Query 039313
Match_columns 100
No_of_seqs 78 out of 80
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 08:29:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039313.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039313hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd03829 Sina Seven in absentia 100.0 1.6E-60 3.4E-65 344.9 3.4 100 1-100 27-127 (127)
2 PF03145 Sina: Seven in absent 100.0 2.8E-30 6.1E-35 190.4 8.6 96 2-97 103-198 (198)
3 KOG3002 Zn finger protein [Gen 99.9 1.1E-25 2.4E-30 180.1 4.8 96 4-100 197-293 (299)
4 TIGR02108 PQQ_syn_pqqB coenzym 71.6 8.6 0.00019 30.7 4.7 45 37-81 177-221 (302)
5 PF00917 MATH: MATH domain; I 65.6 13 0.00029 23.6 3.9 94 2-99 19-118 (119)
6 PF12733 Cadherin-like: Cadher 51.9 43 0.00094 21.1 4.5 24 37-60 11-34 (88)
7 PRK05184 pyrroloquinoline quin 50.8 36 0.00078 26.9 4.8 44 37-81 177-221 (302)
8 PF11032 ApoM: Apolipoprotein 32.0 1.5E+02 0.0033 22.7 5.5 59 19-81 79-137 (186)
9 TIGR01322 scrB_fam sucrose-6-p 29.4 1.8E+02 0.0039 24.1 5.8 58 41-98 377-442 (445)
10 KOG1324 Dihydrofolate reductas 29.0 20 0.00044 28.1 0.2 13 51-63 52-64 (190)
11 COG4525 TauB ABC-type taurine 28.7 33 0.00071 28.0 1.4 32 49-80 7-38 (259)
12 PF14213 DUF4325: Domain of un 27.3 40 0.00086 21.3 1.3 24 49-72 51-74 (74)
13 KOG3611 Semaphorins [Signal tr 26.9 42 0.00091 30.8 1.8 47 37-83 73-122 (737)
14 PF14709 DND1_DSRM: double str 24.8 98 0.0021 20.2 2.9 49 21-71 18-69 (80)
15 PF06905 FAIM1: Fas apoptotic 22.5 87 0.0019 24.0 2.6 41 14-58 53-104 (177)
16 PRK11625 Rho-binding antitermi 22.3 1.5E+02 0.0032 20.2 3.5 39 36-80 18-56 (84)
17 PF00599 Flu_M2: Influenza Mat 20.9 33 0.00071 24.3 0.0 18 51-68 61-78 (97)
18 PF05866 RusA: Endodeoxyribonu 20.6 1.4E+02 0.0029 19.7 3.0 43 54-96 72-115 (118)
19 PF09175 DUF1944: Domain of un 20.0 27 0.00059 26.5 -0.6 20 50-69 90-109 (165)
No 1
>cd03829 Sina Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins. Sina, Siah and SINAT5 are RING-containing proteins that function as E3 ubiquitin ligases, acting either as single proteins or as a part of multiprotein complexes. Sina is expressed in many cells in the developing eye but is essential specifically for R7 photoreceptor cell development. Sina cooperates with Phyllopod (Phyl), Ebi and the E2 ubiquitin-conjugating enzyme Ubcd1 to catalyze the ubiquitination and subsequent degradation of Tramtrack (Ttk88); Ttk88 is a transcriptional repressor that blocks photoreceptor differentiation. Similarly, the mammalian homologue Siah1 cooperates with SIP (Siah-interacting protein), Ebi and the adaptor protein Skp1, to target beta-catenin for ubiquitination and degradation via a p53-dependent mechanism. SINAT5 targets NAC1 for ubiquitin-medi
Probab=100.00 E-value=1.6e-60 Score=344.94 Aligned_cols=100 Identities=36% Similarity=0.726 Sum_probs=98.9
Q ss_pred CeeecCceeEEEEeeeec-CCccEEEEEEEeeCCHHhHcCceEEEEEcCCCeEEEEeecccchhhhhhhhhcCCCeeEEe
Q 039313 1 VFNCFARHFCLHFEAFHL-GMAPVYVAFLRFMGDEEEARQFSYSLEVGGNGRKLTWQGIPRSIRDSHKKVRDSQDGLIIQ 79 (100)
Q Consensus 1 v~sCfg~hF~l~lek~~~-~~~~~f~A~vqliG~~~eA~nF~Y~LEl~g~~RrLtWEa~PRSI~e~~~~a~~~~DcLv~~ 79 (100)
||||||+|||||||||++ +++|||||+|||||+++||+||+|+|||+||||||+|||+||||||||++||+|+||||||
T Consensus 27 v~sCfG~~F~L~~Ek~~l~~~~~~y~A~~~~iG~~~eA~nf~Y~Lel~~n~RkL~we~~PRSIrds~~~~~~~~D~Lii~ 106 (127)
T cd03829 27 MQSCFGHHFMLVLEKQELYEGHQQFFAFVQLIGTEKQAENFTYRLELNGNRRRLTWEATPRSIREGHASVIDNSDCLVFD 106 (127)
