Query 031229
Match_columns 163
No_of_seqs 99 out of 112
Neff 4.3
Searched_HMMs 29240
Date Mon Mar 25 17:43:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031229.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/031229hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2l7b_A Apolipoprotein E, APO-E 64.5 5.5 0.00019 33.9 3.7 44 1-44 244-287 (307)
2 1gs9_A Apolipoprotein E, APOE4 61.5 1.5 5.3E-05 34.1 -0.2 35 2-36 109-143 (165)
3 3r2p_A Apolipoprotein A-I; amp 59.2 11 0.00038 29.1 4.3 36 2-37 92-127 (185)
4 2a01_A Apolipoprotein A-I; fou 58.5 16 0.00054 29.5 5.4 41 1-41 145-185 (243)
5 3r84_A Mediator of RNA polymer 57.1 10 0.00035 27.1 3.5 30 2-31 39-68 (86)
6 4hg6_A Cellulose synthase subu 53.5 44 0.0015 31.1 8.1 39 99-140 82-120 (802)
7 1nfn_A Apolipoprotein E3; lipi 52.7 3.5 0.00012 32.6 0.5 21 7-27 103-123 (191)
8 2lem_A Apolipoprotein A-I; lip 48.6 25 0.00086 27.8 4.9 38 2-39 145-182 (216)
9 2a01_A Apolipoprotein A-I; fou 44.8 7.2 0.00025 31.6 1.2 16 2-17 168-183 (243)
10 3s84_A Apolipoprotein A-IV; fo 32.8 70 0.0024 26.4 5.4 28 3-30 103-130 (273)
11 3s84_A Apolipoprotein A-IV; fo 30.8 74 0.0025 26.3 5.2 21 11-31 89-109 (273)
12 1nfn_A Apolipoprotein E3; lipi 30.0 49 0.0017 25.9 3.8 35 1-35 108-142 (191)
13 3t98_A Nuclear pore complex pr 27.6 74 0.0025 20.5 3.7 26 2-27 21-46 (51)
14 3r2p_A Apolipoprotein A-I; amp 25.7 55 0.0019 25.1 3.4 9 5-13 106-114 (185)
15 2l7b_A Apolipoprotein E, APO-E 25.1 54 0.0018 27.7 3.4 39 3-41 151-189 (307)
16 2lem_A Apolipoprotein A-I; lip 24.8 22 0.00074 28.2 0.9 6 25-30 113-118 (216)
17 1oeg_A Apolipoprotein E; siali 24.7 30 0.001 19.7 1.2 16 24-39 4-19 (26)
18 1gs9_A Apolipoprotein E, APOE4 23.2 1E+02 0.0035 23.6 4.5 35 3-37 88-122 (165)
No 1
>2l7b_A Apolipoprotein E, APO-E; lipid transport, atherosclerosis, alzheime disease; NMR {Homo sapiens}
Probab=64.46 E-value=5.5 Score=33.89 Aligned_cols=44 Identities=16% Similarity=0.268 Sum_probs=38.9
Q ss_pred ChHHHHHHHHhHHHHHHHHHHHHHHHhcChhhhhhhHHHhhhcC
Q 031229 1 MEELRSAAEAHMDQVADLVQKLSAELRTGLRPAFDNFIGFFHAI 44 (163)
Q Consensus 1 ~~~~~~~~~~~~d~~~~~~~~~~~~lr~~~~~~~~~~~~f~~aV 44 (163)
+||++.+|+++.+.+..-++.-..+||+++.|..+++.+-+.+.
