Query 025785
Match_columns 248
No_of_seqs 188 out of 487
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 09:29:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025785.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025785hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1792 Reticulon [Intracellul 100.0 2E-57 4.3E-62 399.5 21.6 214 30-244 9-229 (230)
2 PF02453 Reticulon: Reticulon; 100.0 1.8E-37 3.9E-42 258.4 -7.2 163 62-224 1-169 (169)
3 PF04842 DUF639: Plant protein 97.2 0.0052 1.1E-07 61.9 12.6 136 61-202 505-650 (683)
4 KOG1792 Reticulon [Intracellul 93.7 0.3 6.5E-06 43.6 7.7 81 154-234 42-145 (230)
5 PF06398 Pex24p: Integral pero 92.1 2.1 4.7E-05 39.9 11.4 23 61-83 31-53 (359)
6 PF08372 PRT_C: Plant phosphor 91.2 1.4 3.1E-05 37.0 8.2 67 141-207 71-137 (156)
7 PF08372 PRT_C: Plant phosphor 83.4 1 2.2E-05 37.9 2.8 30 59-88 82-111 (156)
8 PF10112 Halogen_Hydrol: 5-bro 77.2 31 0.00066 29.5 10.0 72 168-240 15-97 (199)
9 COG0053 MMT1 Predicted Co/Zn/C 73.7 69 0.0015 29.5 12.0 52 163-215 159-212 (304)
10 PF10256 Erf4: Golgin subfamil 52.7 94 0.002 24.2 7.6 22 131-156 29-50 (118)
11 PF01484 Col_cuticle_N: Nemato 52.1 64 0.0014 21.2 5.7 14 194-207 15-28 (53)
12 PF07234 DUF1426: Protein of u 47.0 1.3E+02 0.0028 23.6 7.2 36 161-202 5-40 (117)
13 KOG3488 Dolichol phosphate-man 46.4 44 0.00095 24.6 4.2 35 154-188 38-72 (81)
14 KOG1726 HVA22/DP1 gene product 40.4 2.7E+02 0.0059 24.9 12.5 30 205-234 94-123 (225)
15 KOG1889 Putative phosphoinosit 39.1 81 0.0018 31.8 6.2 81 49-129 486-576 (579)
16 PRK15489 nfrB bacteriophage N4 38.1 3.3E+02 0.0071 28.4 10.7 28 179-206 444-475 (703)
17 COG3887 Predicted signaling pr 36.6 3.4E+02 0.0075 27.9 10.2 57 181-241 32-88 (655)
18 PRK06433 NADH dehydrogenase su 35.5 1.1E+02 0.0023 23.2 5.1 61 64-128 21-85 (88)
19 PF01594 UPF0118: Domain of un 35.1 3.3E+02 0.0072 24.3 12.4 21 173-193 130-150 (327)
20 COG1458 Predicted DNA-binding 33.9 78 0.0017 27.9 4.6 40 118-157 78-117 (221)
21 PF13198 DUF4014: Protein of u 33.9 1.5E+02 0.0032 21.8 5.3 27 193-219 37-63 (72)
22 PF11696 DUF3292: Protein of u 31.6 1.5E+02 0.0032 30.6 6.8 47 136-182 96-142 (642)
23 PF13994 PgaD: PgaD-like prote 31.4 2.4E+02 0.0052 22.7 7.0 11 130-140 110-120 (138)
24 PF00873 ACR_tran: AcrB/AcrD/A 29.6 7.3E+02 0.016 26.6 13.0 65 161-235 453-525 (1021)
25 PRK11677 hypothetical protein; 29.5 2.4E+02 0.0052 23.1 6.6 26 205-230 46-74 (134)
26 PF02453 Reticulon: Reticulon; 29.2 20 0.00043 29.1 0.2 28 61-88 99-126 (169)
27 PF13677 MotB_plug: Membrane M 24.3 1.7E+02 0.0037 20.2 4.2 22 182-203 20-41 (58)
28 KOG3747 Concentrative Na+-nucl 24.1 2.9E+02 0.0062 27.9 7.1 38 67-104 149-188 (602)
29 PHA02677 hypothetical protein; 23.7 1.6E+02 0.0034 23.3 4.2 32 186-217 5-36 (108)
30 KOG2628 Farnesyl cysteine-carb 23.6 3.8E+02 0.0083 23.5 7.1 62 170-239 137-199 (201)
31 COG5038 Ca2+-dependent lipid-b 23.5 3.3E+02 0.0072 30.1 7.9 52 163-216 157-208 (1227)
32 COG5038 Ca2+-dependent lipid-b 23.2 1.4E+02 0.0031 32.8 5.2 42 71-117 155-196 (1227)
33 KOG3873 Sphingomyelinase famil 23.0 4.4E+02 0.0095 25.6 7.9 52 168-219 346-400 (422)
34 PF11696 DUF3292: Protein of u 22.7 81 0.0017 32.4 3.2 51 36-87 90-140 (642)
35 PF05062 RICH: RICH domain; I 22.1 1.7E+02 0.0037 22.1 4.0 25 204-228 4-28 (82)
36 PHA02680 ORF090 IMV phosphoryl 21.7 3.2E+02 0.007 20.9 5.5 33 78-110 21-62 (91)
37 PF06363 Picorna_P3A: Picornav 21.4 3.9E+02 0.0085 20.7 6.3 51 131-193 41-91 (100)
38 PF04298 Zn_peptidase_2: Putat 21.1 6E+02 0.013 22.7 9.9 106 64-192 108-218 (222)
39 COG2928 Uncharacterized conser 20.8 6E+02 0.013 22.7 7.9 10 229-238 86-95 (222)
40 PF06881 Elongin_A: RNA polyme 20.3 1.7E+02 0.0037 22.6 4.0 33 199-231 64-96 (109)
No 1
>KOG1792 consensus Reticulon [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2e-57 Score=399.53 Aligned_cols=214 Identities=43% Similarity=0.787 Sum_probs=205.6
Q ss_pred CCcccc---ccchhccccCCCCCCcccccccCCCcccccccccccchhHHHHHHHHHHHHHHHHhccchHHHHHHHHHHH
Q 025785 30 FFEEET---SSSVTARFNRLFGRQKPVHHLLGGGKSADVLLWRNKKISASVLMGATAIWVLFEWLNYHFLTIVCFALVLG 106 (248)
Q Consensus 30 ~~~~~~---~~~~~~~~~r~f~r~~~~h~~lgggk~aDlLlWrn~k~Sg~vl~~~t~~w~Lf~~~~yslltlvs~illl~ 106 (248)
|+++++ ++ .+++.+|+|+|++|+|+++|||+++|+++|||++.||++|++++++|++|+..+|+.+|++|++++++
T Consensus 9 ~~~~~~~~~~s-~~~~~~rlf~~~~~v~~~lg~~~vaDlllWrdkk~s~~vl~~~~~~w~lf~~~~~~~vt~~~~i~ll~ 87 (230)
T KOG1792|consen 9 NSESEKLKFTS-AIEKSSRLFGREGPVHKVLGGGKVADLLLWRDKKKSGTVLGVATALWLLFEFFSYNSVTLLCHILLLA 87 (230)
T ss_pred ccccccccccc-ccchhccccCCCccccccCCCCchhheeeeeccccceeehHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence 777776 33 67889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhcC-CCC--CCC-ceecCHHHHHHHHHHHHHHHHHHHHHhhhHhcccchHHHHHHHHHHHHHHHHHH
Q 025785 107 MLAQFFWVNISGLFNR-SPS--KVP-RFVLPPEVFANIGTTVCANVNEALGLLQDISCGGKLKQLLVAVASLWVAAVIGS 182 (248)
Q Consensus 107 l~~lFl~s~~~~~~~k-~~~--~~p-~~~isee~v~~~a~~v~~~iN~~l~~lr~i~~g~d~~~~lkv~~~L~vls~vGs 182 (248)
+.+.|.|++...++|| ++| ..| ++++|||.+++.+.+++.++|+.+..+|++++|||++.|++++++||++|++|+
T Consensus 88 ~~i~F~w~~~~~~~~k~~~~~~~lp~~i~ipee~~~~~a~~~~~~in~~l~~l~~ia~~~d~~~~lk~~v~lw~lS~vGs 167 (230)
T KOG1792|consen 88 LAILFLWSKAVTFLNKKSEPGAYLPVEITIPEEFVLALASSLRVEINQALSELRDIALGRDLKDFLKVAVGLWILSYVGS 167 (230)
T ss_pred HHHHHHHHHHHHHHhcCCCccccCCceeecCHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHH
Confidence 9999999999998888 566 688 999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCC
Q 025785 183 WCNLLTVLYIGFVAAHTLPVLYEKHEDKVDSFLNNVFQQLQNQYKKLDSGFLSKIPKGKFKG 244 (248)
Q Consensus 183 ~~s~lTLl~i~~v~~fTvP~lYekyqd~ID~~~~~~~~~i~~~y~~~~~kv~~kiP~~~~k~ 244 (248)
|||++||+|+|++++||+|++||+|||+||++++++..+++++|+++|+|+++|||+++.+.
