Query psy12613
Match_columns 76
No_of_seqs 105 out of 452
Neff 6.5
Searched_HMMs 29240
Date Fri Aug 16 23:45:47 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12613.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/12613hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1pw4_A Glycerol-3-phosphate tr 91.7 0.037 1.3E-06 37.9 0.3 43 33-75 364-406 (451)
2 2xut_A Proton/peptide symporte 73.3 0.55 1.9E-05 33.0 -0.5 44 31-75 421-464 (524)
3 4aps_A DI-OR tripeptide H+ sym 72.0 1.1 3.6E-05 31.1 0.7 55 20-75 391-445 (491)
4 1pw4_A Glycerol-3-phosphate tr 70.4 1 3.5E-05 30.5 0.3 57 17-74 121-177 (451)
5 2gfp_A EMRD, multidrug resista 67.4 1.1 3.7E-05 29.9 -0.1 57 18-75 91-147 (375)
6 2gfp_A EMRD, multidrug resista 67.0 1 3.5E-05 30.1 -0.3 56 18-75 294-349 (375)
7 3o7q_A L-fucose-proton symport 66.1 1.8 6.2E-05 29.3 0.8 59 15-74 117-175 (438)
8 2hm3_A Nematocyst outer WALL a 61.6 2.9 9.9E-05 19.6 0.8 12 3-14 4-15 (31)
9 2xut_A Proton/peptide symporte 38.6 12 0.0004 26.1 1.3 56 18-74 112-170 (524)
10 4aps_A DI-OR tripeptide H+ sym 33.2 10 0.00034 26.1 0.3 56 19-75 112-169 (491)
11 1f8v_D Mature capsid protein g 28.5 12 0.00041 18.8 0.0 8 63-70 18-25 (40)
12 1nov_D Nodamura virus coat pro 28.2 19 0.00064 18.5 0.7 10 61-70 16-25 (44)
13 2z2q_B Coat protein gamma; wil 28.1 18 0.00063 18.5 0.7 10 61-70 16-25 (44)
14 2cfq_A Lactose permease; trans 27.9 2.5 8.6E-05 29.1 -3.6 35 41-75 338-372 (417)
No 1
>1pw4_A Glycerol-3-phosphate transporter; transmembrane, inner membrane, major facilitator superfamily, secondary active membrane transporter; 3.30A {Escherichia coli} SCOP: f.38.1.1
Probab=91.67 E-value=0.037 Score=37.85 Aligned_cols=43 Identities=12% Similarity=0.039 Sum_probs=35.3
Q ss_pred cccceeeEEeecCCCCchHHHHHHHHHHHHhccCchhhhhhcc
Q psy12613 33 RAGNTIIQFRCVSPEDKSLSIGITEALGCGLAFIPGPIIYGAL 75 (76)
Q Consensus 33 ~~p~~~~~LR~V~~~~ks~alG~~~~~~rllg~IPgPiifG~~ 75 (76)
.........+.+|+++|+.+.|+...+.+++|..-+|.+.|++
T Consensus 364 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~g~~~~~~~~g~l 406 (451)
T 1pw4_A 364 VMLIGLHALELAPKKAAGTAAGFTGLFGYLGGSVAASAIVGYT 406 (451)
T ss_dssp HHHHHHHHHHTSCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhchhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334456678889999999999999998887888999988864
No 2
>2xut_A Proton/peptide symporter family protein; transport protein, membrane protein, major facilitator super transporter; 3.62A {Shewanella oneidensis}
