Query 042496
Match_columns 80
No_of_seqs 120 out of 1174
Neff 6.6
Searched_HMMs 29240
Date Mon Mar 25 11:31:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042496.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/042496hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4gc0_A D-xylose-proton symport 98.7 7.9E-09 2.7E-13 73.7 3.4 44 34-77 438-481 (491)
2 1pw4_A Glycerol-3-phosphate tr 83.9 1.3 4.4E-05 30.4 4.1 32 33-64 180-212 (451)
3 2dw3_A Intrinsic membrane prot 70.0 5.1 0.00017 23.2 3.2 32 34-65 29-60 (77)
4 2cfq_A Lactose permease; trans 62.0 5.4 0.00018 27.7 2.7 35 33-67 374-408 (417)
5 2nrg_A Intrinsic membrane prot 60.9 11 0.00037 22.0 3.4 32 34-65 30-61 (82)
6 4aps_A DI-OR tripeptide H+ sym 56.7 10 0.00035 26.4 3.4 32 34-65 447-478 (491)
7 2gfp_A EMRD, multidrug resista 48.8 2.7 9.1E-05 28.3 -0.7 31 34-64 150-180 (375)
8 4ev6_A Magnesium transport pro 39.0 36 0.0012 23.6 3.9 16 14-29 289-304 (339)
9 2xut_A Proton/peptide symporte 37.7 21 0.00073 25.0 2.6 32 40-71 484-515 (524)
10 1nkz_B Light-harvesting protei 33.1 51 0.0017 16.6 3.0 21 40-60 18-38 (41)
11 3o7q_A L-fucose-proton symport 32.5 72 0.0025 21.4 4.5 28 37-64 208-236 (438)
12 2xut_A Proton/peptide symporte 32.4 85 0.0029 21.8 5.0 26 33-58 173-198 (524)
13 2ki0_A DS119; beta-alpha-beta, 31.3 9.4 0.00032 18.5 -0.1 12 3-14 13-24 (36)
14 2iub_A CORA, divalent cation t 31.0 31 0.0011 24.2 2.5 17 13-29 312-328 (363)
15 1lgh_B LH II, B800/850, light 30.7 60 0.002 16.7 3.0 21 40-60 23-43 (45)
16 4aps_A DI-OR tripeptide H+ sym 27.1 79 0.0027 21.7 4.1 26 33-58 171-196 (491)
17 2wwb_A Protein transport prote 25.7 1.6E+02 0.0054 21.9 5.6 18 61-78 381-398 (476)
18 1dx7_A Light-harvesting protei 23.4 51 0.0018 17.2 1.9 21 40-60 26-46 (48)
No 1
>4gc0_A D-xylose-proton symporter; MFS, transport protein; HET: 6BG BNG; 2.60A {Escherichia coli} PDB: 4gbz_A* 4gby_A*
Probab=98.70 E-value=7.9e-09 Score=73.69 Aligned_cols=44 Identities=27% Similarity=0.252 Sum_probs=38.1
Q ss_pred hcCchhHHHHHHHHHHHHHHHHHhhccCCCCCCHHHHHHHHhhc
Q 042496 34 DSSATPAVVLGALVAVRGVAFVTFLVPATKGRTLEEIQASITKL 77 (80)
Q Consensus 34 ~~g~~~vF~ifa~i~~v~~v~~~~~lPETkg~sLeeI~~~~~~~ 77 (80)
.++...+|++++++++++.+++++++|||||+++||||+.|+++
T Consensus 438 ~~~~~~~~~i~~~~~~~~~i~~~~~~PETkg~tLeei~~~f~~~ 481 (491)
T 4gc0_A 438 HFHNGFSYWIYGCMGVLAALFMWKFVPETKGKTLEELEALWEPE 481 (491)
T ss_dssp HHTTCHHHHHHHHHHHHHHHHHHHHCCCCTTCCHHHHGGGTC--
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHheecCCCCCCHHHHHHHhCCC
Confidence 34556789999999999999999999999999999999998654
No 2
>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=83.95 E-value=1.3 Score=30.42 Aligned_cols=32 Identities=16% Similarity=0.051 Sum_probs=25.3
Q ss_pred hhcC-chhHHHHHHHHHHHHHHHHHhhccCCCC
Q 042496 33 SDSS-ATPAVVLGALVAVRGVAFVTFLVPATKG 64 (80)
Q Consensus 33 ~~~g-~~~vF~ifa~i~~v~~v~~~~~lPETkg 64 (80)
..+| |..+|++.++++++..+..++.+||+..