T Consensus 168 ~fn~lTll~ig~v~~~TvP~~YEky~d~ID~~~~~~~~~~k~~~~~~~~k~l~kip~~~~~~ 229 (230)
T KOG1792|consen 168 LFNFLTLLYIGLVLLFTVPVLYEKYEDQIDPYLGKVMEELKKHYRKFDEKVLSKIPAGPRKK 229 (230)
T ss_pred hhhHHHHHHHHHHHHhcccchhHHhHHHHhHHHHHHHHHHHHHHHHHHHHHhhcCCCccccC
Confidence 99999999999999999999999999999999999999999999999999999999998664
No 2
>PF02453 Reticulon: Reticulon; InterPro: IPR003388 Eukaryotic proteins of the reticulon (RTN) family all share an association with the endoplasmic reticulum (ER). Whereas amino-terminal regions are not related to one another, all reticulon proteins share a 200 amino acid residue region of sequence similarity at the C-terminal. This region contains two large hydrophobic regions separated by a 66 residue hydrophilic segment. The conserved hydrophobic C-terminal portion has been shown to play an essential role in the association of reticulons with the ER membrane. The hydrophobic portions are supposed to be membrane-embedded and the hydrophilic 66 residue localized to the lumenal/extracellular face of the membrane. Most reticulons have a di-lysine ER retention motif at the C-terminal. Because of their likely association with the rough as well as the smooth ER, the reticulons might play some role in transport processes or in regulation of intracellular calcium levels. It has been suggested that the reticulons may be serving as ER-associated channel-like complexes [, , , ].; GO: 0005783 endoplasmic reticulum; PDB: 2KO2_A 2JV5_A 2G31_A.
Probab=100.00 E-value=1.8e-37 Score=258.40 Aligned_cols=163 Identities=29% Similarity=0.581 Sum_probs=48.0
Q ss_pred ccccccccccchhHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHhhhcCCC------CCCCceecCHH
Q 025785 62 SADVLLWRNKKISASVLMGATAIWVLFEWLNYHFLTIVCFALVLGMLAQFFWVNISGLFNRSP------SKVPRFVLPPE 135 (248)
Q Consensus 62 ~aDlLlWrn~k~Sg~vl~~~t~~w~Lf~~~~yslltlvs~illl~l~~lFl~s~~~~~~~k~~------~~~p~~~isee 135 (248)
++|+++||||+.||.+|++++++|++++++++|++|++|+++++.+++.+++.....++++.+ ++.++.++|||
T Consensus 1 V~dll~W~~~~~S~~v~~~~~~~~~l~~~~~~s~is~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (169)
T PF02453_consen 1 VADLLLWRDPKKSGIVFGAILLFWLLFWLFNYSLISLVSYILLLLLAISFLYRLLSKVLSRSPKGPFKEPLDYDLEISEE 80 (169)
T ss_dssp ----------------------------------------------------THCCCTCCHHHHCTTHHHHCHHHHHCCH
T ss_pred CceeeEecCCCchHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCccCCccccccccHH
Confidence 589999999999999999999999999999999999999999999999999887777777754 34457899999
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhHhcccchHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhChhHHHHHH
Q 025785 136 VFANIGTTVCANVNEALGLLQDISCGGKLKQLLVAVASLWVAAVIGSWCNLLTVLYIGFVAAHTLPVLYEKHEDKVDSFL 215 (248)
Q Consensus 136 ~v~~~a~~v~~~iN~~l~~lr~i~~g~d~~~~lkv~~~L~vls~vGs~~s~lTLl~i~~v~~fTvP~lYekyqd~ID~~~ 215 (248)
.++++++.+.+.+|..+..+|+++.++|++.+++++++||+++++|+++|++||+|++++++||+|.+||+||++||+++
T Consensus 81 ~~~~~~~~~~~~~n~~~~~~~~l~~~~~~~~~l~~~~~l~~l~~lg~~~s~~~L~~l~~~~~f~~P~ly~~~~~~Id~~~ 160 (169)
T PF02453_consen 81 RVERLADSVAEWINSVLSWLRRLVFGEDPKKSLKVFVVLYILSFLGSWFSFLTLLYLGVLGAFTVPKLYEKYQEEIDQYV 160 (169)
T ss_dssp HHHHHHHHCCCCCCHHHHHHHCCCHCT-TTGGG-----------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHH
Q 025785 216 NNVFQQLQN 224 (248)
Q Consensus 216 ~~~~~~i~~ 224 (248)
+++++++||
T Consensus 161 ~~~~~~~~k 169 (169)
T PF02453_consen 161 AKVKEKVKK 169 (169)
T ss_dssp ---------
T ss_pred HHHHHHhcC
Confidence 988888764
No 3
>PF04842 DUF639: Plant protein of unknown function (DUF639); InterPro: IPR006927 The sequences in this family are plant proteins of unknown function.
Probab=97.20 E-value=0.0052 Score=61.88 Aligned_cols=136 Identities=13% Similarity=0.095 Sum_probs=91.5
Q ss_pred cccccccccccchhHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHhhhc--------CCCCCCC--ce
Q 025785 61 KSADVLLWRNKKISASVLMGATAIWVLFEWLNYHFLTIVCFALVLGMLAQFFWVNISGLFN--------RSPSKVP--RF 130 (248)
Q Consensus 61 k~aDlLlWrn~k~Sg~vl~~~t~~w~Lf~~~~yslltlvs~illl~l~~lFl~s~~~~~~~--------k~~~~~p--~~ 130 (248)
.+.++..|+||.+|..+++..+. .++. ..+.-+.-..++.+++..+|.....-.+ +.||+.. +-
T Consensus 505 ~~~~l~~We~P~kt~~Fl~~~~~--iI~r----~wl~Y~~p~~Ll~~a~~Ml~~r~~~~~g~~~~~v~V~~pP~~nTvEq 578 (683)
T PF04842_consen 505 WLQKLASWEEPLKTLVFLALFLY--IIYR----GWLGYIFPAFLLFSAVFMLWLRYQGRLGKSFGEVTVRDPPPKNTVEQ 578 (683)
T ss_pred HHHHHhhccCcchhHHHHHHHHH--HHHH----HHHHHHHHHHHHHHHHHHHHHHhhhccCCccceEEecCCCCccHHHH
Confidence 46789999999999998887775 3322 2222222223333444445533221111 1222211 11
Q ss_pred ecCHHHHHHHHHHHHHHHHHHHHHhhhHhcccchHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 025785 131 VLPPEVFANIGTTVCANVNEALGLLQDISCGGKLKQLLVAVASLWVAAVIGSWCNLLTVLYIGFVAAHTLPV 202 (248)
Q Consensus 131 ~isee~v~~~a~~v~~~iN~~l~~lr~i~~g~d~~~~lkv~~~L~vls~vGs~~s~lTLl~i~~v~~fTvP~ 202 (248)
.+.=.....-++......|-++-++|.|++...++.+-+|++.|..++.+-..+.+--++...++-.||-..
