Query 031060
Match_columns 166
No_of_seqs 183 out of 1117
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 08:38:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031060.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031060hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12999 PRKCSH-like: Glucosid 100.0 5.9E-33 1.3E-37 225.2 2.8 141 9-154 2-149 (176)
2 KOG2397 Protein kinase C subst 99.8 2E-20 4.3E-25 170.1 6.3 109 22-130 20-131 (480)
3 PF00057 Ldl_recept_a: Low-den 99.1 6.5E-11 1.4E-15 73.9 3.2 35 76-114 2-36 (37)
4 PF00057 Ldl_recept_a: Low-den 99.1 7.6E-11 1.7E-15 73.5 3.2 33 40-73 4-36 (37)
5 cd00112 LDLa Low Density Lipop 99.1 5.8E-11 1.3E-15 73.0 2.6 32 41-73 3-34 (35)
6 cd00112 LDLa Low Density Lipop 99.1 8.5E-11 1.9E-15 72.2 2.3 33 77-113 1-33 (35)
7 smart00192 LDLa Low-density li 98.9 5.6E-10 1.2E-14 67.6 2.6 32 77-112 2-33 (33)
8 smart00192 LDLa Low-density li 98.9 1.8E-09 3.8E-14 65.4 2.9 30 41-71 4-33 (33)
9 KOG1215 Low-density lipoprotei 98.1 2.8E-06 6E-11 82.0 5.0 83 28-114 202-293 (877)
10 KOG1215 Low-density lipoprotei 98.1 2E-06 4.3E-11 83.0 4.0 69 41-113 140-251 (877)
11 PF12999 PRKCSH-like: Glucosid 97.9 6.2E-06 1.4E-10 67.6 1.7 39 79-120 35-73 (176)
12 KOG3509 Basement membrane-spec 95.3 0.02 4.4E-07 57.2 4.3 74 37-114 30-109 (964)
13 KOG2397 Protein kinase C subst 94.9 0.01 2.2E-07 55.3 1.0 58 17-74 56-116 (480)
14 PF07771 TSGP1: Tick salivary 85.8 2.4 5.1E-05 32.9 5.5 45 3-48 1-45 (120)
15 KOG3509 Basement membrane-spec 65.4 4.5 9.7E-05 41.1 2.3 59 52-114 3-65 (964)
16 PHA02637 TNF-alpha-receptor-li 54.1 39 0.00084 26.6 5.4 19 63-82 55-73 (127)
17 PF12273 RCR: Chitin synthesis 46.2 25 0.00054 26.7 3.2 23 13-35 13-35 (130)
18 PF15284 PAGK: Phage-encoded v 44.4 22 0.00049 24.7 2.4 17 6-22 5-21 (61)
19 PF04885 Stig1: Stigma-specifi 39.9 97 0.0021 24.5 5.7 29 64-97 76-109 (136)
20 PRK10301 hypothetical protein; 39.8 61 0.0013 24.7 4.5 37 3-39 5-41 (124)
21 PRK10040 hypothetical protein; 35.6 58 0.0013 21.9 3.2 15 40-56 32-46 (52)
22 PF07172 GRP: Glycine rich pro 33.9 32 0.0007 25.4 2.0 22 6-27 3-24 (95)
23 TIGR00847 ccoS cytochrome oxid 28.8 65 0.0014 21.5 2.6 13 3-15 1-13 (51)
24 PF07127 Nodulin_late: Late no 28.4 1.5E+02 0.0033 19.2 4.4 20 4-23 3-22 (54)
25 COG2165 PulG Type II secretory 26.5 68 0.0015 23.0 2.7 23 3-25 10-32 (149)
26 PF07498 Rho_N: Rho terminatio 21.7 53 0.0011 20.6 1.1 27 135-164 8-34 (43)
27 PF13721 SecD-TM1: SecD export 21.4 1.4E+02 0.0029 22.1 3.4 31 4-36 5-35 (101)
No 1
>PF12999 PRKCSH-like: Glucosidase II beta subunit-like
Probab=99.97 E-value=5.9e-33 Score=225.25 Aligned_cols=141 Identities=48% Similarity=0.868 Sum_probs=121.5
Q ss_pred HHHHHHHHHHHHHhhhcCCcccCCCCCccCCCC---CceEeCCCCce-ecCCCCCCCCCCCCCCCCCCCCcCCCCCeeee
Q 031060 9 LIPLMSLCFLVVFVQCKSSLLGVHPLDEKYFSK---EVIKCKDGSKS-FTRDRLNDNFCDCIDGTDEPGTSACPAGKFYC 84 (166)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~Gv~p~~~~~~~p---~~F~C~~g~~C-Ip~~~vCDG~~DC~DGSDE~~c~~C~~~~F~C 84 (166)
++||++++++++.+ ..+++||+|+.+++|.| +.|.|.+|++- |+.++++|++.||+|||||+++++|+.+.|||
T Consensus 2 ~~~~~~~~~~~~~~--~~~~~GV~p~~~~~Y~~~~~~~f~Cl~~~~~~I~~~~iNDdyCDC~DGSDEPGTsAC~~~~FyC 79 (176)
T PF12999_consen 2 LLPLIALSLLSASA--SSRIRGVSPSDQHLYEPSENGKFTCLDGSKIVIPFSQINDDYCDCPDGSDEPGTSACSNGKFYC 79 (176)
T ss_pred cHHHHHHHHHHHhc--cCCCCCCCHHHHHHcCCCCCCceEecCCCCceecHHHccCcceeCCCCCCccccccCcCceEee
Confidence 57777765554444 55799999999999975 47999999876 99999999999999999999999999999999
Q ss_pred cCCCCCceeccCCCccCCCCC---CCCCCCCCCCCCCCCccccCCChHHHHhhhccccccccCCcccccccCC
Q 031060 85 GNVGSTPQFIFSSRVNDRICD---CCDGSDEYDSSIKCPNTCVMGGNIEYKAQSYISTINDAGSIDARGAKIP 154 (166)
Q Consensus 85 ~ng~~~~~CI~~~~vCDG~~D---C~DGSDE~~~~~~C~~~C~~~g~~~~r~~~~~~~~~~~~~~~~~~~~~~ 154 (166)
.|.||.|..||.++|-||+.| |.||||| ..+.|||+|.++++ +||..........+.|+++|..++.