T Consensus 244 ~ee~~~ql~~~aeel~~kl~~~~eeLr~~l~P~~e~lk~~l~~l 287 (307)
T 2l7b_A 244 VAEVRAKLEEQAQQIRLQAEAAQARLKSRFEPLAEDMQRQWAGQ 287 (307)
T ss_dssp CSSHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSCHHHHHHTTS
T ss_pred HHHHHHHHHHHHHHHHHHhHhHHHHHHHHhhhHHHHHHHHHHHH
Confidence 47899999999999999999999999999999999988766553
No 2
>1gs9_A Apolipoprotein E, APOE4; lipid transport, heparin-binding, plasma, lipid binding protein; 1.7A {Homo sapiens} SCOP: a.24.1.1 PDB: 1or3_A 1or2_A 1le4_A 1bz4_A 1lpe_A 1le2_A
Probab=61.47 E-value=1.5 Score=34.12 Aligned_cols=35 Identities=20% Similarity=0.301 Sum_probs=14.7
Q ss_pred hHHHHHHHHhHHHHHHHHHHHHHHHhcChhhhhhh
Q 031229 2 EELRSAAEAHMDQVADLVQKLSAELRTGLRPAFDN 36 (163)
Q Consensus 2 ~~~~~~~~~~~d~~~~~~~~~~~~lr~~~~~~~~~ 36 (163)
||+|..++.|.|.+-..++.=..++|.++.|..++
T Consensus 109 EelR~~l~p~~~el~~~l~~~~EelR~kl~P~~ee 143 (165)
T 1gs9_A 109 EDVRGRLVQYRGEVQAMLGQSTEELRVRLASHLRK 143 (165)
T ss_dssp HHHHHHHHHHHHHHHTSTTCCCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444443334444444444443
No 3
>3r2p_A Apolipoprotein A-I; amphipathic alpha-helix, major protein of high density lipop (HDL), lipid binding, plasma, lipid transport; 2.20A {Homo sapiens} PDB: 1gw3_A 1gw4_A
Probab=59.17 E-value=11 Score=29.09 Aligned_cols=36 Identities=17% Similarity=0.232 Sum_probs=20.6
Q ss_pred hHHHHHHHHhHHHHHHHHHHHHHHHhcChhhhhhhH
Q 031229 2 EELRSAAEAHMDQVADLVQKLSAELRTGLRPAFDNF 37 (163)
Q Consensus 2 ~~~~~~~~~~~d~~~~~~~~~~~~lr~~~~~~~~~~ 37 (163)
||+|..++.|++.+...+++=..++|.++.|..+++
T Consensus 92 ee~r~~l~P~~~e~~~~~~~~~e~lr~~l~Py~~el 127 (185)
T 3r2p_A 92 EEVKAKVQPYLDDFQKKWQEEMELYRQKVEPLRAEL 127 (185)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 555666666666655555555555555555555444
No 4
>2a01_A Apolipoprotein A-I; four-helix bundle, lipid transport; HET: AC9; 2.40A {Homo sapiens} PDB: 3k2s_A* 1av1_A 3j00_0*
Probab=58.50 E-value=16 Score=29.50 Aligned_cols=41 Identities=29% Similarity=0.328 Sum_probs=31.0
Q ss_pred ChHHHHHHHHhHHHHHHHHHHHHHHHhcChhhhhhhHHHhh
Q 031229 1 MEELRSAAEAHMDQVADLVQKLSAELRTGLRPAFDNFIGFF 41 (163)
Q Consensus 1 ~~~~~~~~~~~~d~~~~~~~~~~~~lr~~~~~~~~~~~~f~ 41 (163)
.||+|+.+++|++.+-+-+.-...++|.+....++.+.+.+
T Consensus 145 ~eelr~kl~~~veelk~~l~P~~ee~r~kl~~~~~el~~~l 185 (243)
T 2a01_A 145 GEEMRDRARAHVDALRTHLAPYSDELRQRLAARLEALKENG 185 (243)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhc
Confidence 36888888888888888887777777777777666666543
No 5
>3r84_A Mediator of RNA polymerase II transcription subun; four-helix bundle, nucleus; HET: MSE; 2.05A {Saccharomyces cerevisiae}
Probab=57.13 E-value=10 Score=27.08 Aligned_cols=30 Identities=23% Similarity=0.430 Sum_probs=26.3
Q ss_pred hHHHHHHHHhHHHHHHHHHHHHHHHhcChh
Q 031229 2 EELRSAAEAHMDQVADLVQKLSAELRTGLR 31 (163)
Q Consensus 2 ~~~~~~~~~~~d~~~~~~~~~~~~lr~~~~ 31 (163)
+..++++++|.++.=.-++.+..+||++..