T ss_pred hhhhcCceEEEEEehhhhcCCcHHHHHHHHHHcCHhHHhcceEEEEEcCCCcEEEeecCCccHHHhhHHHhhcCcceEEe
Confidence 689999999999999999 8899999999999999999999999999999999999999999999999999999999999
Q ss_pred cceeeeeecCCeeeEEEEEcC
Q 039313 80 RNLALFFSGGDRQELKLKVAG 100 (100)
Q Consensus 80 ~~~A~~Fa~~~~~~i~l~it~ 100 (100)
+|||+|||+|||++|||+|||
T Consensus 107 ~~~A~~Fs~~g~l~l~v~It~ 127 (127)
T cd03829 107 TSIAQLFSENGNLGINVTISG 127 (127)
T ss_pred chHhhhccCCCccEEEEEecC
Confidence 999999999999999999997
No 2
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=99.96 E-value=2.8e-30 Score=190.45 Aligned_cols=96 Identities=45% Similarity=0.760 Sum_probs=86.2
Q ss_pred eeecCceeEEEEeeeecCCccEEEEEEEeeCCHHhHcCceEEEEEcCCCeEEEEeecccchhhhhhhhhcCCCeeEEecc
Q 039313 2 FNCFARHFCLHFEAFHLGMAPVYVAFLRFMGDEEEARQFSYSLEVGGNGRKLTWQGIPRSIRDSHKKVRDSQDGLIIQRN 81 (100)
Q Consensus 2 ~sCfg~hF~l~lek~~~~~~~~f~A~vqliG~~~eA~nF~Y~LEl~g~~RrLtWEa~PRSI~e~~~~a~~~~DcLv~~~~ 81 (100)
++|+|++|+|++++++..+.++|+++||+||++++|++|+|.||+.+++|||+||++|+||+++++.++++.||||++.+
T Consensus 103 ~~~~~~~F~l~~~~~~~~~~~v~~~~v~~~G~~~~a~~f~Yel~~~~~~rkl~~~~~p~si~~~~~~~~~~~d~li~~~~ 182 (198)
T PF03145_consen 103 FSCFGKLFLLYVQKFELEGNAVYFAVVCYIGPAEEASNFSYELEVRSNGRKLTWQSFPRSIREDIDDAIESRDCLIINEN 182 (198)
T ss_dssp -EETTEEEEEEEEEEEEETEEEEEEEEEESS-HHHHTTEEEEEEEEETTEEEEEEE--EETTT-SHHHHHCT-SEEEEHH
T ss_pred cccCCccEEEEEEEEccCCceEEEEEEEEccCchhhhceEEEEEEecCCcEEEEEEcCcchhhhHHhhccCCcEEEEchH
Confidence 38999999999999998899999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeeeecCCeeeEEEE
Q 039313 82 LALFFSGGDRQELKLK 97 (100)
Q Consensus 82 ~A~~Fa~~~~~~i~l~ 97 (100)
+|++|++||+|.++++
T Consensus 183 ~~~~f~~~~~L~~~v~ 198 (198)
T PF03145_consen 183 AAQFFSEDGNLRYRVT 198 (198)
T ss_dssp HHHHHECTTEEEEEEE
T ss_pred HHHhcCCCCeEEEEeC
Confidence 9999999998655553
No 3
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=99.92 E-value=1.1e-25 Score=180.06 Aligned_cols=96 Identities=47% Similarity=0.703 Sum_probs=91.4
Q ss_pred ecCceeEEEEeeeec-CCccEEEEEEEeeCCHHhHcCceEEEEEcCCCeEEEEeecccchhhhhhhhhcCCCeeEEecce
Q 039313 4 CFARHFCLHFEAFHL-GMAPVYVAFLRFMGDEEEARQFSYSLEVGGNGRKLTWQGIPRSIRDSHKKVRDSQDGLIIQRNL 82 (100)
Q Consensus 4 Cfg~hF~l~lek~~~-~~~~~f~A~vqliG~~~eA~nF~Y~LEl~g~~RrLtWEa~PRSI~e~~~~a~~~~DcLv~~~~~ 82 (100)
|+|++||+++++|+. +.+++|++++|++|++.+|++|+|+|++++++|||+||++||||++++++++.+.|||+|+.++
T Consensus 197 ~~~~~~~~~~~~q~~~~~~~~y~tv~~i~~~~~e~~~fsy~L~~~~~~~klt~~s~~~s~~~kvs~~~p~~dfm~ip~~~ 276 (299)
T KOG3002|consen 197 CFGREFGLLFEVQCFREPHGVYVTVNRIAPSAPEAGEFSYSLALGGSGRKLTWQSPPRSIIQKVSKVRPEDDFMLIPRSL 276 (299)
T ss_pred cCcEEEeeeeeehhhcCCCceEEEeehhccCCCcccccceeeecCCCCceEeecCCcceeecccceeccCCCceeccHHH
Confidence 999999999999998 4469999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeeecCCeeeEEEEEcC
Q 039313 83 ALFFSGGDRQELKLKVAG 100 (100)
Q Consensus 83 A~~Fa~~~~~~i~l~it~ 100 (100)
+++|+.++. +|+|++|+
T Consensus 277 ~~~~~~~~~-~l~i~~~~ 293 (299)
T KOG3002|consen 277 LCLFSLLKM-ELKIRVTG 293 (299)
T ss_pred hhcccccCC-ceeeccch
Confidence 999999986 78887764
No 4