T Consensus 80 ~N~g~~p~~i~~s~VnDGICDy~~CCDGSDE--~~~~C~N~C~e~~~-~~~~~~~~~~~~~~~G~~~r~~~i~ 149 (176)
T PF12999_consen 80 ENKGHIPRYIPSSRVNDGICDYDICCDGSDE--SGGKCPNTCAELGK-EYREELEEEEEIYKEGLKIRQELIE 149 (176)
T ss_pred ccCCCCCceeehhhhcCCcCcccccCCCCCC--CCCCCccHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999 9999999 45679999999998 6687776666777778777776643
No 2
>KOG2397 consensus Protein kinase C substrate, 80 KD protein, heavy chain [Signal transduction mechanisms]
Probab=99.81 E-value=2e-20 Score=170.06 Aligned_cols=109 Identities=53% Similarity=1.008 Sum_probs=95.9
Q ss_pred hhhcCCcccCCCC--CccCC-CCCceEeCCCCceecCCCCCCCCCCCCCCCCCCCCcCCCCCeeeecCCCCCceeccCCC
Q 031060 22 VQCKSSLLGVHPL--DEKYF-SKEVIKCKDGSKSFTRDRLNDNFCDCIDGTDEPGTSACPAGKFYCGNVGSTPQFIFSSR 98 (166)
Q Consensus 22 ~~~~~~~~Gv~p~--~~~~~-~p~~F~C~~g~~CIp~~~vCDG~~DC~DGSDE~~c~~C~~~~F~C~ng~~~~~CI~~~~ 98 (166)
|-..+.++||.-. +...| +...|.|.+|++-|+.+++.|++.||.|||||++++.|+++.|||.|.||.+.-|+.+.
T Consensus 20 a~~~~~~~~v~~~~~~~~~y~as~~~~CLdgs~~i~f~qlNDd~CDC~DGsDEPGtsACpngkF~C~N~G~~p~~i~ssr 99 (480)
T KOG2397|consen 20 AKQLRKDWGVALSIENLYLYDASSMFKCLDGSKTISFSQLNDDSCDCLDGSDEPGTSACPNGKFYCVNQGHQPKYIPSSR 99 (480)
T ss_pred hhccccccccccccccccccccccceeeccCCcccCHHHhccccccCCCCCCCCccccCCCCceeeeecCCCceeeechh
Confidence 3334567777544 44444 46799999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCCCCCCCCCCCCCCCccccCCChHH
Q 031060 99 VNDRICDCCDGSDEYDSSIKCPNTCVMGGNIE 130 (166)
Q Consensus 99 vCDG~~DC~DGSDE~~~~~~C~~~C~~~g~~~ 130 (166)
|-||+.||.|||||..+++.|||+|.+.|.+.
T Consensus 100 V~DGICDCCDgSDE~~Sgv~c~ntC~e~gR~~ 131 (480)
T KOG2397|consen 100 VNDGICDCCDGSDEYLSGVDCPNTCIELGRAA 131 (480)
T ss_pred ccCcccccccCCCCccCCCCCcchHHHHHHHH
Confidence 99999999999999999899999999998744
No 3
>PF00057 Ldl_recept_a: Low-density lipoprotein receptor domain class A This prints entry is specific to LDL receptor; InterPro: IPR002172 The low-density lipoprotein receptor (LDLR) is the major cholesterol-carrying lipoprotein of plasma, acting to regulate cholesterol homeostasis in mammalian cells. The LDL receptor binds LDL and transports it into cells by acidic endocytosis. In order to be internalized, the receptor-ligand complex must first cluster into clathrin-coated pits. Once inside the cell, the LDLR separates from its ligand, which is degraded in the lysosomes, while the receptor returns to the cell surface []. The internal dissociation of the LDLR with its ligand is mediated by proton pumps within the walls of the endosome that lower the pH. The LDLR is a multi-domain protein, containing: The ligand-binding domain contains seven or eight 40-amino acid LDLR class A (cysteine-rich) repeats, each of which contains a coordinated calcium ion and six cysteine residues involved in disulphide bond formation []. Similar domains have been found in other extracellular and membrane proteins []. The second conserved region contains two EGF repeats, followed by six LDLR class B (YWTD) repeats, and another EGF repeat. The LDLR class B repeats each contain a conserved YWTD motif, and is predicted to form a beta-propeller structure []. This region is critical for ligand release and recycling of the receptor []. The third domain is rich in serine and threonine residues and contains clustered O-linked carbohydrate chains. The fourth domain is the hydrophobic transmembrane region. The fifth domain is the cytoplasmic tail that directs the receptor to clathrin-coated pits. LDLR is closely related in structure to several other receptors, including LRP1, LRP1b, megalin/LRP2, VLDL receptor, lipoprotein receptor, MEGF7/LRP4, and LRP8/apolipoprotein E receptor2); these proteins participate in a wide range of physiological processes, including the regulation of lipid metabolism, protection against atherosclerosis, neurodevelopment, and transport of nutrients and vitamins []. This entry represents the LDLR class A (cyateine-rich) repeat, which contains 6 disulphide-bound cysteines and a highly conserved cluster of negatively charged amino acids, of which many are clustered on one face of the module []. In LDL receptors, the class A domains form the binding site for LDL and calcium. The acidic residues between the fourth and sixth cysteines are important for high-affinity binding of positively charged sequences in LDLR's ligands. The repeat consists of a beta-hairpin structure followed by a series of beta turns. In the absence of calcium, LDL-A domains are unstructured; the bound calcium ion imparts structural integrity. Following these repeats is a 350 residue domain that resembles part of the epidermal growth factor (EGF) precursor. Numerous familial hypercholestorolemia mutations of the LDL receptor alter the calcium coordinating residue of LDL-A domains or other crucial scaffolding residues. ; GO: 0005515 protein binding; PDB: 2I1P_A 3OJY_A 4E0S_B 3T5O_A 4A5W_B 1JRF_A 1K7B_A 1V9U_5 3DPR_E 2KNY_A ....