T Consensus 579 ilalQ~Ais~~E~~iQ~~NI~LLKiRsllls~~PqaT~~Va~~Ll~~A~~LavvP~kyil~~v~l~~FTre~ 650 (683)
T PF04842_consen 579 ILALQEAISQLEEYIQAANIVLLKIRSLLLSKFPQATNKVALALLGLAAVLAVVPFKYILLFVFLEVFTRES 650 (683)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 222233334466777889999999999999999999999999999999999999999999999998888643
No 4
>KOG1792 consensus Reticulon [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.75 E-value=0.3 Score=43.58 Aligned_cols=81 Identities=11% Similarity=0.054 Sum_probs=66.4
Q ss_pred HhhhHhcccchHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhC-----------------------hhH
Q 025785 154 LLQDISCGGKLKQLLVAVASLWVAAVIGSWCNLLTVLYIGFVAAHTLPVLYEKH-----------------------EDK 210 (248)
Q Consensus 154 ~lr~i~~g~d~~~~lkv~~~L~vls~vGs~~s~lTLl~i~~v~~fTvP~lYeky-----------------------qd~ 210 (248)
...+++.+||.+.++.+..+..++..+-.+++..++..++.+++++++.+|.++ |+.
T Consensus 42 ~vaDlllWrdkk~s~~vl~~~~~~w~lf~~~~~~~vt~~~~i~ll~~~i~F~w~~~~~~~~k~~~~~~~lp~~i~ipee~ 121 (230)
T KOG1792|consen 42 KVADLLLWRDKKKSGTVLGVATALWLLFEFFSYNSVTLLCHILLLALAILFLWSKAVTFLNKKSEPGAYLPVEITIPEEF 121 (230)
T ss_pred chhheeeeeccccceeehHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCCceeecCHHH
Confidence 467899999999999999999888888888888888888888888887776655 567
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 025785 211 VDSFLNNVFQQLQNQYKKLDSGFL 234 (248)
Q Consensus 211 ID~~~~~~~~~i~~~y~~~~~kv~ 234 (248)
++++...+..+++...+++.+-.+
T Consensus 122 ~~~~a~~~~~~in~~l~~l~~ia~ 145 (230)
T KOG1792|consen 122 VLALASSLRVEINQALSELRDIAL 145 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 778888888888887777765433
No 5
>PF06398 Pex24p: Integral peroxisomal membrane peroxin; InterPro: IPR010482 Peroxisomes play diverse roles in the cell, compartmentalising many activities related to lipid metabolism and functioning in the decomposition of toxic hydrogen peroxide. Sequence similarity was identified between two hypothetical proteins and the peroxin integral membrane protein Pex24p [].
Probab=92.08 E-value=2.1 Score=39.92 Aligned_cols=23 Identities=26% Similarity=0.378 Sum_probs=17.9
Q ss_pred cccccccccccchhHHHHHHHHH
Q 025785 61 KSADVLLWRNKKISASVLMGATA 83 (248)
Q Consensus 61 k~aDlLlWrn~k~Sg~vl~~~t~ 83 (248)
.+.++++|+||..+-.++...+.
T Consensus 31 ~vl~il~W~~p~~t~~~L~l~t~ 53 (359)
T PF06398_consen 31 RVLRILTWTNPDYTLSFLLLYTF 53 (359)
T ss_pred HHHHeEEeCCCCcchHHHHHHHH
Confidence 35689999999988877666664
No 6
>PF08372 PRT_C: Plant phosphoribosyltransferase C-terminal; InterPro: IPR013583 This domain is found at the C terminus of phosphoribosyltransferases and phosphoribosyltransferase-like proteins. It contains putative transmembrane regions. It often appears together with calcium-ion dependent C2 domains (IPR000008 from INTERPRO).
Probab=91.22 E-value=1.4 Score=37.04 Aligned_cols=67 Identities=16% Similarity=0.024 Sum_probs=54.3
Q ss_pred HHHHHHHHHHHHHHhhhHhcccchHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhC
Q 025785 141 GTTVCANVNEALGLLQDISCGGKLKQLLVAVASLWVAAVIGSWCNLLTVLYIGFVAAHTLPVLYEKH 207 (248)
Q Consensus 141 a~~v~~~iN~~l~~lr~i~~g~d~~~~lkv~~~L~vls~vGs~~s~lTLl~i~~v~~fTvP~lYeky 207 (248)
++.+...+....+.++.++.++|...+..+++++++.+++--+..+..++++..+-.++=|.+-.++
T Consensus 71 vQ~vlgd~At~gERl~allsWrdP~aT~lf~~~clv~avvly~vP~r~l~l~~gly~~r~P~~R~~~ 137 (156)
T PF08372_consen 71 VQNVLGDVATQGERLQALLSWRDPRATALFVVFCLVAAVVLYFVPFRVLVLIWGLYKLRHPRFRNPL 137 (156)
T ss_pred HHHHHHHHHHHHHHHHHhhccCCccHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCccccCCC
Confidence 4455556667778999999999999999999999999998888888888888777777777765533
No 7
>PF08372 PRT_C: Plant phosphoribosyltransferase C-terminal; InterPro: IPR013583 This domain is found at the C terminus of phosphoribosyltransferases and phosphoribosyltransferase-like proteins. It contains putative transmembrane regions. It often appears together with calcium-ion dependent C2 domains (IPR000008 from INTERPRO).
Probab=83.43 E-value=1 Score=37.92 Aligned_cols=30 Identities=20% Similarity=0.381 Sum_probs=23.5
Q ss_pred CCcccccccccccchhHHHHHHHHHHHHHH
Q 025785 59 GGKSADVLLWRNKKISASVLMGATAIWVLF 88 (248)
Q Consensus 59 ggk~aDlLlWrn~k~Sg~vl~~~t~~w~Lf 88 (248)
|.++..++.||||..|++..++.+++-+.+
T Consensus 82 gERl~allsWrdP~aT~lf~~~clv~avvl 111 (156)
T PF08372_consen 82 GERLQALLSWRDPRATALFVVFCLVAAVVL 111 (156)
T ss_pred HHHHHHhhccCCccHHHHHHHHHHHHHHHH
Confidence 457899999999999998887776643333
No 8
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=77.15 E-value=31 Score=29.50 Aligned_cols=72 Identities=13% Similarity=0.286 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhChhHH-----------HHHHHHHHHHHHHHHHHHHHHHHhc
Q 025785 168 LVAVASLWVAAVIGSWCNLLTVLYIGFVAAHTLPVLYEKHEDKV-----------DSFLNNVFQQLQNQYKKLDSGFLSK 236 (248)
Q Consensus 168 lkv~~~L~vls~vGs~~s~lTLl~i~~v~~fTvP~lYekyqd~I-----------D~~~~~~~~~i~~~y~~~~~kv~~k 236 (248)
.-+++..|+++++|.-.+++--+.++.++.+.+.....+++..- .+++.....+.++++++++ +...+
T Consensus 15 ~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~k~~~~~gls~~e~~~~~~~l~ea~~~i~~i~-~~~~~ 93 (199)
T PF10112_consen 15 VLIAAITFLVSFFGFDHSFLLSLLIGAVAFAVVYLFGKRRQRRKFLKEAGLSDREYEYIREILEEAKEKIRRIE-KAIKR 93 (199)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhcccccchhHhhhcCCChhHHHHHHHHHHHHHHHHHHHH-HHHHH
Confidence 33455667777777666666666666666666555554443222 2456667777777777776 34556
Q ss_pred CCCC
Q 025785 237 IPKG 240 (248)
Q Consensus 237 iP~~ 240 (248)
|+..