T Consensus 39 ~~~K~~F~~~t~~fy~tL~~v~v~LrkEIk 68 (86)
T 3r84_A 39 ESVKPQFENHVKQFYERLDKSTTQLRKEIQ 68 (86)
T ss_dssp GGGHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357899999999999999999999998874
No 6
>4hg6_A Cellulose synthase subunit A; membrane translocation, cellulose synthesis, UDP-GLC binding membrane, transferase; HET: BGC UDP LDA; 3.25A {Rhodobacter sphaeroides}
Probab=53.53 E-value=44 Score=31.10 Aligned_cols=39 Identities=15% Similarity=0.065 Sum_probs=28.7
Q ss_pred hHhhhccccccCCCcchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 031229 99 NWKRFATQNYFDSHGIFLSALWSGPLLFIAIIILVNTLFSLC 140 (163)
Q Consensus 99 nW~~Fs~qnYFDs~G~FISvv~S~PLLl~~~iilv~~l~~~~ 140 (163)
-|+...+-|+++. .++.+++.++++..++..+.++....
T Consensus 82 ~wr~~~tl~~~~~---~~~~~~~~~ll~~~~~~~~~~l~~~~ 120 (802)
T 4hg6_A 82 FWRLFETLPPPAL---DASFLFALLLFAVETFSISIFFLNGF 120 (802)
T ss_dssp HHHHHHTSCCCSS---CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhheecCCccc---hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7999889998864 45677777877777777777666543
No 7
>1nfn_A Apolipoprotein E3; lipid transport, heparin-binding, plasma protein, HDL, VLDL; 1.80A {Homo sapiens} SCOP: a.24.1.1 PDB: 1h7i_A 1ea8_A 1b68_A 1nfo_A 2kc3_A 1ya9_A
Probab=52.70 E-value=3.5 Score=32.59 Aligned_cols=21 Identities=19% Similarity=0.302 Sum_probs=7.5
Q ss_pred HHHHhHHHHHHHHHHHHHHHh
Q 031229 7 AAEAHMDQVADLVQKLSAELR 27 (163)
Q Consensus 7 ~~~~~~d~~~~~~~~~~~~lr 27 (163)
.+..+++.+..=++-...+||
T Consensus 103 ~l~kdlEelr~kL~P~~eEL~ 123 (191)
T 1nfn_A 103 RLGADMEDVCGRLVQYRGEVQ 123 (191)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhHHHHHHH
Confidence 333333333333333333333
No 8
>2lem_A Apolipoprotein A-I; lipid transport; NMR {Mus musculus}
Probab=48.62 E-value=25 Score=27.81 Aligned_cols=38 Identities=21% Similarity=0.374 Sum_probs=32.2
Q ss_pred hHHHHHHHHhHHHHHHHHHHHHHHHhcChhhhhhhHHH
Q 031229 2 EELRSAAEAHMDQVADLVQKLSAELRTGLRPAFDNFIG 39 (163)
Q Consensus 2 ~~~~~~~~~~~d~~~~~~~~~~~~lr~~~~~~~~~~~~ 39 (163)
||++..+++|+|.+-.-+.-...++|.++...++.+.+
T Consensus 145 e~lr~kl~~~~e~lk~~l~P~~ee~~~kl~~~leeL~~ 182 (216)
T 2lem_A 145 EEFRDRMRTHVDSLRTQLAPHSEQMRESLAQRLAELKS 182 (216)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhHhhHHHHHHHHHHHHHHHhC
Confidence 78899999999999888888888888888877777665
No 9
>2a01_A Apolipoprotein A-I; four-helix bundle, lipid transport; HET: AC9; 2.40A {Homo sapiens} PDB: 3k2s_A* 1av1_A 3j00_0*
Probab=44.76 E-value=7.2 Score=31.58 Aligned_cols=16 Identities=25% Similarity=0.538 Sum_probs=8.6
Q ss_pred hHHHHHHHHhHHHHHH
Q 031229 2 EELRSAAEAHMDQVAD 17 (163)
Q Consensus 2 ~~~~~~~~~~~d~~~~ 17 (163)
||++..+++|++.+.+
T Consensus 168 ee~r~kl~~~~~el~~ 183 (243)
T 2a01_A 168 DELRQRLAARLEALKE 183 (243)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4555555555555555
No 10
>3s84_A Apolipoprotein A-IV; four helix bundle, transport protein; 2.40A {Homo sapiens}
Probab=32.75 E-value=70 Score=26.41 Aligned_cols=28 Identities=11% Similarity=0.373 Sum_probs=11.7
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHhcCh
Q 031229 3 ELRSAAEAHMDQVADLVQKLSAELRTGL 30 (163)
Q Consensus 3 ~~~~~~~~~~d~~~~~~~~~~~~lr~~~ 30 (163)
|+++.++.|+|.+-+-+.-...++|.+.