Probab=99.10 E-value=6.5e-11 Score=73.88 Aligned_cols=35 Identities=57% Similarity=0.914 Sum_probs=32.6
Q ss_pred CCCCCeeeecCCCCCceeccCCCccCCCCCCCCCCCCCC
Q 031060 76 ACPAGKFYCGNVGSTPQFIFSSRVNDRICDCCDGSDEYD 114 (166)
Q Consensus 76 ~C~~~~F~C~ng~~~~~CI~~~~vCDG~~DC~DGSDE~~ 114 (166)
.|+.++|+|.++ .||+..++|||+.||.|||||.+
T Consensus 2 ~C~~~~f~C~~~----~CI~~~~~CDg~~DC~dgsDE~~ 36 (37)
T PF00057_consen 2 TCPPGEFRCGNG----QCIPKSWVCDGIPDCPDGSDEQN 36 (37)
T ss_dssp SSSTTEEEETTS----SEEEGGGTTSSSCSSSSSTTTSS
T ss_pred cCcCCeeEcCCC----CEEChHHcCCCCCCCCCCccccc
Confidence 588999999998 79999999999999999999963
No 4
>PF00057 Ldl_recept_a: Low-density lipoprotein receptor domain class A This prints entry is specific to LDL receptor; InterPro: IPR002172 The low-density lipoprotein receptor (LDLR) is the major cholesterol-carrying lipoprotein of plasma, acting to regulate cholesterol homeostasis in mammalian cells. The LDL receptor binds LDL and transports it into cells by acidic endocytosis. In order to be internalized, the receptor-ligand complex must first cluster into clathrin-coated pits. Once inside the cell, the LDLR separates from its ligand, which is degraded in the lysosomes, while the receptor returns to the cell surface []. The internal dissociation of the LDLR with its ligand is mediated by proton pumps within the walls of the endosome that lower the pH. The LDLR is a multi-domain protein, containing: The ligand-binding domain contains seven or eight 40-amino acid LDLR class A (cysteine-rich) repeats, each of which contains a coordinated calcium ion and six cysteine residues involved in disulphide bond formation []. Similar domains have been found in other extracellular and membrane proteins []. The second conserved region contains two EGF repeats, followed by six LDLR class B (YWTD) repeats, and another EGF repeat. The LDLR class B repeats each contain a conserved YWTD motif, and is predicted to form a beta-propeller structure []. This region is critical for ligand release and recycling of the receptor []. The third domain is rich in serine and threonine residues and contains clustered O-linked carbohydrate chains. The fourth domain is the hydrophobic transmembrane region. The fifth domain is the cytoplasmic tail that directs the receptor to clathrin-coated pits. LDLR is closely related in structure to several other receptors, including LRP1, LRP1b, megalin/LRP2, VLDL receptor, lipoprotein receptor, MEGF7/LRP4, and LRP8/apolipoprotein E receptor2); these proteins participate in a wide range of physiological processes, including the regulation of lipid metabolism, protection against atherosclerosis, neurodevelopment, and transport of nutrients and vitamins []. This entry represents the LDLR class A (cyateine-rich) repeat, which contains 6 disulphide-bound cysteines and a highly conserved cluster of negatively charged amino acids, of which many are clustered on one face of the module []. In LDL receptors, the class A domains form the binding site for LDL and calcium. The acidic residues between the fourth and sixth cysteines are important for high-affinity binding of positively charged sequences in LDLR's ligands. The repeat consists of a beta-hairpin structure followed by a series of beta turns. In the absence of calcium, LDL-A domains are unstructured; the bound calcium ion imparts structural integrity. Following these repeats is a 350 residue domain that resembles part of the epidermal growth factor (EGF) precursor. Numerous familial hypercholestorolemia mutations of the LDL receptor alter the calcium coordinating residue of LDL-A domains or other crucial scaffolding residues. ; GO: 0005515 protein binding; PDB: 2I1P_A 3OJY_A 4E0S_B 3T5O_A 4A5W_B 1JRF_A 1K7B_A 1V9U_5 3DPR_E 2KNY_A ....