Probab=73.34 E-value=0.55 Score=32.97 Aligned_cols=44 Identities=5% Similarity=-0.165 Sum_probs=32.7
Q ss_pred cccccceeeEEeecCCCCchHHHHHHHHHHHHhccCchhhhhhcc
Q psy12613 31 TGRAGNTIIQFRCVSPEDKSLSIGITEALGCGLAFIPGPIIYGAL 75 (76)
Q Consensus 31 ~~~~p~~~~~LR~V~~~~ks~alG~~~~~~rllg~IPgPiifG~~ 75 (76)
....+......+.+|+++|+.++|+..+.. -+|..-||.+.|++
T Consensus 421 ~~~~~~~~~~~~~~p~~~~g~~~g~~~~~~-~~g~~~g~~~~g~~ 464 (524)
T 2xut_A 421 LVSATGLEFAYSQAPKAMKGTIMSFWTLSV-TVGNLWVLLANVSV 464 (524)
T ss_dssp HHHHHHTTTHHHHCCTTCCTTTHHHHGGGH-HHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHhCcHHHHhHHHHHHHHHH-HHHHHHHHHHHHHh
Confidence 334445556778899999999999998765 46777788887764
No 3
>4aps_A DI-OR tripeptide H+ symporter; transport protein, peptide transport, major facilitator SUPE transporter, MFS; 3.30A {Streptococcus thermophilus}
Probab=72.01 E-value=1.1 Score=31.14 Aligned_cols=55 Identities=4% Similarity=-0.191 Sum_probs=37.4
Q ss_pred HHHHHHHHHHhcccccceeeEEeecCCCCchHHHHHHHHHHHHhccCchhhhhhcc
Q psy12613 20 FILCLLNFFSATGRAGNTIIQFRCVSPEDKSLSIGITEALGCGLAFIPGPIIYGAL 75 (76)
Q Consensus 20 ~~~~~~~~~~~~~~~p~~~~~LR~V~~~~ks~alG~~~~~~rllg~IPgPiifG~~ 75 (76)
...++..+.......+......+.+|+++|+.+.|+..... -+|..-+|.+.|.+
T Consensus 391 ~~~~l~g~~~~~~~~~~~~~~~~~~p~~~~g~~~g~~~~~~-~~g~~i~~~~~~~~ 445 (491)
T 4aps_A 391 GSWALVILGEMLISPVGLSVTTKLAPKAFNSQMMSMWFLSS-SVGSALNAQLVTLY 445 (491)
T ss_dssp HHHHHHHHHHHTTTTHHHHHHHHHTTTTCSSSSTHHHHHHH-HHHHHHHHHHGGGG
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHhCCHHHHHHHHHHHHHHH-HHHHHHHHHHHHHH
Confidence 33333344444445556667788899999999999987654 46777778777653
No 4
>1pw4_A Glycerol-3-phosphate transporter; transmembrane, inner membrane, major facilitator superfamily, secondary active membrane transporter; 3.30A {Escherichia coli} SCOP: f.38.1.1
Probab=70.38 E-value=1 Score=30.54 Aligned_cols=57 Identities=11% Similarity=0.118 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHHhcccccceeeEEeecCCCCchHHHHHHHHHHHHhccCchhhhhhc
Q psy12613 17 WFIFILCLLNFFSATGRAGNTIIQFRCVSPEDKSLSIGITEALGCGLAFIPGPIIYGA 74 (76)
Q Consensus 17 ~f~~~~~~~~~~~~~~~~p~~~~~LR~V~~~~ks~alG~~~~~~rllg~IPgPiifG~ 74 (76)
.+++..++..+..+....+.....-+.+++|+|+.++|+..... -+|.+-||.+-|+
T Consensus 121 ~l~~~~~l~G~~~~~~~~~~~~~i~~~~~~~~r~~~~~~~~~~~-~~g~~~g~~~~~~ 177 (451)
T 1pw4_A 121 VMFVLLFLCGWFQGMGWPPCGRTMVHWWSQKERGGIVSVWNCAH-NVGGGIPPLLFLL 177 (451)
T ss_dssp HHHHHHHHHHHHHHHTHHHHHHHHHTTCTTTHHHHHHHHHHHHH-HHHHTSHHHHHHH
T ss_pred HHHHHHHHHHHHhhhccchHHHHHHHHCCchhhhHHHHHHHHHH-HHHHHHHHHHHHH