T Consensus 94 i~~~ 97 (199)
T PF10112_consen 94 IRDL 97 (199)
T ss_pred cCCH
Confidence 6653
No 9
>COG0053 MMT1 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]
Probab=73.67 E-value=69 Score=29.50 Aligned_cols=52 Identities=21% Similarity=0.351 Sum_probs=35.2
Q ss_pred chHHHHHHHHHHHHHHHHH-HhhHHHHHHHHHHHHHHHHH-HHHHhChhHHHHHH
Q 025785 163 KLKQLLVAVASLWVAAVIG-SWCNLLTVLYIGFVAAHTLP-VLYEKHEDKVDSFL 215 (248)
Q Consensus 163 d~~~~lkv~~~L~vls~vG-s~~s~lTLl~i~~v~~fTvP-~lYekyqd~ID~~~ 215 (248)
|...++.+++++- ..+.| -|.....=+.+++.++.+.- .++|.....+|+-+
T Consensus 159 D~~ts~~~lvgl~-~~~~g~~~lD~i~a~~I~~~Il~~~~~~~~~s~~~L~d~~~ 212 (304)
T COG0053 159 DVLTSLAVLVGLL-GSLLGWPWLDPLAALLISLYILKTGFRLFKESVNELMDAAL 212 (304)
T ss_pred HHHHHHHHHHHHH-HHHhCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCC
Confidence 7777888888777 77778 56666666666666665554 66677777777433
No 10
>PF10256 Erf4: Golgin subfamily A member 7/ERF4 family; InterPro: IPR019383 Proteins in this entry include Golgin subfamily A member 7 and the Ras modification protein ERF4.
Probab=52.72 E-value=94 Score=24.15 Aligned_cols=22 Identities=27% Similarity=0.351 Sum_probs=14.8
Q ss_pred ecCHHHHHHHHHHHHHHHHHHHHHhh
Q 025785 131 VLPPEVFANIGTTVCANVNEALGLLQ 156 (248)
Q Consensus 131 ~isee~v~~~a~~v~~~iN~~l~~lr 156 (248)
.||+++.+++. ..+|..+....
T Consensus 29 ~is~~ef~~iI----~~IN~~l~~a~ 50 (118)
T PF10256_consen 29 YISPEEFEEII----NTINQILKEAF 50 (118)
T ss_pred CCCHHHHHHHH----HHHHHHHHHHh
Confidence 38888887655 46777766553
No 11
>PF01484 Col_cuticle_N: Nematode cuticle collagen N-terminal domain; InterPro: IPR002486 The function of this domain is unknown. It is found in the N-terminal region of nematode cuticle collagens (see IPR008160 from INTERPRO). Cuticle is a tough elastic structure secreted by hypodermal cells and is primarily composed of collagen proteins [, ].; GO: 0042302 structural constituent of cuticle
Probab=52.06 E-value=64 Score=21.16 Aligned_cols=14 Identities=21% Similarity=0.449 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHhC
Q 025785 194 FVAAHTLPVLYEKH 207 (248)
Q Consensus 194 ~v~~fTvP~lYeky 207 (248)
+.+++++|.+|..=
T Consensus 15 ~~~l~~~p~i~~~i 28 (53)
T PF01484_consen 15 LSCLITVPSIYNDI 28 (53)
T ss_pred HHHHHHHHHHHHHH
Confidence 55688899998753
No 12
>PF07234 DUF1426: Protein of unknown function (DUF1426); InterPro: IPR009871 This family consists of several Banana bunchy top virus proteins of around 120 residues in length. Q9IGU4 from SWISSPROT is annotated a movement protein whereas most other family members are hypothetical. The function of this family is unknown.
Probab=47.00 E-value=1.3e+02 Score=23.61 Aligned_cols=36 Identities=19% Similarity=0.287 Sum_probs=26.3
Q ss_pred ccchHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Q 025785 161 GGKLKQLLVAVASLWVAAVIGSWCNLLTVLYIGFVAAHTLPV 202 (248)
Q Consensus 161 g~d~~~~lkv~~~L~vls~vGs~~s~lTLl~i~~v~~fTvP~ 202 (248)
++..+.|+..+. ++|..|--.|++||...++|-+|+
T Consensus 5 tERVKlfFEwFL------F~~AIFiAItIlYILLalL~EvPk 40 (117)
T PF07234_consen 5 TERVKLFFEWFL------FFGAIFIAITILYILLALLFEVPK 40 (117)
T ss_pred HHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHhhHH
Confidence 344555554322 457777788999999999999997
No 13
>KOG3488 consensus Dolichol phosphate-mannose regulatory protein (DPM2) [Posttranslational modification, protein turnover, chaperones]
Probab=46.40 E-value=44 Score=24.64 Aligned_cols=35 Identities=14% Similarity=0.311 Sum_probs=28.8
Q ss_pred HhhhHhcccchHHHHHHHHHHHHHHHHHHhhHHHH
Q 025785 154 LLQDISCGGKLKQLLVAVASLWVAAVIGSWCNLLT 188 (248)
Q Consensus 154 ~lr~i~~g~d~~~~lkv~~~L~vls~vGs~~s~lT 188 (248)
..+..++-|++-...-++++++.+..+|-++|...
T Consensus 38 iihKyFLpr~yAi~iPvaagl~ll~lig~Fis~vM 72 (81)
T KOG3488|consen 38 IIHKYFLPREYAITIPVAAGLFLLCLIGTFISLVM 72 (81)
T ss_pred HHHHHhcChhHHhhhHHHHHHHHHHHHHHHHHHHh
Confidence 45667788888888999999999999998876643
No 14
>KOG1726 consensus HVA22/DP1 gene product-related proteins [Defense mechanisms]
Probab=40.36 E-value=2.7e+02 Score=24.87 Aligned_cols=30 Identities=20% Similarity=0.298 Sum_probs=21.8
Q ss_pred HhChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025785 205 EKHEDKVDSFLNNVFQQLQNQYKKLDSGFL 234 (248)
Q Consensus 205 ekyqd~ID~~~~~~~~~i~~~y~~~~~kv~ 234 (248)
.+||++||+++.+++...-++...+-.|.+
T Consensus 94 s~~E~eid~~l~~~k~~~~~~a~~~~~r~l 123 (225)
T KOG1726|consen 94 SKHEEEIDRMLVEAKERVYDAAVSILKRAL 123 (225)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467999999999988877666555444444
No 15
>KOG1889 consensus Putative phosphoinositide phosphatase [Lipid transport and metabolism]
Probab=39.13 E-value=81 Score=31.78 Aligned_cols=81 Identities=11% Similarity=0.095 Sum_probs=50.8
Q ss_pred CCcccccccCCCccccccc----------ccccchhHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHh
Q 025785 49 RQKPVHHLLGGGKSADVLL----------WRNKKISASVLMGATAIWVLFEWLNYHFLTIVCFALVLGMLAQFFWVNISG 118 (248)
Q Consensus 49 r~~~~h~~lgggk~aDlLl----------Wrn~k~Sg~vl~~~t~~w~Lf~~~~yslltlvs~illl~l~~lFl~s~~~~ 118 (248)
||++..-+||+=.+.+... |+--...++.+.+.+.+-+-+.+..-+++-.+.+..++++...+++.+..+
T Consensus 486 rQDsiDL~lG~f~v~~s~s~~~pl~~~~~~~~~~~p~i~lva~~m~~is~l~~~~~l~~~l~w~~~~~~s~~~i~~~g~~ 565 (579)
T KOG1889|consen 486 RQDSIDLFLGNFRVDVSRSDLSPLPLRRGLYILAAPIIFLVALSMFIISLLFSTPNLLYRLFWFAIMVVSIAVILINGDQ 565 (579)
T ss_pred ccchHHHhcCCcccccccccCCCcccccCceeehhhHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHhheechHH
Confidence 8889998998887777764 554444333444333311222222356666666666666666677777888
Q ss_pred hhcCCCCCCCc
Q 025785 119 LFNRSPSKVPR 129 (248)
Q Consensus 119 ~~~k~~~~~p~ 129 (248)
++||+-...|.