Probab=99.09 E-value=7.6e-11 Score=73.55 Aligned_cols=33 Identities=27% Similarity=0.616 Sum_probs=30.6
Q ss_pred CCCceEeCCCCceecCCCCCCCCCCCCCCCCCCC
Q 031060 40 SKEVIKCKDGSKSFTRDRLNDNFCDCIDGTDEPG 73 (166)
Q Consensus 40 ~p~~F~C~~g~~CIp~~~vCDG~~DC~DGSDE~~ 73 (166)
.+++|+|.++. ||+..|+|||+.||.|||||.+
T Consensus 4 ~~~~f~C~~~~-CI~~~~~CDg~~DC~dgsDE~~ 36 (37)
T PF00057_consen 4 PPGEFRCGNGQ-CIPKSWVCDGIPDCPDGSDEQN 36 (37)
T ss_dssp STTEEEETTSS-EEEGGGTTSSSCSSSSSTTTSS
T ss_pred cCCeeEcCCCC-EEChHHcCCCCCCCCCCccccc
Confidence 47899999994 9999999999999999999975
No 5
>cd00112 LDLa Low Density Lipoprotein Receptor Class A domain, a cysteine-rich repeat that plays a central role in mammalian cholesterol metabolism; the receptor protein binds LDL and transports it into cells by endocytosis; 7 successive cysteine-rich repeats of about 40 amino acids are present in the N-terminal of this multidomain membrane protein; other homologous domains occur in related receptors, including the very low-density lipoprotein receptor and the LDL receptor-related protein/alpha 2-macroglobulin receptor, and in proteins which are functionally unrelated, such as the C9 component of complement; the binding of calcium is required for in vitro formation of the native disulfide isomer and is necessary in establishing and maintaining the modular structure
Probab=99.09 E-value=5.8e-11 Score=72.99 Aligned_cols=32 Identities=28% Similarity=0.577 Sum_probs=29.9
Q ss_pred CCceEeCCCCceecCCCCCCCCCCCCCCCCCCC
Q 031060 41 KEVIKCKDGSKSFTRDRLNDNFCDCIDGTDEPG 73 (166)
Q Consensus 41 p~~F~C~~g~~CIp~~~vCDG~~DC~DGSDE~~ 73 (166)
+++|+|.++ .|||..++|||+.||+|||||.+
T Consensus 3 ~~~f~C~~~-~Ci~~~~~CDg~~DC~dgsDE~~ 34 (35)
T cd00112 3 PNEFRCANG-RCIPSSWVCDGEDDCGDGSDEEN 34 (35)
T ss_pred CCeEEcCCC-CeeCHHHcCCCccCCCCCccccc
Confidence 589999997 79999999999999999999985
No 6
>cd00112 LDLa Low Density Lipoprotein Receptor Class A domain, a cysteine-rich repeat that plays a central role in mammalian cholesterol metabolism; the receptor protein binds LDL and transports it into cells by endocytosis; 7 successive cysteine-rich repeats of about 40 amino acids are present in the N-terminal of this multidomain membrane protein; other homologous domains occur in related receptors, including the very low-density lipoprotein receptor and the LDL receptor-related protein/alpha 2-macroglobulin receptor, and in proteins which are functionally unrelated, such as the C9 component of complement; the binding of calcium is required for in vitro formation of the native disulfide isomer and is necessary in establishing and maintaining the modular structure
Probab=99.05 E-value=8.5e-11 Score=72.25 Aligned_cols=33 Identities=52% Similarity=0.759 Sum_probs=31.0
Q ss_pred CCCCeeeecCCCCCceeccCCCccCCCCCCCCCCCCC
Q 031060 77 CPAGKFYCGNVGSTPQFIFSSRVNDRICDCCDGSDEY 113 (166)
Q Consensus 77 C~~~~F~C~ng~~~~~CI~~~~vCDG~~DC~DGSDE~ 113 (166)
|++.+|+|.++ .||+..++|||+.||.|||||.
T Consensus 1 C~~~~f~C~~~----~Ci~~~~~CDg~~DC~dgsDE~ 33 (35)
T cd00112 1 CPPNEFRCANG----RCIPSSWVCDGEDDCGDGSDEE 33 (35)
T ss_pred CCCCeEEcCCC----CeeCHHHcCCCccCCCCCcccc
Confidence 66789999997 8999999999999999999997
No 7
>smart00192 LDLa Low-density lipoprotein receptor domain class A. Cysteine-rich repeat in the low-density lipoprotein (LDL) receptor that plays a central role in mammalian cholesterol metabolism. The N-terminal type A repeats in LDL receptor bind the lipoproteins. Other homologous domains occur in related receptors, including the very low-density lipoprotein receptor and the LDL receptor-related protein/alpha 2-macroglobulin receptor, and in proteins which are functionally unrelated, such as the C9 component of complement. Mutations in the LDL receptor gene cause familial hypercholesterolemia.
Probab=98.94 E-value=5.6e-10 Score=67.64 Aligned_cols=32 Identities=53% Similarity=0.909 Sum_probs=29.9
Q ss_pred CCCCeeeecCCCCCceeccCCCccCCCCCCCCCCCC
Q 031060 77 CPAGKFYCGNVGSTPQFIFSSRVNDRICDCCDGSDE 112 (166)
Q Consensus 77 C~~~~F~C~ng~~~~~CI~~~~vCDG~~DC~DGSDE 112 (166)
|+..+|+|.++ .||+..++|||+.||.|||||
T Consensus 2 C~~~~f~C~~~----~Ci~~~~~Cdg~~dC~dgsDE 33 (33)
T smart00192 2 CPPGEFQCDNG----RCIPLSWVCDGVDDCSDGSDE 33 (33)
T ss_pred CCCCeEECCCC----CEECchhhCCCcCcCcCCCCC
Confidence 66779999987 799999999999999999998
No 8
>smart00192 LDLa Low-density lipoprotein receptor domain class A. Cysteine-rich repeat in the low-density lipoprotein (LDL) receptor that plays a central role in mammalian cholesterol metabolism. The N-terminal type A repeats in LDL receptor bind the lipoproteins. Other homologous domains occur in related receptors, including the very low-density lipoprotein receptor and the LDL receptor-related protein/alpha 2-macroglobulin receptor, and in proteins which are functionally unrelated, such as the C9 component of complement. Mutations in the LDL receptor gene cause familial hypercholesterolemia.