Confidence 34444444444455555555566677788999999999977654 4577778877665
No 5
>2gfp_A EMRD, multidrug resistance protein D; membrane protein, multidrug transporter; 3.50A {Escherichia coli}
Probab=67.43 E-value=1.1 Score=29.93 Aligned_cols=57 Identities=11% Similarity=0.013 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHhcccccceeeEEeecCCCCchHHHHHHHHHHHHhccCchhhhhhcc
Q psy12613 18 FIFILCLLNFFSATGRAGNTIIQFRCVSPEDKSLSIGITEALGCGLAFIPGPIIYGAL 75 (76)
Q Consensus 18 f~~~~~~~~~~~~~~~~p~~~~~LR~V~~~~ks~alG~~~~~~rllg~IPgPiifG~~ 75 (76)
++...++..+..+...+......-+..++|+|+.+.|+..... -+|.+-+|.+.|.+
T Consensus 91 l~~~~~l~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~g~~~~~~~~~~l 147 (375)
T 2gfp_A 91 LIAASAMQGMGTGVGGVMARTLPRDLYERTQLRHANSLLNMGI-LVSPLLAPLIGGLL 147 (375)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSCCSHHHHHHHHH-HHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHhhhhhHHHHHHHHCCHHHHHHHHHHHHHHH-HHHHHhhHHHHHHH
Confidence 3333333333333333444455566778899999999987655 45677777776654
No 6
>2gfp_A EMRD, multidrug resistance protein D; membrane protein, multidrug transporter; 3.50A {Escherichia coli}
Probab=67.05 E-value=1 Score=30.07 Aligned_cols=56 Identities=9% Similarity=-0.131 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHhcccccceeeEEeecCCCCchHHHHHHHHHHHHhccCchhhhhhcc
Q psy12613 18 FIFILCLLNFFSATGRAGNTIIQFRCVSPEDKSLSIGITEALGCGLAFIPGPIIYGAL 75 (76)
Q Consensus 18 f~~~~~~~~~~~~~~~~p~~~~~LR~V~~~~ks~alG~~~~~~rllg~IPgPiifG~~ 75 (76)
+.+..++..+..+...........+.+| |+|+.+.|+..... -+|..-+|.+.|.+
T Consensus 294 ~~~~~~l~g~~~~~~~~~~~~~~~~~~p-~~~g~~~g~~~~~~-~~g~~~~~~~~g~l 349 (375)
T 2gfp_A 294 LLVPAALFFFGAGMLFPLATSGAMEPFP-FLAGTAGALVGGLQ-NIGSGVLASLSAML 349 (375)
T ss_dssp HHHHHHHHHHHHHHTSSTTHHHHHTHHH-HHHHHHHHHHHHHH-HHHHHCCSTTCTHH
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHhCC-cccchHHHHHHHHH-HHHHHHHHHHHHHH
Confidence 3334444444444545555556667776 89999999998655 46777788877753
No 7
>3o7q_A L-fucose-proton symporter; transporter, multi-PASS membrane protei transport protein; HET: BNG; 3.14A {Escherichia coli} PDB: 3o7p_A*
Probab=66.06 E-value=1.8 Score=29.26 Aligned_cols=59 Identities=5% Similarity=0.040 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHHHhcccccceeeEEeecCCCCchHHHHHHHHHHHHhccCchhhhhhc
Q psy12613 15 FMWFIFILCLLNFFSATGRAGNTIIQFRCVSPEDKSLSIGITEALGCGLAFIPGPIIYGA 74 (76)
Q Consensus 15 ~~~f~~~~~~~~~~~~~~~~p~~~~~LR~V~~~~ks~alG~~~~~~rllg~IPgPiifG~ 74 (76)
++.+++..++..+..+...++.....-+..++|+|+.++|+..... -+|.+-||.+.|.