T Consensus 566 fvnwPrl~~p~ 576 (579)
T KOG1889|consen 566 FVNWPRLVLPQ 576 (579)
T ss_pred hcCCccccCcc
Confidence 99998766664
No 16
>PRK15489 nfrB bacteriophage N4 adsorption protein B; Provisional
Probab=38.13 E-value=3.3e+02 Score=28.39 Aligned_cols=28 Identities=21% Similarity=0.434 Sum_probs=15.5
Q ss_pred HHHHhhHHHHHHHHHHHHH----HHHHHHHHh
Q 025785 179 VIGSWCNLLTVLYIGFVAA----HTLPVLYEK 206 (248)
Q Consensus 179 ~vGs~~s~lTLl~i~~v~~----fTvP~lYek 206 (248)
.+||++||...+---...+ ..=|...+|
T Consensus 444 ~~~n~in~~a~~ra~~~~~~~~~~~~~~~wdk 475 (703)
T PRK15489 444 VVGNFINFMAVCRAWRIFLIYLVTGKPIVWDK 475 (703)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcccCCCccccc
Confidence 4788888877654322222 344555554
No 17
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=36.57 E-value=3.4e+02 Score=27.88 Aligned_cols=57 Identities=19% Similarity=0.237 Sum_probs=31.3
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHhChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCC
Q 025785 181 GSWCNLLTVLYIGFVAAHTLPVLYEKHEDKVDSFLNNVFQQLQNQYKKLDSGFLSKIPKGK 241 (248)
Q Consensus 181 Gs~~s~lTLl~i~~v~~fTvP~lYekyqd~ID~~~~~~~~~i~~~y~~~~~kv~~kiP~~~ 241 (248)
|+|.+...++.+++.+.|.+-..+.-||+..-.+++ .++.|.+..-+..+-..|-|-
T Consensus 32 ~~~l~~i~~l~~~~~~i~~l~~~~~~~~~~~~~~i~----~ls~~~~~~~~~al~nmPiGi 88 (655)
T COG3887 32 NWWLSAIAVLLLVVFLIFLLLAFTLFYQDSDQNYIS----YLSYQAEKSLEEALTNMPIGI 88 (655)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhCCceE
Confidence 334344444444444444444444444444434555 666677777777888888873
No 18
>PRK06433 NADH dehydrogenase subunit J; Provisional
Probab=35.50 E-value=1.1e+02 Score=23.23 Aligned_cols=61 Identities=26% Similarity=0.193 Sum_probs=32.5
Q ss_pred ccccccccchhHHHHHHHHHHH-HHHHHhccchHH---HHHHHHHHHHHHHHHHHHHHhhhcCCCCCCC
Q 025785 64 DVLLWRNKKISASVLMGATAIW-VLFEWLNYHFLT---IVCFALVLGMLAQFFWVNISGLFNRSPSKVP 128 (248)
Q Consensus 64 DlLlWrn~k~Sg~vl~~~t~~w-~Lf~~~~ysllt---lvs~illl~l~~lFl~s~~~~~~~k~~~~~p 128 (248)
-++.+||+-.|+..++.....- .+|.+.+..++. ++=|++.+....+|. . ..+++.+.+.|
T Consensus 21 ~vv~~kn~v~svl~l~~~~~~~a~l~~lL~a~fvA~~qi~VYaGai~vLflF~--i--ml~~~~~~~~~ 85 (88)
T PRK06433 21 GVVLSRDVWHSALYLGVALFSVAVLYVMLNAEFLAAVQVLVYVGAVLILITFA--V--MLTKGEEGEES 85 (88)
T ss_pred HHHHhcchHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHH--H--HHcCcccccCC
Confidence 3577899999988776543322 334455666654 444555444433443 2 23455444433
No 19
>PF01594 UPF0118: Domain of unknown function DUF20; InterPro: IPR002549 This is a family of hypothetical proteins. A number of the sequence records state they are transmembrane proteins or putative permeases. It is not clear what source suggested that these proteins might be permeases and this information should be treated with caution.
Probab=35.06 E-value=3.3e+02 Score=24.33 Aligned_cols=21 Identities=19% Similarity=0.145 Sum_probs=9.1
Q ss_pred HHHHHHHHHHhhHHHHHHHHH
Q 025785 173 SLWVAAVIGSWCNLLTVLYIG 193 (248)
Q Consensus 173 ~L~vls~vGs~~s~lTLl~i~ 193 (248)
.-++.+.+++..++..=+.+.
T Consensus 130 ~~~~~~~~~~~~~~l~~~~i~ 150 (327)
T PF01594_consen 130 LSSLSSFISSIFSFLFNFFIF 150 (327)
T ss_pred HHHHHHHHHhhhhHHHHHHHH
Confidence 344445555544443333333
No 20
>COG1458 Predicted DNA-binding protein containing PIN domain [General function prediction only]
Probab=33.95 E-value=78 Score=27.90 Aligned_cols=40 Identities=10% Similarity=0.235 Sum_probs=32.9
Q ss_pred hhhcCCCCCCCceecCHHHHHHHHHHHHHHHHHHHHHhhh
Q 025785 118 GLFNRSPSKVPRFVLPPEVFANIGTTVCANVNEALGLLQD 157 (248)
Q Consensus 118 ~~~~k~~~~~p~~~isee~v~~~a~~v~~~iN~~l~~lr~ 157 (248)
..+-+.+|+..++.||-+.+.+.+..++..+|+++....+
T Consensus 78 twivkKtPnryevkiPa~ifyeyV~diR~RinkGlRvAE~ 117 (221)
T COG1458 78 TWIVKKTPNRYEVKIPAAIFYEYVEDIRERINKGLRVAEE 117 (221)
T ss_pred eeeEecCCCceeecCcHHHHHHHHHHHHHHHHhhhhhHHH
Confidence 3455566777799999999999999999999999876554
No 21
>PF13198 DUF4014: Protein of unknown function (DUF4014)
Probab=33.92 E-value=1.5e+02 Score=21.84 Aligned_cols=27 Identities=15% Similarity=0.170 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHhChhHHHHHHHHHH
Q 025785 193 GFVAAHTLPVLYEKHEDKVDSFLNNVF 219 (248)
Q Consensus 193 ~~v~~fTvP~lYekyqd~ID~~~~~~~ 219 (248)
...+..++-.+.|+|.+.+-....+..
T Consensus 37 ~~~i~~~~E~l~e~Y~~~~w~~F~~Lh 63 (72)
T PF13198_consen 37 VWIIGKIIEPLFELYKDWFWNPFNALH 63 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHh
Confidence 344445555566666655554444333
No 22
>PF11696 DUF3292: Protein of unknown function (DUF3292); InterPro: IPR021709 This eukaryotic family of proteins has no known function.