Probab=98.86 E-value=1.8e-09 Score=65.44 Aligned_cols=30 Identities=30% Similarity=0.646 Sum_probs=27.8
Q ss_pred CCceEeCCCCceecCCCCCCCCCCCCCCCCC
Q 031060 41 KEVIKCKDGSKSFTRDRLNDNFCDCIDGTDE 71 (166)
Q Consensus 41 p~~F~C~~g~~CIp~~~vCDG~~DC~DGSDE 71 (166)
+++|+|.++ .|||..++|||+.||+|||||
T Consensus 4 ~~~f~C~~~-~Ci~~~~~Cdg~~dC~dgsDE 33 (33)
T smart00192 4 PGEFQCDNG-RCIPLSWVCDGVDDCSDGSDE 33 (33)
T ss_pred CCeEECCCC-CEECchhhCCCcCcCcCCCCC
Confidence 458999988 599999999999999999998
No 9
>KOG1215 consensus Low-density lipoprotein receptors containing Ca2+-binding EGF-like domains [Signal transduction mechanisms]
Probab=98.13 E-value=2.8e-06 Score=82.03 Aligned_cols=83 Identities=25% Similarity=0.416 Sum_probs=67.7
Q ss_pred cccCCCCCccCC-----CCCceEeCCCCceecCCCCCCCCCCCCCCCCCC--CC--cCCCCCeeeecCCCCCceeccCCC
Q 031060 28 LLGVHPLDEKYF-----SKEVIKCKDGSKSFTRDRLNDNFCDCIDGTDEP--GT--SACPAGKFYCGNVGSTPQFIFSSR 98 (166)
Q Consensus 28 ~~Gv~p~~~~~~-----~p~~F~C~~g~~CIp~~~vCDG~~DC~DGSDE~--~c--~~C~~~~F~C~ng~~~~~CI~~~~ 98 (166)
..|.++.....| ....++|..+..||...+.|||..||.+++||. .+ ..|...++.|.++ .|++..+
T Consensus 202 ~~~~d~~~~~~~~~~~~~~~~~~c~g~~~~i~~~~~~Dg~~dc~~~~de~~~~~~~~~~~~~e~~~~~~----~~~~~~~ 277 (877)
T KOG1215|consen 202 ADDYDESEGRIYWTDDSRIEVTRCDGSSRCILISEVCDGPRDCVDGPDEGVMNCSDATCEAPEIECADG----DCSDRQK 277 (877)
T ss_pred ccccccccCcccccCCcceeEEEecCCCcEEeehhccCCCcccccCCcCceeEeeccccCCcceeecCC----CCccceE
Confidence 344555555444 146789988668999999999999999999994 33 2677889999888 8999999
Q ss_pred ccCCCCCCCCCCCCCC
Q 031060 99 VNDRICDCCDGSDEYD 114 (166)
Q Consensus 99 vCDG~~DC~DGSDE~~ 114 (166)
.|||..||+||+||..
T Consensus 278 ~~~g~~d~pdg~de~~ 293 (877)
T KOG1215|consen 278 LCDGDLDCPDGLDEDY 293 (877)
T ss_pred EecCccCCCCcccccc
Confidence 9999999999999973
No 10
>KOG1215 consensus Low-density lipoprotein receptors containing Ca2+-binding EGF-like domains [Signal transduction mechanisms]
Probab=98.13 E-value=2e-06 Score=83.02 Aligned_cols=69 Identities=33% Similarity=0.539 Sum_probs=56.6
Q ss_pred CCceEeC--CCCceecCCCCCCCCCCCCCCCCCCCCcC------------------------C-----------------
Q 031060 41 KEVIKCK--DGSKSFTRDRLNDNFCDCIDGTDEPGTSA------------------------C----------------- 77 (166)
Q Consensus 41 p~~F~C~--~g~~CIp~~~vCDG~~DC~DGSDE~~c~~------------------------C----------------- 77 (166)
+.+|.|. +. +|||..|+|||..||.||+||..+.. |
T Consensus 140 ~~~~~c~~~~~-~Cip~~~~cd~~~~C~dg~de~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~d~~~~~~~~~~~~ 218 (877)
T KOG1215|consen 140 LDKFSCRTGSC-KCIPGDWLCDGEADCPDGSDELNCAVRRCEPRGASLDCIVAIKVCDIQHDCADDYDESEGRIYWTDDS 218 (877)
T ss_pred CCCCCCcCccc-cCCCCceeCCCCCccccchhhhcccccccCccccccccceeeeecCcccccccccccccCcccccCCc
Confidence 6789999 44 79999999999999999999987530 0
Q ss_pred CCCeeeecCCCCCceeccCCCccCCCCCCCCCCCCC
Q 031060 78 PAGKFYCGNVGSTPQFIFSSRVNDRICDCCDGSDEY 113 (166)
Q Consensus 78 ~~~~F~C~ng~~~~~CI~~~~vCDG~~DC~DGSDE~ 113 (166)
....++|.++. .||..++.|||..||.|++||.
