh
Confidence 489999999998533 4444
No 17
>KOG3541 consensus Predicted guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=21.13 E-value=69 Score=27.50 Aligned_cols=36 Identities=11% Similarity=0.241 Sum_probs=29.0
Q ss_pred hHhhhhCChhHHHHHHHhh--CcchHHHHHHHHHHhhC
Q 047539 41 SYASYIGHYPMLAYFAIAE--NESIGREHYNFMQKMLL 76 (87)
Q Consensus 41 T~aS~~gH~~lL~Y~aia~--nes~~r~r~~ll~kM~~ 76 (87)
|+.+++.|.+.|+|++-.| -..+.+.|..||+.|++
T Consensus 262 sie~y~~wfn~Lsa~~Atevlk~~kk~~rsamlef~iD 299 (477)
T KOG3541|consen 262 SIERYMSWFNHLSALCATEVLKAAKKQTRSAMLEFLID 299 (477)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567889999999998777 34667899999999875
No 18
>TIGR00994 3a0901s05TIC20 chloroplast protein import component, Tic20 family. Two families of proteins are involved in the chloroplast envelope import appartus.They are the three proteins of the outer membrane (TOC) and four proteins in the inner membrane (TIC). This family is specific for the Tic20 protein.
Probab=20.40 E-value=98 Score=24.76 Aligned_cols=24 Identities=25% Similarity=0.415 Sum_probs=20.2
Q ss_pred HHHHHHhhCcchHH-HHHHHHHHhh
Q 047539 52 LAYFAIAENESIGR-EHYNFMQKML 75 (87)
Q Consensus 52 L~Y~aia~nes~~r-~r~~ll~kM~ 75 (87)
+-|+.|+.|+.... +||+.++-|+
T Consensus 174 ~Lyl~VVRN~~iphFIRFNtMQAIL 198 (267)
T TIGR00994 174 LAYMWVVRRKEWPHFFRFHMMMGML 198 (267)
T ss_pred HHHHHHhcCCCcchhhhHHHHHHHH
Confidence 56889999997766 9999998775
No 19
>PF13978 DUF4223: Protein of unknown function (DUF4223)
Probab=20.26 E-value=71 Score=20.00 Aligned_cols=13 Identities=23% Similarity=0.598 Sum_probs=10.7
Q ss_pred HHHhhCCCCCCCC
Q 047539 71 MQKMLLPCGLPPE 83 (87)
Q Consensus 71 l~kM~~pcg~pp~ 83 (87)
|.||+-.|||+.+
T Consensus 43 ISKiIGGCGp~~~ 55 (56)
T PF13978_consen 43 ISKIIGGCGPAAQ 55 (56)
T ss_pred HHHHhcCCCCccc
Confidence 5799999999754
Done!