>TIGR02108 PQQ_syn_pqqB coenzyme PQQ biosynthesis protein B. This model describes coenzyme PQQ biosynthesis protein B, a gene required for the biosynthesis of pyrrolo-quinoline-quinone (coenzyme PQQ). PQQ is required for some glucose dehydrogenases and alcohol dehydrogenases. Note that this gene appears to be required for PQQ in biosynthesis in Methylobacterium extorquens (under the name pqqG) and in Klebiella pneumoniae but that the equivalent pqqV in Acinetobacter calcoaceticus is not necessary for heterologous expression of PQQ biosynthesis in E. coli. Based on this latter finding, it is suggested (Goosen, et al. 1989) that PqqB might be a transporter or a PQQ-dependent enzyme rather than a PQQ biosynthesis enzyme.
Probab=71.59 E-value=8.6 Score=30.67 Aligned_cols=45 Identities=18% Similarity=0.218 Sum_probs=35.8
Q ss_pred HcCceEEEEEcCCCeEEEEeecccchhhhhhhhhcCCCeeEEecc
Q 039313 37 ARQFSYSLEVGGNGRKLTWQGIPRSIRDSHKKVRDSQDGLIIQRN 81 (100)
Q Consensus 37 A~nF~Y~LEl~g~~RrLtWEa~PRSI~e~~~~a~~~~DcLv~~~~ 81 (100)
++.+.|+++-++.++++..=.=.-++-|.....+.++|+||+|.+
T Consensus 177 ~~~~Gy~i~~~~~g~~~~y~tD~g~~~~~~~~~l~~~d~liida~ 221 (302)
T TIGR02108 177 GDTLGLKIEDGTTGKRLFYIPGCAEITDDLKARMAGADLVFFDGT 221 (302)
T ss_pred CCcEEEEEEeCCCCcEEEEECCCCCCCHHHHHHHhCCCEEEEeCC
Confidence 578999999765468887755555667778888899999999998
No 5
>PF00917 MATH: MATH domain; InterPro: IPR002083 Although apparently functionally unrelated, intracellular TRAFs and extracellular meprins share a conserved region of about 180 residues, the meprin and TRAF homology (MATH) domain []. Meprins are mammalian tissue-specific metalloendopeptidases of the astacin family implicated in developmental, normal and pathological processes by hydrolysing a variety of proteins. Various growth factors, cytokines, and extracellular matrix proteins are substrates for meprins. They are composed of five structural domains: an N-terminal endopeptidase domain, a MAM domain (see PDOC00604 from PROSITEDOC), a MATH domain, an EGF-like domain (see PDOC00021 from PROSITEDOC) and a C-terminal transmembrane region. Meprin A and B form membrane bound homotetramer whereas homooligomers of meprin A are secreted. A proteolitic site adjacent to the MATH domain, only present in meprin A, allows the release of the protein from the membrane []. TRAF proteins were first isolated by their ability to interact with TNF receptors []. They promote cell survival by the activation of downstream protein kinases and, finally, transcription factors of the NF-kB and AP-1 family. The TRAF proteins are composed of 3 structural domains: a RING finger (see PDOC00449 from PROSITEDOC) in the N-terminal part of the protein, one to seven TRAF zinc fingers (see PDOC50145 from PROSITEDOC) in the middle and the MATH domain in the C-terminal part []. The MATH domain is necessary and sufficient for self-association and receptor interaction. From the structural analysis two consensus sequence recognised by the TRAF domain have been defined: a major one, [PSAT]x[QE]E and a minor one, PxQxxD []. The structure of the TRAF2 protein reveals a trimeric self-association of the MATH domain []. The domain forms a new, light-stranded antiparallel beta sandwich structure. A coiled-coil region adjacent to the MATH domain is also important for the trimerisation. The oligomerisation is essential for establishing appropriate connections to form signalling complexes with TNF receptor-1. The ligand binding surface of TRAF proteins is located in beta-strands 6 and 7 [].; GO: 0005515 protein binding; PDB: 1D00_E 1CZY_A 1D01_F 1CA9_A 1D0J_D 1F3V_B 1CA4_C 1D0A_A 1QSC_C 1CZZ_C ....