T Consensus 219 ~~~~~~c~g~~---~~i~~~~~~Dg~~dc~~~~de~ 251 (877)
T KOG1215|consen 219 RIEVTRCDGSS---RCILISEVCDGPRDCVDGPDEG 251 (877)
T ss_pred ceeEEEecCCC---cEEeehhccCCCcccccCCcCc
Confidence 02456666542 8999999999999999999994
No 11
>PF12999 PRKCSH-like: Glucosidase II beta subunit-like
Probab=97.86 E-value=6.2e-06 Score=67.56 Aligned_cols=39 Identities=44% Similarity=0.732 Sum_probs=30.8
Q ss_pred CCeeeecCCCCCceeccCCCccCCCCCCCCCCCCCCCCCCCC
Q 031060 79 AGKFYCGNVGSTPQFIFSSRVNDRICDCCDGSDEYDSSIKCP 120 (166)
Q Consensus 79 ~~~F~C~ng~~~~~CI~~~~vCDG~~DC~DGSDE~~~~~~C~ 120 (166)
++.|+|-++.. .-|+.++++|++.||+|||||..+ ..|+
T Consensus 35 ~~~f~Cl~~~~--~~I~~~~iNDdyCDC~DGSDEPGT-sAC~ 73 (176)
T PF12999_consen 35 NGKFTCLDGSK--IVIPFSQINDDYCDCPDGSDEPGT-SACS 73 (176)
T ss_pred CCceEecCCCC--ceecHHHccCcceeCCCCCCcccc-ccCc
Confidence 46799998841 338999999999999999999853 2454
No 12
>KOG3509 consensus Basement membrane-specific heparan sulfate proteoglycan (HSPG) core protein [Posttranslational modification, protein turnover, chaperones]
Probab=95.27 E-value=0.02 Score=57.22 Aligned_cols=74 Identities=24% Similarity=0.334 Sum_probs=64.2
Q ss_pred cCCCCCceEeCCCCceecCCCCCCCCCCCCCCCCCCCCc------CCCCCeeeecCCCCCceeccCCCccCCCCCCCCCC
Q 031060 37 KYFSKEVIKCKDGSKSFTRDRLNDNFCDCIDGTDEPGTS------ACPAGKFYCGNVGSTPQFIFSSRVNDRICDCCDGS 110 (166)
Q Consensus 37 ~~~~p~~F~C~~g~~CIp~~~vCDG~~DC~DGSDE~~c~------~C~~~~F~C~ng~~~~~CI~~~~vCDG~~DC~DGS 110 (166)
+..+|++|+|.++ ++.-..+.||...+|.+++++.++. .|.+..+.|.+-- ++.+.+..|||..||.|++
T Consensus 30 ~~~~p~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~c~~~~---~~~~~~~~~~g~~~~~~~~ 105 (964)
T KOG3509|consen 30 SACSPNEFKCNNP-RCVQPEALLDADSTCGPNSTPSGCNAKPSASDCKPTETQCRDRL---RCNPQSFQCDGTNDCKDGS 105 (964)
T ss_pred ccCCcchhccCCc-cccCchhhhccccccCCCCCcCCccccccccccCCcccccccch---hcCCccccccCCCCCCccc
Confidence 4556899999998 7999999999999999999887752 5778889998762 7889999999999999999
Q ss_pred CCCC
Q 031060 111 DEYD 114 (166)
Q Consensus 111 DE~~ 114 (166)
+|..
T Consensus 106 ~~~~ 109 (964)
T KOG3509|consen 106 DEVG 109 (964)
T ss_pred hhcc
Confidence 9976
No 13
>KOG2397 consensus Protein kinase C substrate, 80 KD protein, heavy chain [Signal transduction mechanisms]
Probab=94.93 E-value=0.01 Score=55.31 Aligned_cols=58 Identities=26% Similarity=0.393 Sum_probs=43.0
Q ss_pred HHHHHhhhcCCcccCCCCCccCCCCCceEeCCCC---ceecCCCCCCCCCCCCCCCCCCCC
Q 031060 17 FLVVFVQCKSSLLGVHPLDEKYFSKEVIKCKDGS---KSFTRDRLNDNFCDCIDGTDEPGT 74 (166)
Q Consensus 17 ~~~~~~~~~~~~~Gv~p~~~~~~~p~~F~C~~g~---~CIp~~~vCDG~~DC~DGSDE~~c 74 (166)
|+-+....--.+-|++.---+.+..+.|.|.|.+ .-|+.+.|-||+.||=|||||...
T Consensus 56 f~qlNDd~CDC~DGsDEPGtsACpngkF~C~N~G~~p~~i~ssrV~DGICDCCDgSDE~~S 116 (480)
T KOG2397|consen 56 FSQLNDDSCDCLDGSDEPGTSACPNGKFYCVNQGHQPKYIPSSRVNDGICDCCDGSDEYLS 116 (480)
T ss_pred HHHhccccccCCCCCCCCccccCCCCceeeeecCCCceeeechhccCcccccccCCCCccC
Confidence 4555555555677876532345556889998643 679999999999999999999764
No 14
>PF07771 TSGP1: Tick salivary peptide group 1; InterPro: IPR011694 This entry contains a group of peptides derived from a salivary gland cDNA library of the tick Ixodes scapularis (Black-legged tick) []. Also present are peptides from a related tick species, Ixodes ricinus (Sheep tick). They are characterised by a putative signal peptide, indicative of secretion, and conserved cysteine residues.