Probab=31.59 E-value=1.5e+02 Score=30.57 Aligned_cols=47 Identities=9% Similarity=0.084 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhHhcccchHHHHHHHHHHHHHHHHHH
Q 025785 136 VFANIGTTVCANVNEALGLLQDISCGGKLKQLLVAVASLWVAAVIGS 182 (248)
Q Consensus 136 ~v~~~a~~v~~~iN~~l~~lr~i~~g~d~~~~lkv~~~L~vls~vGs 182 (248)
.++++--.+..-+-.+...+.++-++++.+.+..++++.++..++.-
T Consensus 96 ~lERlY~tv~v~~~~~~khi~RLrSW~eprRT~~fc~vYf~aW~~dl 142 (642)
T PF11696_consen 96 NLERLYMTVVVGLAAFIKHIARLRSWREPRRTAAFCAVYFIAWLLDL 142 (642)
T ss_pred HhHhheeehHHHHHHHHHHHHHhhhhcccchHHHHHHHHHHHHHHHH
Confidence 44555555666667777888999999999998877665555444433
No 23
>PF13994 PgaD: PgaD-like protein
Probab=31.43 E-value=2.4e+02 Score=22.74 Aligned_cols=11 Identities=36% Similarity=0.700 Sum_probs=5.8
Q ss_pred eecCHHHHHHH
Q 025785 130 FVLPPEVFANI 140 (248)
Q Consensus 130 ~~isee~v~~~ 140 (248)
+.+|++.++++
T Consensus 110 f~l~~~~l~~l 120 (138)
T PF13994_consen 110 FGLSPEQLQQL 120 (138)
T ss_pred cCCCHHHHHHH
Confidence 45555555443
No 24
>PF00873 ACR_tran: AcrB/AcrD/AcrF family; InterPro: IPR001036 The Escherichia coli acrA and acrB genes encode a multi-drug efflux system that is believed to protect the bacterium against hydrophobic inhibitors []. The E. coli AcrB protein is a transporter that is energized by proton-motive force and that shows the widest substrate specificity among all known multidrug pumps, ranging from most of the currently used antibiotics, disinfectants, dyes, and detergents to simple solvents. The structure of ligand-free AcrB shows that it is a homotrimer of 110kDa per subunit. Each subunit contains 12 transmembrane helices and two large periplasmic domains (each exceeding 300 residues) between helices 1 and 2, and helices 7 and 8. X-ray analysis of the overexpressed AcrB protein demonstrated that the three periplasmic domains form, in the centre, a funnel-like structure and a connected narrow (or closed) pore. The pore is opened to the periplasm through three vestibules located at subunit interfaces. These vestibules were proposed to allow direct access of drugs from the periplasm as well as the outer leaflet of the cytoplasmic membrane. The three transmembrane domains of AcrB protomers form a large, 30A-wide central cavity that spans the cytoplasmic membrane and extends to the cytoplasm X-ray crystallographic structures of the trimeric AcrB pump from E. coli with four structurally diverse ligands demonstrated that three molecules of ligand bind simultaneously to the extremely large central cavity of 5000 cubic angstroms, primarily by hydrophobic, aromatic stacking and van der Waals interactions. Each ligand uses a slightly different subset of AcrB residues for binding. The bound ligand molecules often interact with each other, stabilising the binding. ; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2V50_B 1T9U_A 2HRT_B 3NOC_A 3NOG_A 4DX7_A 1OYD_A 3AOB_A 1T9V_A 4DX6_B ....
Probab=29.62 E-value=7.3e+02 Score=26.61 Aligned_cols=65 Identities=26% Similarity=0.308 Sum_probs=36.6
Q ss_pred ccchHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhC----hh----HHHHHHHHHHHHHHHHHHHHHHH
Q 025785 161 GGKLKQLLVAVASLWVAAVIGSWCNLLTVLYIGFVAAHTLPVLYEKH----ED----KVDSFLNNVFQQLQNQYKKLDSG 232 (248)
Q Consensus 161 g~d~~~~lkv~~~L~vls~vGs~~s~lTLl~i~~v~~fTvP~lYeky----qd----~ID~~~~~~~~~i~~~y~~~~~k 232 (248)
....-.+++-+...-+++.+.|+ ++..+.+|.++... +. ...+..++....+++.|.++-.+
T Consensus 453 ~G~~g~~~~~l~~~v~~al~~Sl----------lval~~~P~l~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~Y~~lL~~ 522 (1021)
T PF00873_consen 453 PGIAGQFFRPLALTVIIALIASL----------LVALTLVPALAALFLKPKKKSSKKRFFSKFDRFFDRLQRGYRRLLRW 522 (1021)
T ss_dssp BHHHHHHHHHHHHHHHHHHHHHH----------HHHHTTHHHHHHHCS----TT-CCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCchHHHHHHHHHHHHHHHHHHH----------HHHHHhhhhhhhhhhccccccccccccccccccccccccchhhhhhh
Confidence 34445555555555555555555 55667778766432 11 23334455556677788776666
Q ss_pred HHh
Q 025785 233 FLS 235 (248)
Q Consensus 233 v~~ 235 (248)
+++
T Consensus 523 ~L~ 525 (1021)
T PF00873_consen 523 ALR 525 (1021)
T ss_dssp HHH
T ss_pred hhh
Confidence 553
No 25
>PRK11677 hypothetical protein; Provisional
Probab=29.46 E-value=2.4e+02 Score=23.09 Aligned_cols=26 Identities=15% Similarity=0.299 Sum_probs=11.8
Q ss_pred HhChhHHHHHHHHHH---HHHHHHHHHHH
Q 025785 205 EKHEDKVDSFLNNVF---QQLQNQYKKLD 230 (248)
Q Consensus 205 ekyqd~ID~~~~~~~---~~i~~~y~~~~ 230 (248)
++|+.++..+..... ..+.+.|+++-
T Consensus 46 e~YkqeV~~HFa~TA~Ll~~L~~~Y~~Ly 74 (134)
T PRK11677 46 EEYRQELVSHFARSAELLDTMAKDYRQLY 74 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555443332 23344455443
No 26
>PF02453 Reticulon: Reticulon; InterPro: IPR003388 Eukaryotic proteins of the reticulon (RTN) family all share an association with the endoplasmic reticulum (ER). Whereas amino-terminal regions are not related to one another, all reticulon proteins share a 200 amino acid residue region of sequence similarity at the C-terminal. This region contains two large hydrophobic regions separated by a 66 residue hydrophilic segment. The conserved hydrophobic C-terminal portion has been shown to play an essential role in the association of reticulons with the ER membrane. The hydrophobic portions are supposed to be membrane-embedded and the hydrophilic 66 residue localized to the lumenal/extracellular face of the membrane. Most reticulons have a di-lysine ER retention motif at the C-terminal. Because of their likely association with the rough as well as the smooth ER, the reticulons might play some role in transport processes or in regulation of intracellular calcium levels. It has been suggested that the reticulons may be serving as ER-associated channel-like complexes [, , , ].; GO: 0005783 endoplasmic reticulum; PDB: 2KO2_A 2JV5_A 2G31_A.
Probab=29.24 E-value=20 Score=29.15 Aligned_cols=28 Identities=14% Similarity=-0.027 Sum_probs=12.5
Q ss_pred cccccccccccchhHHHHHHHHHHHHHH
Q 025785 61 KSADVLLWRNKKISASVLMGATAIWVLF 88 (248)
Q Consensus 61 k~aDlLlWrn~k~Sg~vl~~~t~~w~Lf 88 (248)
...+++.|+|++.|..++++..+++.+.
T Consensus 99 ~~~~l~~~~~~~~~l~~~~~l~~l~~lg 126 (169)
T PF02453_consen 99 WLRRLVFGEDPKKSLKVFVVLYILSFLG 126 (169)
T ss_dssp HHHCCCHCT-TTGGG-------------
T ss_pred HHHHHHcCccHHHHHHHHHHHHHHHHHH
Confidence 4679999999999999877766644444
No 27
>PF13677 MotB_plug: Membrane MotB of proton-channel complex MotA/MotB
Probab=24.27 E-value=1.7e+02 Score=20.17 Aligned_cols=22 Identities=23% Similarity=0.467 Sum_probs=16.8
Q ss_pred HhhHHHHHHHHHHHHHHHHHHH
Q 025785 182 SWCNLLTVLYIGFVAAHTLPVL 203 (248)
Q Consensus 182 s~~s~lTLl~i~~v~~fTvP~l 203 (248)
++-++.||+...|++++.+-.+
T Consensus 20 tyaDlmTLLl~fFVlL~s~s~~ 41 (58)
T PF13677_consen 20 TYADLMTLLLAFFVLLFSMSSV 41 (58)
T ss_pred HHHHHHHHHHHHHHHHHHHHhC
Confidence 3457889999999988877654
No 28
>KOG3747 consensus Concentrative Na+-nucleoside cotransporter CNT1/CNT2 [Nucleotide transport and metabolism; Inorganic ion transport and metabolism]
Probab=24.08 E-value=2.9e+02 Score=27.91 Aligned_cols=38 Identities=13% Similarity=0.364 Sum_probs=26.5
Q ss_pred cccccchhHHHHHHHHHHHHHHHHhc--cchHHHHHHHHH
Q 025785 67 LWRNKKISASVLMGATAIWVLFEWLN--YHFLTIVCFALV 104 (248)
Q Consensus 67 lWrn~k~Sg~vl~~~t~~w~Lf~~~~--yslltlvs~ill 104 (248)
.|--+-.....|.+++++|..|+..+ +-++++..++..