Probab=65.61 E-value=13 Score=23.58 Aligned_cols=94 Identities=10% Similarity=0.048 Sum_probs=49.9
Q ss_pred eeecCceeEEEEeeeecCCccEEEEEEEeeCCHHhH-----cCceEEEEEcCCCeEEEEee-cccchhhhhhhhhcCCCe
Q 039313 2 FNCFARHFCLHFEAFHLGMAPVYVAFLRFMGDEEEA-----RQFSYSLEVGGNGRKLTWQG-IPRSIRDSHKKVRDSQDG 75 (100)
Q Consensus 2 ~sCfg~hF~l~lek~~~~~~~~f~A~vqliG~~~eA-----~nF~Y~LEl~g~~RrLtWEa-~PRSI~e~~~~a~~~~Dc 75 (100)
+.++|..+.|.+..... ...+-.++.+.-+.... -...|++.+-..+++-.-.. ..++.... +-.--.+.
T Consensus 19 ~~~~g~~W~l~~~~~~~--~~~l~~~L~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~F~~~--~~~g~~~f 94 (119)
T PF00917_consen 19 FSHGGYPWRLKVYPKGN--GKYLSVYLHCDKGENDSDLEWSIEAEFRFRLLNQNGKSISKRIKSHSFNNP--SSWGWSSF 94 (119)
T ss_dssp SSTTSEEEEEEEETTES--TTEEEEEEEEECSTTGGGSSSSEEEEEEEEEE-TTSCEEEEEEECEEECTT--SEEEEEEE
T ss_pred EEECCEEEEEEEEeCCC--cCcEEEEEEEeecccccccceeeeEEEEEEEecCCCCcceeeeeeeEEeee--cccchhhe
Confidence 56789999998887766 56677788888776654 34456666654433321111 11111110 00001112
Q ss_pred eEEecceeeeeecCCeeeEEEEEc
Q 039313 76 LIIQRNLALFFSGGDRQELKLKVA 99 (100)
Q Consensus 76 Lv~~~~~A~~Fa~~~~~~i~l~it 99 (100)
+-.+.-...-|..||.+.|++.|+
T Consensus 95 i~~~~l~~~~fl~dd~l~ie~~v~ 118 (119)
T PF00917_consen 95 ISWEDLEDPYFLVDDSLTIEVEVK 118 (119)
T ss_dssp EEHHHHTTCTTSBTTEEEEEEEEE
T ss_pred eEHHHhCccCCeECCEEEEEEEEE
Confidence 222222222277899999988885
No 6
>PF12733 Cadherin-like: Cadherin-like beta sandwich domain
Probab=51.88 E-value=43 Score=21.09 Aligned_cols=24 Identities=17% Similarity=0.272 Sum_probs=21.7
Q ss_pred HcCceEEEEEcCCCeEEEEeeccc
Q 039313 37 ARQFSYSLEVGGNGRKLTWQGIPR 60 (100)
Q Consensus 37 A~nF~Y~LEl~g~~RrLtWEa~PR 60 (100)
...+.|.+.+..+-..++..++|.