T Consensus 117 ~~~l~~~~~l~G~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~-~~g~~~g~~~~~~ 175 (438)
T 3o7q_A 117 YTLFLVGLFIIAAGLGCLETAANPFVTVLGPESSGHFRLNLAQTFN-SFGAIIAVVFGQS 175 (438)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHSSCSTTHHHHHHHHHHHH-HHHHHHHHHHTTH
T ss_pred HHHHHHHHHHHHhhHHHhhhhHHHHHHHHcCchhHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence 3444444455555555555555566677789999999999887654 4567777776654
No 8
>2hm3_A Nematocyst outer WALL antigen; disulfide, evolution, cysteine rich, structural protein; NMR {Hydra vulgaris} PDB: 2hm4_A 2hm5_A 2hm6_A
Probab=61.59 E-value=2.9 Score=19.65 Aligned_cols=12 Identities=33% Similarity=1.099 Sum_probs=6.6
Q ss_pred cCCCCCCCcchh
Q psy12613 3 TQGACPADCGSH 14 (76)
Q Consensus 3 ~~G~C~~~C~~~ 14 (76)
..|.||+.|+..
T Consensus 4 itgtcpsgcsgd 15 (31)
T 2hm3_A 4 ITGTCPSGCSGD 15 (31)
T ss_dssp ---CCCTTCCGG
T ss_pred ccccCCCCcCcc
Confidence 468898887643
No 9
>2xut_A Proton/peptide symporter family protein; transport protein, membrane protein, major facilitator super transporter; 3.62A {Shewanella oneidensis}
Probab=38.62 E-value=12 Score=26.10 Aligned_cols=56 Identities=13% Similarity=-0.072 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHhcccccceeeEEeecCCCCchHHHHH---HHHHHHHhccCchhhhhhc
Q psy12613 18 FIFILCLLNFFSATGRAGNTIIQFRCVSPEDKSLSIGI---TEALGCGLAFIPGPIIYGA 74 (76)
Q Consensus 18 f~~~~~~~~~~~~~~~~p~~~~~LR~V~~~~ks~alG~---~~~~~rllg~IPgPiifG~ 74 (76)
+++..++..+..+....+.....-+.+++++|+.+.+. .... .-+|.+-||.+.|+
T Consensus 112 ~~~~~~l~g~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~-~~~g~~~g~~~~~~ 170 (524)
T 2xut_A 112 FYTGLFLIALGSGGIKPLVSSFMGDQFDQSNKSLAQKAFDMFYFT-INFGSFFASLSMPL 170 (524)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHTCSTTTTTHHHHHHHHHHHH-HHHHHHHHHHTSTH
T ss_pred HHHHHHHHHHhccccchhHHHHHHHHcCccchHHHHHHHHHHHHH-HHHHHHHHHHHHHH
Confidence 33444444444444445555667778899999766665 4433 44566667766554
No 10
>4aps_A DI-OR tripeptide H+ symporter; transport protein, peptide transport, major facilitator SUPE transporter, MFS; 3.30A {Streptococcus thermophilus}
Probab=33.23 E-value=10 Score=26.11 Aligned_cols=56 Identities=14% Similarity=0.061 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHhcccccceeeEEeecCCCC--chHHHHHHHHHHHHhccCchhhhhhcc
Q psy12613 19 IFILCLLNFFSATGRAGNTIIQFRCVSPED--KSLSIGITEALGCGLAFIPGPIIYGAL 75 (76)
Q Consensus 19 ~~~~~~~~~~~~~~~~p~~~~~LR~V~~~~--ks~alG~~~~~~rllg~IPgPiifG~~ 75 (76)
++..++..+..+..........-+..++++ |+.++++.... .-+|.+-||.+.|.+