T Consensus 149 ~w~v~~~~~~~~l~~l~~~l~~dt~~~~~qLv~f~g~v~f 188 (602)
T KOG3747|consen 149 LWFVSLVAKAAFLAALVAWLIFDTRQDPQQLVGFGGPVFF 188 (602)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcccHHHhhccccHHHH
Confidence 45556666777888888999999865 455666655543
No 29
>PHA02677 hypothetical protein; Provisional
Probab=23.65 E-value=1.6e+02 Score=23.32 Aligned_cols=32 Identities=19% Similarity=0.335 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhChhHHHHHHHH
Q 025785 186 LLTVLYIGFVAAHTLPVLYEKHEDKVDSFLNN 217 (248)
Q Consensus 186 ~lTLl~i~~v~~fTvP~lYekyqd~ID~~~~~ 217 (248)
|+-|+|...+.=..+|.+.||-+.+=|++..-
T Consensus 5 FLilCYFILIFNIiVP~I~EKlR~E~~Af~ky 36 (108)
T PHA02677 5 FLIICYFVLIFNILVPGIFEKLRQEHAAFDRL 36 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56788888888889999999999999988763
No 30
>KOG2628 consensus Farnesyl cysteine-carboxyl methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=23.65 E-value=3.8e+02 Score=23.52 Aligned_cols=62 Identities=19% Similarity=0.263 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHHhhHHHHHH-HHHHHHHHHHHHHHHhChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 025785 170 AVASLWVAAVIGSWCNLLTVL-YIGFVAAHTLPVLYEKHEDKVDSFLNNVFQQLQNQYKKLDSGFLSKIPK 239 (248)
Q Consensus 170 v~~~L~vls~vGs~~s~lTLl-~i~~v~~fTvP~lYekyqd~ID~~~~~~~~~i~~~y~~~~~kv~~kiP~ 239 (248)
+...+|.++.---.||...++ |+.++--|--|.+++.=++.|.-+ .++|.+-.+||-++||-
T Consensus 137 ~g~flw~~gtq~~L~npis~v~f~~V~w~ff~~Ri~~EE~~Li~fF--------g~~Y~eY~kkV~sGiPf 199 (201)
T KOG2628|consen 137 VGFFLWAAGTQTMLCNPISLVAFLLVVWRFFADRIKEEEKYLISFF--------GSSYVEYAKKVPSGIPF 199 (201)
T ss_pred HHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHhhhhhHHHHHHHHHh--------hHHHHHHHHhCCcCCCC
Confidence 566777777766666766654 445556677777776655555443 45667777788888885
No 31
>COG5038 Ca2+-dependent lipid-binding protein, contains C2 domain [General function prediction only]
Probab=23.54 E-value=3.3e+02 Score=30.12 Aligned_cols=52 Identities=10% Similarity=0.337 Sum_probs=35.8
Q ss_pred chHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhChhHHHHHHH
Q 025785 163 KLKQLLVAVASLWVAAVIGSWCNLLTVLYIGFVAAHTLPVLYEKHEDKVDSFLN 216 (248)
Q Consensus 163 d~~~~lkv~~~L~vls~vGs~~s~lTLl~i~~v~~fTvP~lYekyqd~ID~~~~ 216 (248)
+....+...++.|+++++| |+++.|+++..++.+..=..+++|..-|-..+.
T Consensus 157 s~~i~l~~~v~Swifg~~~--fs~~slffii~~~~~vY~~~~~rv~rnird~v~ 208 (1227)
T COG5038 157 SVAIVLIGSVASWIFGYLG--FSFASLFFIILVTMYVYRTCIKRVRRNIRDLVQ 208 (1227)
T ss_pred hhhHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345566666777777764 788899999888887777777776665554443
No 32
>COG5038 Ca2+-dependent lipid-binding protein, contains C2 domain [General function prediction only]
Probab=23.21 E-value=1.4e+02 Score=32.76 Aligned_cols=42 Identities=17% Similarity=0.350 Sum_probs=23.4
Q ss_pred cchhHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHH
Q 025785 71 KKISASVLMGATAIWVLFEWLNYHFLTIVCFALVLGMLAQFFWVNIS 117 (248)
Q Consensus 71 ~k~Sg~vl~~~t~~w~Lf~~~~yslltlvs~illl~l~~lFl~s~~~ 117 (248)
..-++++|++.++.|++= |.-+++.+..+ +.+...++|..-.
T Consensus 155 ~qs~~i~l~~~v~Swifg----~~~fs~~slff-ii~~~~~vY~~~~ 196 (1227)
T COG5038 155 YQSVAIVLIGSVASWIFG----YLGFSFASLFF-IILVTMYVYRTCI 196 (1227)
T ss_pred hhhhhHHHHHHHHHHHHH----HHHHHHHHHHH-HHHHHHHHHHHHH
Confidence 345688888888877653 44444444333 2344556675433
No 33
>KOG3873 consensus Sphingomyelinase family protein [Signal transduction mechanisms]
Probab=23.03 E-value=4.4e+02 Score=25.56 Aligned_cols=52 Identities=17% Similarity=0.171 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHH-HHHHHHHHHH--HHHhChhHHHHHHHHHH
Q 025785 168 LVAVASLWVAAVIGSWCNLLTVLYI-GFVAAHTLPV--LYEKHEDKVDSFLNNVF 219 (248)
Q Consensus 168 lkv~~~L~vls~vGs~~s~lTLl~i-~~v~~fTvP~--lYekyqd~ID~~~~~~~ 219 (248)
+.+.+++.++...--|++..-+++. +..++||+-. .+-..|-+|-.++|.+.
T Consensus 346 i~~av~~~~~~~~~lw~~v~~l~f~i~~~~a~~V~G~i~f~~~~~ei~~~lEr~~ 400 (422)
T KOG3873|consen 346 ISAAVFLAVLAVLLLWFTVFVLMFTIFLLIAFTVFGVIGFLVGQAEIWNLLERNG 400 (422)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhheecceeeeeeHHHHHHHHHHHH
Confidence 3334444443444445544444333 3346777665 44556778888888754
No 34
>PF11696 DUF3292: Protein of unknown function (DUF3292); InterPro: IPR021709 This eukaryotic family of proteins has no known function.
Probab=22.69 E-value=81 Score=32.38 Aligned_cols=51 Identities=20% Similarity=0.221 Sum_probs=30.7
Q ss_pred ccchhccccCCCCCCcccccccCCCcccccccccccchhHHHHHHHHHHHHH
Q 025785 36 SSSVTARFNRLFGRQKPVHHLLGGGKSADVLLWRNKKISASVLMGATAIWVL 87 (248)
Q Consensus 36 ~~~~~~~~~r~f~r~~~~h~~lgggk~aDlLlWrn~k~Sg~vl~~~t~~w~L 87 (248)
|+...+.+-|++--=- +--+-+.--++.+-.||+|++|+...++=++.|++
T Consensus 90 pdkLRa~lERlY~tv~-v~~~~~~khi~RLrSW~eprRT~~fc~vYf~aW~~ 140 (642)
T PF11696_consen 90 PDKLRANLERLYMTVV-VGLAAFIKHIARLRSWREPRRTAAFCAVYFIAWLL 140 (642)
T ss_pred hHHHHHHhHhheeehH-HHHHHHHHHHHHhhhhcccchHHHHHHHHHHHHHH
Confidence 4455666666653110 10111112367899999999999888766666655
No 35
>PF05062 RICH: RICH domain; InterPro: IPR007756 This domain is about 85 residues in length and very rich in charged residues, hence the name RICH (Rich In CHarged residues). It is found in secreted proteins such as PspC Q9KK19 from SWISSPROT, SpsA O33742 from SWISSPROT and IgA FC receptor P27951 from SWISSPROT from Streptococcus agalactiae. This domain could be involved in bacterial adherence or cell wall binding.