Probab=85.79 E-value=2.4 Score=32.87 Aligned_cols=45 Identities=18% Similarity=0.149 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhcCCcccCCCCCccCCCCCceEeCC
Q 031060 3 MELLRNLIPLMSLCFLVVFVQCKSSLLGVHPLDEKYFSKEVIKCKD 48 (166)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~p~~~~~~~p~~F~C~~ 48 (166)
|.+.-++|+||.|.|+.. ++++..+.+.-|.....-+.-.|.|.+
T Consensus 1 m~~~~~~~vlv~la~~~~-~~~~~Cp~~~r~~~~~~~~~C~YYC~~ 45 (120)
T PF07771_consen 1 MGLTVVTLVLVSLAFFGS-AAAHGCPDKTRPASDTNREGCNYYCWN 45 (120)
T ss_pred CcceeehhhHHhHHhhhh-hhhhcCCCCCcCCCCCCCCCcEEEcCC
Confidence 566667788887744444 455667888776655443345688875
No 15
>KOG3509 consensus Basement membrane-specific heparan sulfate proteoglycan (HSPG) core protein [Posttranslational modification, protein turnover, chaperones]
Probab=65.37 E-value=4.5 Score=41.10 Aligned_cols=59 Identities=24% Similarity=0.363 Sum_probs=52.1
Q ss_pred eecCCCCCCCCCCCCCCCCCCCC----cCCCCCeeeecCCCCCceeccCCCccCCCCCCCCCCCCCC
Q 031060 52 SFTRDRLNDNFCDCIDGTDEPGT----SACPAGKFYCGNVGSTPQFIFSSRVNDRICDCCDGSDEYD 114 (166)
Q Consensus 52 CIp~~~vCDG~~DC~DGSDE~~c----~~C~~~~F~C~ng~~~~~CI~~~~vCDG~~DC~DGSDE~~ 114 (166)
|......|++..||.+.+|+.+. +.|.+++|.|.++ ++.-..+.||...+|.+++++.+
T Consensus 3 c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~ 65 (964)
T KOG3509|consen 3 CVKNRYACDRQPDCRDRSDVANDPAIGSACSPNEFKCNNP----RCVQPEALLDADSTCGPNSTPSG 65 (964)
T ss_pred hhhhhhhhccchhhHhhcccCCCccccccCCcchhccCCc----cccCchhhhccccccCCCCCcCC
Confidence 55667889999999999999875 3688999999998 89999999999999999997766
No 16
>PHA02637 TNF-alpha-receptor-like protein; Provisional
Probab=54.07 E-value=39 Score=26.65 Aligned_cols=19 Identities=26% Similarity=0.441 Sum_probs=10.0
Q ss_pred CCCCCCCCCCCCcCCCCCee
Q 031060 63 CDCIDGTDEPGTSACPAGKF 82 (166)
Q Consensus 63 ~DC~DGSDE~~c~~C~~~~F 82 (166)
.+|...+ ...|..|++++|
T Consensus 55 ~~Ct~~t-~T~C~PCp~GTY 73 (127)
T PHA02637 55 RLCDIKT-NTQCTPCGSGTF 73 (127)
T ss_pred CcCCCCC-CcccccCCCCCe
Confidence 5666433 233556666655
No 17
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=46.24 E-value=25 Score=26.71 Aligned_cols=23 Identities=17% Similarity=0.320 Sum_probs=13.1
Q ss_pred HHHHHHHHHhhhcCCcccCCCCC
Q 031060 13 MSLCFLVVFVQCKSSLLGVHPLD 35 (166)
Q Consensus 13 ~~~~~~~~~~~~~~~~~Gv~p~~ 35 (166)
++++|+.......+.-+|+.|-.
T Consensus 13 ~l~~~~~~~~~rRR~r~G~~P~~ 35 (130)
T PF12273_consen 13 LLFLFLFYCHNRRRRRRGLQPIY 35 (130)
T ss_pred HHHHHHHHHHHHHHhhcCCCCcC
Confidence 33344445555555666887764
No 18
>PF15284 PAGK: Phage-encoded virulence factor
Probab=44.40 E-value=22 Score=24.70 Aligned_cols=17 Identities=12% Similarity=0.059 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHh
Q 031060 6 LRNLIPLMSLCFLVVFV 22 (166)
Q Consensus 6 ~~~~~~~~~~~~~~~~~ 22 (166)
=++||+|++.+.++++.
T Consensus 5 ksifL~l~~~LsA~~FS 21 (61)
T PF15284_consen 5 KSIFLALVFILSAAGFS 21 (61)
T ss_pred HHHHHHHHHHHHHhhhh
Confidence 36777776655444433
No 19
>PF04885 Stig1: Stigma-specific protein, Stig1; InterPro: IPR006969 This family represents the Stig1 cysteine rich plant protein.The tobacco stigma-specific gene, STIG1 is developmentally regulated and expressed specifically in the stigmatic secretory zone. Pistils of transgenic STIG1-barnase tobacco plants undergo normal development, but lack the stigmatic secretory zone and are female sterile. Pollen grains are unable to penetrate the surface of the ablated pistils. Application of stigmatic exudate from wild-type pistils to the ablated surface increases the efficiency of pollen tube germination and growth and restores the capacity of pollen tubes to penetrate the style []. The function of STIG1 is unknown.
Probab=39.92 E-value=97 Score=24.49 Aligned_cols=29 Identities=28% Similarity=0.644 Sum_probs=16.5
Q ss_pred CCCC-CCCCCCCc----CCCCCeeeecCCCCCceeccCC
Q 031060 64 DCID-GTDEPGTS----ACPAGKFYCGNVGSTPQFIFSS 97 (166)
Q Consensus 64 DC~D-GSDE~~c~----~C~~~~F~C~ng~~~~~CI~~~ 97 (166)
.|-| ++|..+|. .|+.++.-| +| .|+...
T Consensus 76 ~Cvdv~~d~~nCG~Cg~~C~~g~~cC-~G----~Cvd~~ 109 (136)
T PF04885_consen 76 KCVDVSSDRNNCGACGNKCPYGQTCC-GG----QCVDLN 109 (136)
T ss_pred cCCccCCCccccHhhcCCCCCCceec-CC----EeECCC
Confidence 4666 45777664 465665444 44 677654
No 20
>PRK10301 hypothetical protein; Provisional
Probab=39.80 E-value=61 Score=24.74 Aligned_cols=37 Identities=14% Similarity=0.161 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhcCCcccCCCCCccCC
Q 031060 3 MELLRNLIPLMSLCFLVVFVQCKSSLLGVHPLDEKYF 39 (166)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~p~~~~~~ 39 (166)
|..++..+.|+...+++.+|.+|.....-.|+..+-.