T Consensus 11 ~~~~~Y~~~V~~~~~~v~v~a~~~ 34 (88)
T PF12733_consen 11 PDTTEYTVTVPNDVDSVTVTATPE 34 (88)
T ss_pred CCceEEEEEECCCceEEEEEEEEC
Confidence 456789999999999999999998
No 7
>PRK05184 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional
Probab=50.77 E-value=36 Score=26.86 Aligned_cols=44 Identities=14% Similarity=0.348 Sum_probs=32.2
Q ss_pred HcCceEEEEEcCCCeEEEEe-ecccchhhhhhhhhcCCCeeEEecc
Q 039313 37 ARQFSYSLEVGGNGRKLTWQ-GIPRSIRDSHKKVRDSQDGLIIQRN 81 (100)
Q Consensus 37 A~nF~Y~LEl~g~~RrLtWE-a~PRSI~e~~~~a~~~~DcLv~~~~ 81 (100)
...+.|++|-..+++++.+= ++ -..-|.+...+.++|.||+|.+
T Consensus 177 ~~~~gyri~~~~~g~~~~y~tD~-~~~~~~~~~~~~gaDlli~da~ 221 (302)
T PRK05184 177 GDNIGLRIEDRATGKRLFYAPGL-AEVTDALRARLAGADCVLFDGT 221 (302)
T ss_pred CCeEEEEEEecCCCcEEEEECCC-CCCCHHHHHHHhcCCEEEEeCC
Confidence 45899999854566788887 43 1334666777889999999976
No 8
>PF11032 ApoM: Apolipoprotein M (ApoM); InterPro: IPR022734 ApoM is a 25 kDa plasma protein associated with high-density lipoproteins (HDLs). ApoM is important in the formation of pre-ss-HDL and also in increasing cholesterol efflux from macrophage foam cells []. Lipoproteins consist of lipids solubilized by apolipoproteins. ApoM lacks an external amphipathic motif and is uniquely secreted to plasma without cleavage of its terminal signal peptide []. ; PDB: 2XKL_A 2WEX_A 2YG2_B 2WEW_A.
Probab=32.02 E-value=1.5e+02 Score=22.74 Aligned_cols=59 Identities=17% Similarity=0.258 Sum_probs=39.1
Q ss_pred CCccEEEEEEEeeCCHHhHcCceEEEEEcCCCeEEEEeecccchhhhhhhhhcCCCeeEEecc
Q 039313 19 GMAPVYVAFLRFMGDEEEARQFSYSLEVGGNGRKLTWQGIPRSIRDSHKKVRDSQDGLIIQRN 81 (100)
Q Consensus 19 ~~~~~f~A~vqliG~~~eA~nF~Y~LEl~g~~RrLtWEa~PRSI~e~~~~a~~~~DcLv~~~~ 81 (100)
...-++.+.+++--..=-=.+++|+|+ +++-.|.-|+-|.++-+=+.+ .-.||||+.-.
T Consensus 79 ~~~l~l~~~iR~~~g~C~~~~~~y~l~--~~s~~l~~eg~~~~~~~l~~t--sCpDCiil~e~ 137 (186)
T PF11032_consen 79 EETLNLTATIRMKNGKCVPRSWTYHLS--EGSTTLRTEGRPDMRTELFST--SCPDCIILKET 137 (186)
T ss_dssp TTEEEEEEEEEETTS-EEEEEEEEEE---TTSS-EEETTEEEEEEECCCC--CSTTEEEEEEE
T ss_pred CCeEEeeeeecccCCeEEEeeEEEEEe--cCCceEEecCCCcceeeEEec--CCCCEEEEEEc
Confidence 445677777776522334466788776 666779999988877666553 45999999855
No 9
>TIGR01322 scrB_fam sucrose-6-phosphate hydrolase.
Probab=29.40 E-value=1.8e+02 Score=24.13 Aligned_cols=58 Identities=9% Similarity=0.152 Sum_probs=38.0
Q ss_pred eEEEEEcCCCeEEEEeecccchhh---hhhhhhcCC-C----eeEEecceeeeeecCCeeeEEEEE
Q 039313 41 SYSLEVGGNGRKLTWQGIPRSIRD---SHKKVRDSQ-D----GLIIQRNLALFFSGGDRQELKLKV 98 (100)
Q Consensus 41 ~Y~LEl~g~~RrLtWEa~PRSI~e---~~~~a~~~~-D----cLv~~~~~A~~Fa~~~~~~i~l~i 98 (100)
.+.|.+...+++|+.+-.+.+... +.+.+-... + =+++|+++..+|..||+..+.-+|
T Consensus 377 ~~~i~~~~~~~~l~~dr~~~~~~~~~~~~~~~~~~~~~~~~l~i~vD~s~vEvFvn~G~~~~t~ri 442 (445)
T TIGR01322 377 ETLLTIDADEGKVTLDRRSSGNLEDYGGTRSCPLPNTKKVSLHIFIDKSSVEIFINDGEEVMTSRI 442 (445)
T ss_pred eEEEEEECcCCEEEEEccCCCCcCCccceEEEEcCCCCeEEEEEEEECCEEEEEECCCEEEEEEec
Confidence 488888888899988765543111 112211112 2 268899999999999987776654
No 10
>KOG1324 consensus Dihydrofolate reductase [Coenzyme transport and metabolism]
Probab=28.96 E-value=20 Score=28.10 Aligned_cols=13 Identities=38% Similarity=0.928 Sum_probs=10.8
Q ss_pred eEEEEeecccchh
Q 039313 51 RKLTWQGIPRSIR 63 (100)
Q Consensus 51 RrLtWEa~PRSI~ 63 (100)
.|-|||++|-..|
T Consensus 52 GRKtweSiP~k~R 64 (190)
T KOG1324|consen 52 GRKTWESIPEKFR 64 (190)
T ss_pred cccccccCCcccC
Confidence 4679999998776
No 11
>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=28.66 E-value=33 Score=28.03 Aligned_cols=32 Identities=19% Similarity=0.273 Sum_probs=27.2
Q ss_pred CCeEEEEeecccchhhhhhhhhcCCCeeEEec
Q 039313 49 NGRKLTWQGIPRSIRDSHKKVRDSQDGLIIQR 80 (100)
Q Consensus 49 ~~RrLtWEa~PRSI~e~~~~a~~~~DcLv~~~ 80 (100)
+.=-+++|+.|||+-|.+.--|.+.|.+|.-.