Probab=22.10 E-value=1.7e+02 Score=22.09 Aligned_cols=25 Identities=24% Similarity=0.604 Sum_probs=20.4
Q ss_pred HHhChhHHHHHHHHHHHHHHHHHHH
Q 025785 204 YEKHEDKVDSFLNNVFQQLQNQYKK 228 (248)
Q Consensus 204 Yekyqd~ID~~~~~~~~~i~~~y~~ 228 (248)
.+++.++|+.++++....+++|..+
T Consensus 4 ~~Ka~~~V~~y~~kiL~ei~~~L~k 28 (82)
T PF05062_consen 4 RKKAKDEVDEYMEKILSEIKKQLDK 28 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5788999999999999888665544
No 36
>PHA02680 ORF090 IMV phosphorylated membrane protein; Provisional
Probab=21.73 E-value=3.2e+02 Score=20.92 Aligned_cols=33 Identities=18% Similarity=0.454 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHhcc---------chHHHHHHHHHHHHHHH
Q 025785 78 LMGATAIWVLFEWLNY---------HFLTIVCFALVLGMLAQ 110 (248)
Q Consensus 78 l~~~t~~w~Lf~~~~y---------slltlvs~illl~l~~l 110 (248)
|..+--++..+++.+. ..+|.+|.++-+.+++.
T Consensus 21 LL~~ACIFAfidFSK~~s~~~~~~wRalSii~FIlG~vl~lG 62 (91)
T PHA02680 21 LLTAACVFAFVDFSKNTSNVTDYVWRALSVTCFIVGAVLLLG 62 (91)
T ss_pred HHHHHHHHhhhhhhccCCCCcchhHHHHHHHHHHHHHHHHHH
Confidence 3333334555566552 26788888875544443
No 37
>PF06363 Picorna_P3A: Picornaviridae P3A protein; InterPro: IPR009419 The viral polyprotein of parechoviruses contains: coat protein VP0 (P1AB); coat protein VP3 (P1C); coat protein VP1 (P1D); picornain 2A (3.4.22.29 from EC, core protein P2A); core protein P2B; core protein P2C; core protein P3A; genome-linked protein VPg (P3B); picornain 3C (3.4.22.28 from EC, MEROPS peptidase subfamily 3CF: parechovirus picornain 3C (P3C))[]. This entry consists of the parechovirus P3A protein. P3A has been identified as a genome-linked protein (VPg), which is involved in replication [].; GO: 0019012 virion
Probab=21.41 E-value=3.9e+02 Score=20.69 Aligned_cols=51 Identities=12% Similarity=0.108 Sum_probs=33.6
Q ss_pred ecCHHHHHHHHHHHHHHHHHHHHHhhhHhcccchHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Q 025785 131 VLPPEVFANIGTTVCANVNEALGLLQDISCGGKLKQLLVAVASLWVAAVIGSWCNLLTVLYIG 193 (248)
Q Consensus 131 ~isee~v~~~a~~v~~~iN~~l~~lr~i~~g~d~~~~lkv~~~L~vls~vGs~~s~lTLl~i~ 193 (248)
..+....+++.+.+...+++......| |- +.+-++|.+.|.+|.+||.|.-
T Consensus 41 ~~~~~a~~kv~~W~~~k~k~~~~FV~R-----Nk-------~W~T~~S~~tS~isIL~LV~~~ 91 (100)
T PF06363_consen 41 TKIKTACDKVKSWVKNKMKSMLSFVER-----NK-------AWFTVVSAVTSFISILLLVTKI 91 (100)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHH-----cc-------hHhhHHHHHHHHHHHHHHHHHH
Confidence 344567777777777777777665432 21 2344678888888888887654
No 38
>PF04298 Zn_peptidase_2: Putative neutral zinc metallopeptidase; InterPro: IPR007395 Members of this family of bacterial proteins are described as hypothetical proteins or zinc-dependent proteases. The majority have a HExxH zinc-binding motif characteristic of neutral zinc metallopeptidases, however there is no evidence to support their function as metallopeptidases.
Probab=21.06 E-value=6e+02 Score=22.65 Aligned_cols=106 Identities=22% Similarity=0.203 Sum_probs=56.3
Q ss_pred ccccccccchhHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCceecCHHHHHHHHHH
Q 025785 64 DVLLWRNKKISASVLMGATAIWVLFEWLNYHFLTIVCFALVLGMLAQFFWVNISGLFNRSPSKVPRFVLPPEVFANIGTT 143 (248)
Q Consensus 64 DlLlWrn~k~Sg~vl~~~t~~w~Lf~~~~yslltlvs~illl~l~~lFl~s~~~~~~~k~~~~~p~~~isee~v~~~a~~ 143 (248)
-.+-||+.-....-++.-...|+++--.-......+..++++.+.+..+ -++ +++|.|.
T Consensus 108 ~pl~lRs~lvP~~~~~s~~~~~l~~~G~~l~~~~~l~~~Gi~lf~~~vl----f~l----------vTLPVEf------- 166 (222)
T PF04298_consen 108 APLRLRSALVPVANIGSNLSWILLILGLFLSSGAGLLWIGIILFSLAVL----FQL----------VTLPVEF------- 166 (222)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----Hhe----------eechhhh-------
Confidence 4567888888888787777655444211111122333333332222222 121 1223220
Q ss_pred HHHHHHHHHHHhhh--Hhcccc---hHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Q 025785 144 VCANVNEALGLLQD--ISCGGK---LKQLLVAVASLWVAAVIGSWCNLLTVLYI 192 (248)
Q Consensus 144 v~~~iN~~l~~lr~--i~~g~d---~~~~lkv~~~L~vls~vGs~~s~lTLl~i 192 (248)
+.=|+++..+++ +...++ -++-|..++..|+.+-+.+..+++-++.+
T Consensus 167 --dAS~RAl~~L~~~~~l~~~E~~~arkVL~AAAlTYVAaal~sll~llr~l~i 218 (222)
T PF04298_consen 167 --DASRRALPILEEGGILSPEELPGARKVLTAAALTYVAAALSSLLQLLRLLLI 218 (222)
T ss_pred --hhhHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 011555555553 333444 34558888899999999998888777655
No 39
>COG2928 Uncharacterized conserved protein [Function unknown]
Probab=20.82 E-value=6e+02 Score=22.69 Aligned_cols=10 Identities=40% Similarity=0.836 Sum_probs=4.2
Q ss_pred HHHHHHhcCC
Q 025785 229 LDSGFLSKIP 238 (248)
Q Consensus 229 ~~~kv~~kiP 238 (248)
+-|+++++||
T Consensus 86 ~~d~~L~RiP 95 (222)
T COG2928 86 LGDSLLRRIP 95 (222)
T ss_pred HHHHHHccCc
Confidence 3334444444
No 40
>PF06881 Elongin_A: RNA polymerase II transcription factor SIII (Elongin) subunit A; InterPro: IPR010684 This family represents a conserved region within RNA polymerase II transcription factor SIII (Elongin) subunit A. In mammals, the Elongin complex activates elongation by RNA polymerase II by suppressing transient pausing of the polymerase at many sites within transcription units. Elongin is a heterotrimer composed of A, B, and C subunits of 110, 18, and 15 kilodaltons, respectively. Subunit A has been shown to function as the transcriptionally active component of Elongin [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus, 0016021 integral to membrane
Probab=20.32 E-value=1.7e+02 Score=22.55 Aligned_cols=33 Identities=27% Similarity=0.411 Sum_probs=28.2
Q ss_pred HHHHHHHhChhHHHHHHHHHHHHHHHHHHHHHH
Q 025785 199 TLPVLYEKHEDKVDSFLNNVFQQLQNQYKKLDS 231 (248)
Q Consensus 199 TvP~lYekyqd~ID~~~~~~~~~i~~~y~~~~~ 231 (248)
+.=-+|.+|+++-|.....+...+++.|+....
T Consensus 64 ~Wr~~Y~~~~~e~e~~~~~~~~~L~~~~~~~~~ 96 (109)
T PF06881_consen 64 SWRELYEKLKKEREEKLKEATERLRKKIKKLQQ 96 (109)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445789999999999999999999998887764
Done!