T Consensus 103 elr~kl~~~veelk~~L~Py~eelr~k~ 130 (273)
T 3s84_A 103 ELKAKIDQNVEELKGRLTPYADEFKVKI 130 (273)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhhHHHHHHHhHhHHHHHHHHH
Confidence 3444444444444444444444444433
No 11
>3s84_A Apolipoprotein A-IV; four helix bundle, transport protein; 2.40A {Homo sapiens}
Probab=30.84 E-value=74 Score=26.27 Aligned_cols=21 Identities=14% Similarity=0.295 Sum_probs=7.7
Q ss_pred hHHHHHHHHHHHHHHHhcChh
Q 031229 11 HMDQVADLVQKLSAELRTGLR 31 (163)
Q Consensus 11 ~~d~~~~~~~~~~~~lr~~~~ 31 (163)
++|.+-+-+.-...+||.+..
T Consensus 89 ~~eeLr~~L~p~~eelr~kl~ 109 (273)
T 3s84_A 89 NADSLQASLRPHADELKAKID 109 (273)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333333343333
No 12
>1nfn_A Apolipoprotein E3; lipid transport, heparin-binding, plasma protein, HDL, VLDL; 1.80A {Homo sapiens} SCOP: a.24.1.1 PDB: 1h7i_A 1ea8_A 1b68_A 1nfo_A 2kc3_A 1ya9_A
Probab=29.96 E-value=49 Score=25.90 Aligned_cols=35 Identities=20% Similarity=0.268 Sum_probs=17.0
Q ss_pred ChHHHHHHHHhHHHHHHHHHHHHHHHhcChhhhhh
Q 031229 1 MEELRSAAEAHMDQVADLVQKLSAELRTGLRPAFD 35 (163)
Q Consensus 1 ~~~~~~~~~~~~d~~~~~~~~~~~~lr~~~~~~~~ 35 (163)
|||+|..++.+.|.+-..++.-..++|.++.|..+
T Consensus 108 lEelr~kL~P~~eEL~~~l~~~~Eelr~~L~Py~e 142 (191)
T 1nfn_A 108 MEDVCGRLVQYRGEVQAMLGQSTEELRVRLASHLR 142 (191)
T ss_dssp HHHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHH
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHhhhhHH
Confidence 35555555555555544444444444444444433
No 13
>3t98_A Nuclear pore complex protein NUP54; NUP62 complex, nuclear import, coiled-coil, HE hairpin, FG-repeat, NPC, nuclear tranport, TRA channel, karyopherin; 2.50A {Rattus norvegicus}
Probab=27.63 E-value=74 Score=20.50 Aligned_cols=26 Identities=12% Similarity=0.370 Sum_probs=22.0
Q ss_pred hHHHHHHHHhHHHHHHHHHHHHHHHh
Q 031229 2 EELRSAAEAHMDQVADLVQKLSAELR 27 (163)
Q Consensus 2 ~~~~~~~~~~~d~~~~~~~~~~~~lr 27 (163)
+|+++.+...=++|+-++.-+.+|+|
T Consensus 21 ~eik~~L~~QQ~g~~~Li~ivk~Dle 46 (51)
T 3t98_A 21 REIKQHLKQQQEGLSHLISIIKDDLE 46 (51)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 57788888888899999999988887
No 14
>3r2p_A Apolipoprotein A-I; amphipathic alpha-helix, major protein of high density lipop (HDL), lipid binding, plasma, lipid transport; 2.20A {Homo sapiens} PDB: 1gw3_A 1gw4_A
Probab=25.71 E-value=55 Score=25.05 Aligned_cols=9 Identities=11% Similarity=0.250 Sum_probs=3.2
Q ss_pred HHHHHHhHH
Q 031229 5 RSAAEAHMD 13 (163)
Q Consensus 5 ~~~~~~~~d 13 (163)
+..+..|+|