T Consensus 7 ~~~sl~y~g~~~~~le~vsL~ia~ge~vv~lG 38 (259)
T COG4525 7 SHLSLSYEGKPRSALEDVSLTIASGELVVVLG 38 (259)
T ss_pred hheEEecCCcchhhhhccceeecCCCEEEEEc
Confidence 34458899999999999999999999998753
No 12
>PF14213 DUF4325: Domain of unknown function (DUF4325)
Probab=27.28 E-value=40 Score=21.33 Aligned_cols=24 Identities=21% Similarity=0.394 Sum_probs=21.2
Q ss_pred CCeEEEEeecccchhhhhhhhhcC
Q 039313 49 NGRKLTWQGIPRSIRDSHKKVRDS 72 (100)
Q Consensus 49 ~~RrLtWEa~PRSI~e~~~~a~~~ 72 (100)
-+++|++...+.++.+-++.+++|
T Consensus 51 ~~~~l~~~~~~~~~~~~I~~vi~n 74 (74)
T PF14213_consen 51 IKKRLKFKNANESIKEMIKRVIEN 74 (74)
T ss_pred HhheeEEecCCHHHHHHHHHHHhC
Confidence 368999999999999999998875
No 13
>KOG3611 consensus Semaphorins [Signal transduction mechanisms]
Probab=26.88 E-value=42 Score=30.78 Aligned_cols=47 Identities=23% Similarity=0.306 Sum_probs=41.0
Q ss_pred HcCceEEEEEcCCC---eEEEEeecccchhhhhhhhhcCCCeeEEeccee
Q 039313 37 ARQFSYSLEVGGNG---RKLTWQGIPRSIRDSHKKVRDSQDGLIIQRNLA 83 (100)
Q Consensus 37 A~nF~Y~LEl~g~~---RrLtWEa~PRSI~e~~~~a~~~~DcLv~~~~~A 83 (100)
|+|..|+|.+..-. +++.|.+.+..+.++..+.-+..+|.-+-+-++
T Consensus 73 ard~vf~l~l~~~~~~~~~~~W~~~~~~~~~C~~kgk~~~eC~N~irvL~ 122 (737)
T KOG3611|consen 73 ARDAVFRLSLENISEVQAKLEWKSSESDREECRMKGKDETECRNYIRVLA 122 (737)
T ss_pred ccceEEEEecCccccccceeeccCChhhhhhhcccCCChhHccceeEEEe
Confidence 78999999998765 499999999999999999988888988776654
No 14
>PF14709 DND1_DSRM: double strand RNA binding domain from DEAD END PROTEIN 1
Probab=24.85 E-value=98 Score=20.18 Aligned_cols=49 Identities=18% Similarity=0.223 Sum_probs=34.6
Q ss_pred ccEEEEEEEeeCCHHhHcCceEEEEEcCCCe---EEEEeecccchhhhhhhhhc
Q 039313 21 APVYVAFLRFMGDEEEARQFSYSLEVGGNGR---KLTWQGIPRSIRDSHKKVRD 71 (100)
Q Consensus 21 ~~~f~A~vqliG~~~eA~nF~Y~LEl~g~~R---rLtWEa~PRSI~e~~~~a~~ 71 (100)
.|+|--. .=.| +...+.|.|+..+++... ...|.=.|-......+.|.+
T Consensus 18 ~P~y~l~-~~~G-p~~~~~F~ykV~i~~~~~~~~~~~~~~~p~~~~~~~k~Ak~ 69 (80)
T PF14709_consen 18 PPVYELV-SESG-PDHRKLFLYKVVIPGLEYPFEGSIECFGPTKPSSTKKEAKE 69 (80)
T ss_pred CCeEEEE-eccC-CCccEEEEEEEEEcCCCCCCcceEEEccCCCcCccHHHHHH
Confidence 4676544 4444 456788999999999988 57777777666666666643
No 15
>PF06905 FAIM1: Fas apoptotic inhibitory molecule (FAIM1); InterPro: IPR010695 This family consists of several fas apoptotic inhibitory molecule (FAIM) proteins. FAIM expression is upregulated in B cells by anti-Ig treatment that induces Fas-resistance, and overexpression of FAIM diminishes sensitivity to Fas-mediated apoptosis of B and non-B cell lines. FAIM is highly evolutionarily conserved and is widely expressed in murine tissues, suggesting that FAIM plays an important role in cellular physiology [].; GO: 0043066 negative regulation of apoptosis; PDB: 3MX7_A 2KW1_A 2KD2_A.