T Consensus 112 ~~~~~l~g~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~-~~~g~~~~~~~~~~l 169 (491)
T 4aps_A 112 FGSIILIIIGTGFLKPNVSTLVGTLYDEHDRRRDAGFSIFVFG-INLGAFIAPLIVGAA 169 (491)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHSSSCTTHHHHHHHHHHHH-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhccchHHHHHHHHcCcccccceeeehHHHHH-HHHHHHHHHHHHHHH
Confidence 333333333344434444455566788888 66666665554 446777777776653
No 11
>1f8v_D Mature capsid protein gamma; nodavirus, coat protein, nucleoprotein, protein-RNA interactions, RNA duplex, RNA CAGE, gamma polypeptide; 3.00A {Pariacato virus} SCOP: b.121.4.4
Probab=28.54 E-value=12 Score=18.83 Aligned_cols=8 Identities=63% Similarity=1.418 Sum_probs=0.0
Q ss_pred hccCchhh
Q psy12613 63 LAFIPGPI 70 (76)
Q Consensus 63 lg~IPgPi 70 (76)
+..||||+
T Consensus 18 aS~iPGPV 25 (40)
T 1f8v_D 18 LSVIPGPV 25 (40)
T ss_dssp --------
T ss_pred HhcCCCch
Confidence 46799997
No 12
>1nov_D Nodamura virus coat proteins; insect virus, icosahedral VIRU; 3.50A {Nodamura virus}
Probab=28.25 E-value=19 Score=18.47 Aligned_cols=10 Identities=40% Similarity=0.654 Sum_probs=7.9
Q ss_pred HHhccCchhh
Q psy12613 61 CGLAFIPGPI 70 (76)
Q Consensus 61 rllg~IPgPi 70 (76)
..+..||||+
T Consensus 16 ~~aS~iPGPV 25 (44)
T 1nov_D 16 NFASTIPGPV 25 (44)
T ss_pred HHHhcCCCch
Confidence 4567899997
No 13
>2z2q_B Coat protein gamma; wild type, icosahedral virus, virus/RNA complex; 2.70A {Flock house virus} PDB: 2q26_B 3lob_D 2bbv_D
Probab=28.14 E-value=18 Score=18.48 Aligned_cols=10 Identities=50% Similarity=0.919 Sum_probs=7.9
Q ss_pred HHhccCchhh
Q psy12613 61 CGLAFIPGPI 70 (76)
Q Consensus 61 rllg~IPgPi 70 (76)
..+..||||+
T Consensus 16 ~a~S~iPGPV 25 (44)
T 2z2q_B 16 AAASNIPGPI 25 (44)
T ss_pred HHHhcCCCch
Confidence 4567899997
No 14
>2cfq_A Lactose permease; transport, transport mechanism, lactose/H+ symport, sugar transport, transmembrane, formylation; 2.95A {Escherichia coli} SCOP: f.38.1.2 PDB: 1pv7_A* 1pv6_A 2cfp_A 2v8n_A 2y5y_A*
Probab=27.87 E-value=2.5 Score=29.08 Aligned_cols=35 Identities=11% Similarity=-0.067 Sum_probs=24.4
Q ss_pred EeecCCCCchHHHHHHHHHHHHhccCchhhhhhcc
Q psy12613 41 FRCVSPEDKSLSIGITEALGCGLAFIPGPIIYGAL 75 (76)
Q Consensus 41 LR~V~~~~ks~alG~~~~~~rllg~IPgPiifG~~ 75 (76)
-+..|++.|+.+.|+..-..+-+|.+-+|.+.|++
T Consensus 338 ~~~~p~~~~g~~~g~~~~~~~~lg~~~gp~l~G~l 372 (417)
T 2cfq_A 338 TSQFEVRFSATIYLVCFCFFKQLAMIFMSVLAGNM 372 (417)
T ss_dssp HHHSCHHHHHHHHHHHHTTTHHHHHHHHTHHHHTH
T ss_pred HHHCCHHHHHHHHHHHHHHHHhHHHHHhhhhHHHH
Confidence 34557788888888853344667777788888764
Done!