T Consensus 106 ~~~~~~~~e 114 (185)
T 3r2p_A 106 QKKWQEEME 114 (185)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHhHH
Confidence 333333333
No 15
>2l7b_A Apolipoprotein E, APO-E; lipid transport, atherosclerosis, alzheime disease; NMR {Homo sapiens}
Probab=25.10 E-value=54 Score=27.71 Aligned_cols=39 Identities=15% Similarity=0.167 Sum_probs=18.4
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHhcChhhhhhhHHHhh
Q 031229 3 ELRSAAEAHMDQVADLVQKLSAELRTGLRPAFDNFIGFF 41 (163)
Q Consensus 3 ~~~~~~~~~~d~~~~~~~~~~~~lr~~~~~~~~~~~~f~ 41 (163)
|++..++.|+|.+-.-+.-...+||.+.+.-++++.+-+
T Consensus 151 EL~~~~~~~~eeLr~~L~py~eeLr~kl~~~veelr~~L 189 (307)
T 2l7b_A 151 KLRKRLLRDADDLQKRLAVYQAGAREGAERGLSAIRERL 189 (307)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTSCCSSHHHHHHHHHHHHC
T ss_pred HHHHHHHhhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHh
Confidence 444444444544444444444444555544444444433
No 16
>2lem_A Apolipoprotein A-I; lipid transport; NMR {Mus musculus}
Probab=24.79 E-value=22 Score=28.18 Aligned_cols=6 Identities=17% Similarity=-0.020 Sum_probs=2.1
Q ss_pred HHhcCh
Q 031229 25 ELRTGL 30 (163)
Q Consensus 25 ~lr~~~ 30 (163)
++|..+
T Consensus 113 ~lr~~L 118 (216)
T 2lem_A 113 LYRQKA 118 (216)
T ss_dssp HHHHHT
T ss_pred HHHHHH
Confidence 333333
No 17
>1oeg_A Apolipoprotein E; sialic acid, heparin-binding, repeat, signal, disease mutation, polymorphism; NMR {Homo sapiens} SCOP: j.39.1.1
Probab=24.68 E-value=30 Score=19.65 Aligned_cols=16 Identities=0% Similarity=0.086 Sum_probs=10.0
Q ss_pred HHHhcChhhhhhhHHH
Q 031229 24 AELRTGLRPAFDNFIG 39 (163)
Q Consensus 24 ~~lr~~~~~~~~~~~~ 39 (163)
.++|+||+..++.+..
T Consensus 4 e~mr~Q~~~lveKvq~ 19 (26)
T 1oeg_A 4 EDMQRQWAGLVEKVQA 19 (26)
T ss_dssp HHTTTHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4667777666666554
No 18
>1gs9_A Apolipoprotein E, APOE4; lipid transport, heparin-binding, plasma, lipid binding protein; 1.7A {Homo sapiens} SCOP: a.24.1.1 PDB: 1or3_A 1or2_A 1le4_A 1bz4_A 1lpe_A 1le2_A
Probab=23.20 E-value=1e+02 Score=23.59 Aligned_cols=35 Identities=11% Similarity=0.069 Sum_probs=16.2
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHhcChhhhhhhH
Q 031229 3 ELRSAAEAHMDQVADLVQKLSAELRTGLRPAFDNF 37 (163)
Q Consensus 3 ~~~~~~~~~~d~~~~~~~~~~~~lr~~~~~~~~~~ 37 (163)
|++..+.+..+.+..-++.-..++|.+..|..+.+
T Consensus 88 el~~~l~~~~e~Lr~~L~~d~EelR~~l~p~~~el 122 (165)
T 1gs9_A 88 ETRARLSKELQAAQARLGADMEDVRGRLVQYRGEV 122 (165)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444444454444444433
Done!