Probab=22.47 E-value=87 Score=23.96 Aligned_cols=41 Identities=27% Similarity=0.395 Sum_probs=25.7
Q ss_pred eeeecCCc-cEEEEEEEeeCCHHhHcCceEEEEEcCC----------CeEEEEeec
Q 039313 14 EAFHLGMA-PVYVAFLRFMGDEEEARQFSYSLEVGGN----------GRKLTWQGI 58 (100)
Q Consensus 14 ek~~~~~~-~~f~A~vqliG~~~eA~nF~Y~LEl~g~----------~RrLtWEa~ 58 (100)
|.|..+.. -.+-..+..++. -.|.|+|+++|. ++..+|+-.
T Consensus 53 e~F~ig~~~~k~~I~I~~~~g----~~YeYsL~VdGksl~ky~e~~~k~~~tW~~~ 104 (177)
T PF06905_consen 53 ETFTIGGKNTKCEINIEAVSG----FAYEYSLEVDGKSLKKYKEEQSKKFNTWELN 104 (177)
T ss_dssp EEEEETTTTEEEEEEEEEETT----TEEEEEEEETTEEEEE--SSTTTTEEEEEEE
T ss_pred cEEEECCCceEEEEEEEecCC----ceEEEEEEECCEEHHHHHHHHhhhheeEEEe
Confidence 34444432 345555555544 459999999984 577999844
No 16
>PRK11625 Rho-binding antiterminator; Provisional
Probab=22.34 E-value=1.5e+02 Score=20.15 Aligned_cols=39 Identities=15% Similarity=0.147 Sum_probs=27.4
Q ss_pred hHcCceEEEEEcCCCeEEEEeecccchhhhhhhhhcCCCeeEEec
Q 039313 36 EARQFSYSLEVGGNGRKLTWQGIPRSIRDSHKKVRDSQDGLIIQR 80 (100)
Q Consensus 36 eA~nF~Y~LEl~g~~RrLtWEa~PRSI~e~~~~a~~~~DcLv~~~ 80 (100)
-|.-+-|.|.+.-.++. +++|++..+.- .+...||+++.
T Consensus 18 lAC~~~~~l~l~l~dGe-~~~g~A~D~~~-----~~k~EyL~l~~ 56 (84)
T PRK11625 18 LACQHHLMLTLELKDGE-VLQAKASDLVS-----RKNVEYLVVEA 56 (84)
T ss_pred HHHhcCCeEEEEECCCC-EEEEEEEeeec-----CCceEEEEEEc
Confidence 35556666665544444 79999998882 36789999975
No 17
>PF00599 Flu_M2: Influenza Matrix protein (M2); InterPro: IPR002089 This entry contains Influenza virus matrix protein 2. It is an integral membrane protein that is expressed on the infected cell surface and incorporated into virions where it is a minor component. The protein spans the viral membrane with an extracellular amino-terminus and a cytoplasmic carboxy-terminus. The transmembrane domain of the M2 protein forms the channel pore. The M2 protein, which forms a homotetramer, has H+ ion channel which was found to be regulated by pH [ and may have a pivotal role in the biology of Influenza virus infection [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015992 proton transport, 0033644 host cell membrane, 0055036 virion membrane; PDB: 2L0J_A 2KWX_B 2KIH_A 2RLF_A 1MP6_A 2LJB_D 2LJC_A 2H95_B 1NYJ_B 3BKD_E ....
Probab=20.88 E-value=33 Score=24.31 Aligned_cols=18 Identities=28% Similarity=0.612 Sum_probs=0.4
Q ss_pred eEEEEeecccchhhhhhh
Q 039313 51 RKLTWQGIPRSIRDSHKK 68 (100)
Q Consensus 51 RrLtWEa~PRSI~e~~~~ 68 (100)
|.-+=||+|+|+||-.+.