T Consensus 5 ~~~~~~~~~~~~~~~~~~~A~AHa~l~~s~Pa~ga~v 41 (124)
T PRK10301 5 ARSLRYALAILTTSLVTPAVWAHAHLTHQYPAANAQV 41 (124)
T ss_pred hhHHHHHHHHHHHHHhhhhhhhcccccccCCCCCCcc
Confidence 4444433333333344556667877777788876544
No 21
>PRK10040 hypothetical protein; Provisional
Probab=35.58 E-value=58 Score=21.91 Aligned_cols=15 Identities=27% Similarity=0.565 Sum_probs=10.8
Q ss_pred CCCceEeCCCCceecCC
Q 031060 40 SKEVIKCKDGSKSFTRD 56 (166)
Q Consensus 40 ~p~~F~C~~g~~CIp~~ 56 (166)
..+.|.|.+|+ |+.+
T Consensus 32 ~g~~FvCnDGS--iS~S 46 (52)
T PRK10040 32 TGGKFVCNDGS--ISAS 46 (52)
T ss_pred cCCEEEeCCCc--hhhh
Confidence 46889999986 5543
No 22
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=33.90 E-value=32 Score=25.43 Aligned_cols=22 Identities=9% Similarity=0.161 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHhhhcCC
Q 031060 6 LRNLIPLMSLCFLVVFVQCKSS 27 (166)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~ 27 (166)
+..|+.|.+|+++++..++.+.
T Consensus 3 SK~~llL~l~LA~lLlisSeva 24 (95)
T PF07172_consen 3 SKAFLLLGLLLAALLLISSEVA 24 (95)
T ss_pred hhHHHHHHHHHHHHHHHHhhhh
Confidence 3444444444444444444443
No 23
>TIGR00847 ccoS cytochrome oxidase maturation protein, cbb3-type. CcoS from Rhodobacter capsulatus has been shown essential for incorporation of redox-active prosthetic groups (heme, Cu) into cytochrome cbb(3) oxidase. FixS of Bradyrhizobium japonicum appears to have the same function. Members of this family are found so far in organisms with a cbb3-type cytochrome oxidase, including Neisseria meningitidis, Helicobacter pylori, Campylobacter jejuni, Caulobacter crescentus, Bradyrhizobium japonicum, and Rhodobacter capsulatus.
Probab=28.84 E-value=65 Score=21.46 Aligned_cols=13 Identities=54% Similarity=0.784 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHH
Q 031060 3 MELLRNLIPLMSL 15 (166)
Q Consensus 3 ~~~~~~~~~~~~~ 15 (166)
|+++++++|+.++
T Consensus 1 M~il~~LIpiSl~ 13 (51)
T TIGR00847 1 MEILTILIPISLL 13 (51)
T ss_pred CchHHHHHHHHHH
Confidence 7788888888444
No 24
>PF07127 Nodulin_late: Late nodulin protein; InterPro: IPR009810 This family consists of several plant specific late nodulin sequences which are homologous to the Pisum sativum (Garden pea) ENOD3 protein. ENOD3 is expressed in the late stages of root nodule formation and contains two pairs of cysteine residues toward the proteins C terminus which may be involved in metal-binding [].; GO: 0046872 metal ion binding, 0009878 nodule morphogenesis
Probab=28.40 E-value=1.5e+02 Score=19.21 Aligned_cols=20 Identities=15% Similarity=0.328 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 031060 4 ELLRNLIPLMSLCFLVVFVQ 23 (166)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~ 23 (166)
+++..+-++++++|+.+.+.
T Consensus 3 ~ilKFvY~mIiflslflv~~ 22 (54)
T PF07127_consen 3 KILKFVYAMIIFLSLFLVVT 22 (54)
T ss_pred cchhhHHHHHHHHHHHHhhc
Confidence 34555566666555544443
No 25
>COG2165 PulG Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=26.52 E-value=68 Score=23.04 Aligned_cols=23 Identities=17% Similarity=0.234 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhc
Q 031060 3 MELLRNLIPLMSLCFLVVFVQCK 25 (166)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~ 25 (166)
++|+-++++|+++..+++++...
T Consensus 10 FTLiElLVvl~Iigil~~~~~p~ 32 (149)
T COG2165 10 FTLIELLVVLAIIGILAALALPS 32 (149)
T ss_pred cchHHHHHHHHHHHHHHHHHHhh
Confidence 57788888888876666655544
No 26
>PF07498 Rho_N: Rho termination factor, N-terminal domain; InterPro: IPR011112 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers []. This domain is found to the N terminus of the RNA binding domain (IPR011113 from INTERPRO).; GO: 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=21.70 E-value=53 Score=20.55 Aligned_cols=27 Identities=22% Similarity=0.257 Sum_probs=18.1
Q ss_pred hccccccccCCcccccccCCCCHHHHHHHh
Q 031060 135 SYISTINDAGSIDARGAKIPVNKEDLIERL 164 (166)
Q Consensus 135 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 164 (166)
..+..++...|+. .+-.+.+++||.++
T Consensus 8 ~eL~~iAk~lgI~---~~~~~~K~eLI~~I 34 (43)
T PF07498_consen 8 SELREIAKELGIE---GYSKMRKQELIFAI 34 (43)
T ss_dssp HHHHHHHHCTT-T---TGCCS-HHHHHHHH
T ss_pred HHHHHHHHHcCCC---CCCcCCHHHHHHHH
Confidence 5667778888876 45567789998764
No 27
>PF13721 SecD-TM1: SecD export protein N-terminal TM region
Probab=21.36 E-value=1.4e+02 Score=22.09 Aligned_cols=31 Identities=23% Similarity=0.329 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcCCcccCCCCCc
Q 031060 4 ELLRNLIPLMSLCFLVVFVQCKSSLLGVHPLDE 36 (166)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~Gv~p~~~ 36 (166)
-+|.+++.++.+.+....|.+. ..|-+|+-+
T Consensus 5 p~WKyllil~vl~~~~lyALPn--lyge~pAvq 35 (101)
T PF13721_consen 5 PLWKYLLILVVLLLGALYALPN--LYGEDPAVQ 35 (101)
T ss_pred chHHHHHHHHHHHHHHHHHhhh--ccCCCCcEE
Confidence 4788888777765666666554 777777754
Done!