T Consensus 61 ~gpsTegvpesmREEyrq 78 (97)
T PF00599_consen 61 RGPSTEGVPESMREEYRQ 78 (97)
T ss_dssp C-----------------
T ss_pred cCCCCCCCCHHHHHHHhh
Confidence 344568999999987665
No 18
>PF05866 RusA: Endodeoxyribonuclease RusA; InterPro: IPR008822 This family consists of several bacterial and phage Holliday junction resolvase (RusA) like proteins. The RusA protein of Escherichia coli is an endonuclease that can resolve Holliday intermediates and correct the defects in genetic recombination and DNA repair associated with inactivation of RuvAB or RuvC [].; GO: 0000287 magnesium ion binding, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1Q8R_A 2H8C_A 2H8E_A.
Probab=20.64 E-value=1.4e+02 Score=19.69 Aligned_cols=43 Identities=14% Similarity=0.159 Sum_probs=27.5
Q ss_pred EEeecccchhhhhhhhhcCCCeeEEeccee-eeeecCCeeeEEE
Q 039313 54 TWQGIPRSIRDSHKKVRDSQDGLIIQRNLA-LFFSGGDRQELKL 96 (100)
Q Consensus 54 tWEa~PRSI~e~~~~a~~~~DcLv~~~~~A-~~Fa~~~~~~i~l 96 (100)
.+.-....+-|++..++-.-|..|....+. ..-.++++++|++
T Consensus 72 D~DN~~K~i~Dal~~~v~~DD~~i~~~~~~~~~~~~~~rieI~I 115 (118)
T PF05866_consen 72 DLDNLLKAILDALTGAVWKDDRQIVRIRVEKKIDKKNPRIEIEI 115 (118)
T ss_dssp -HHHHHHHHHHHHHHTSBS-GGGEEEEEEEEE---TT-EEEEEE
T ss_pred CchhHHHHHHHHHhCcEEcCCccEEEEEEEEEEeCcCCeEEEEE
Confidence 444556688899988888889998887776 5666677666554
No 19
>PF09175 DUF1944: Domain of unknown function (DUF1944); InterPro: IPR015258 Vitellinogen precursors provide the major egg yolk proteins that are a source of nutrients during early development of oviparous vertebrates and invertebrates. Vitellinogen precursors are multi-domain apolipoproteins that are cleaved into distinct yolk proteins. Different vitellinogen precursors exist, which are composed of variable combinations of yolk protein components; however, the cleavage sites are conserved [, ]. In vertebrates, a complete vitellinogen is composed of an N-terminal signal peptide for export, followed by four regions that can be cleaved into yolk proteins: lipovitellin-1, phosvitin, lipovitellin-2, and a von Willebrand factor type D domain (YGP40). Vitellinogens are post-translationally glycosylated and phosphorylated in the endoplasmic reticulum and Golgi complex of hepatocytes, before being secreted into the circulatory system to be taken up by oocytes. In the ovary, vitellinogens bind to specific Vtgr receptors on oocyte membranes to become internalised by endocytosis, where they are cleaved into yolk proteins by cathepsin D. YGP40 is released into the yolk plasma before or during compartmentation of lipovitellin-phosvitin complex into the yolk granule. The different yolk proteins have distinct roles. Phosvitins are important in sequestering calcium, iron and other cations for the developing embryo. Phosvitins are one of the most phosphorylated (10%) proteins in nature, the high concentration of phosphate groups providing efficient metal-binding sites in clusters [, ]. Lipovitellins are involved in lipid and metal storage, and contain a heterogeneous mixture of about 16% (w/w) noncovalently bound lipid, most being phospholipid. Lipovitellin-1 contains two chains, LV1N and LV1C [, ]. This entry represents the beta-sheet shell domain found in vitellinogen, which generally corresponds to the lipovitellin-2 peptide product. This domain consists of several large open beta-sheets []. It is often found C-terminal to IPR001747 from INTERPRO and IPR015255 from INTERPRO. ; GO: 0005319 lipid transporter activity, 0006869 lipid transport; PDB: 1LSH_B.
Probab=20.02 E-value=27 Score=26.51 Aligned_cols=20 Identities=30% Similarity=0.644 Sum_probs=12.1
Q ss_pred CeEEEEeecccchhhhhhhh
Q 039313 50 GRKLTWQGIPRSIRDSHKKV 69 (100)
Q Consensus 50 ~RrLtWEa~PRSI~e~~~~a 69 (100)
|=|+.|+-+|.++.+--+.+
T Consensus 90 r~kv~W~~lP~~~k~~~k~~ 109 (165)
T PF09175_consen 90 RLKVEWPRLPSSMKRYAKRV 109 (165)
T ss_dssp EEEEEE----HHHHHHHHHH
T ss_pred EEEeecccCcHHHHHHHHHH
Confidence 45799999999999766654
Done!