T Consensus 180 ~~~g~w~~~f~~~~~~~~~~~~~~~~~~~~~~~ 212 (451)
T 1pw4_A 180 AWFNDWHAALYMPAFCAILVALFAFAMMRDTPQ 212 (451)
T ss_dssp HHTCCSTTCTHHHHHHHHHHHHHHHHHCCCSST
T ss_pred HHhccHHHHHHHHHHHHHHHHHHHHhhccCCHh
Confidence 4577 8899999998888887877788887643
No 3
>2dw3_A Intrinsic membrane protein PUFX; quinone exchange, photosynthesis, light- harvesting, GXXXG motif, dimerization; NMR {Rhodobacter sphaeroides} PDB: 2ita_A
Probab=70.02 E-value=5.1 Score=23.22 Aligned_cols=32 Identities=16% Similarity=0.261 Sum_probs=20.6
Q ss_pred hcCchhHHHHHHHHHHHHHHHHHhhccCCCCC
Q 042496 34 DSSATPAVVLGALVAVRGVAFVTFLVPATKGR 65 (80)
Q Consensus 34 ~~g~~~vF~ifa~i~~v~~v~~~~~lPETkg~ 65 (80)
..|+..+|++-..+.+++..++-..+||..+.
T Consensus 29 GAg~AAv~f~~~~~~lv~l~~iG~~LPE~Sr~ 60 (77)
T 2dw3_A 29 GAGWAGGVFFGTLLLIGFFRVVGRMLPIQENQ 60 (77)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCTTTTCSS
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHhCchhccc
Confidence 44555566665556666666677889987553
No 4
>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=61.99 E-value=5.4 Score=27.68 Aligned_cols=35 Identities=17% Similarity=0.095 Sum_probs=26.0
Q ss_pred hhcCchhHHHHHHHHHHHHHHHHHhhccCCCCCCH
Q 042496 33 SDSSATPAVVLGALVAVRGVAFVTFLVPATKGRTL 67 (80)
Q Consensus 33 ~~~g~~~vF~ifa~i~~v~~v~~~~~lPETkg~sL 67 (80)
+..|+..+|.+.+++++++.+..++..||++.-++
T Consensus 374 ~~~g~~~~f~~~~~~~l~~~~~~~~~~~~~~~~~~ 408 (417)
T 2cfq_A 374 ESIGFQGAYLVLGLVALGFTLISVFTLSGPGPLSL 408 (417)
T ss_dssp HHSHHHHHHHHHHHHHHHHHHHHTTSSCCSCTTCS
T ss_pred HhcCcHHHHHHHHHHHHHHHHHHHhhhcCCCchHH
Confidence 34566677888888888888877888888776543
No 5
>2nrg_A Intrinsic membrane protein PUFX; BENT transmembrane helix, photosynthesis,membrane protein; NMR {Rhodobacter sphaeroides}
Probab=60.90 E-value=11 Score=22.03 Aligned_cols=32 Identities=16% Similarity=0.261 Sum_probs=20.7
Q ss_pred hcCchhHHHHHHHHHHHHHHHHHhhccCCCCC
Q 042496 34 DSSATPAVVLGALVAVRGVAFVTFLVPATKGR 65 (80)
Q Consensus 34 ~~g~~~vF~ifa~i~~v~~v~~~~~lPETkg~ 65 (80)
..|+..+|++-..+.+++..++-..+||..+.
T Consensus 30 GAG~AAv~fl~~~~~lv~l~~iG~~LPE~Sr~ 61 (82)
T 2nrg_A 30 GAGWAGGVFFGTLLLIGFFRVVGRMLPIQENQ 61 (82)
T ss_dssp HHHTHHHHHHHHHHHHHHHHHHHHSSTTTTTC
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHhCchhccc
Confidence 34555666665556666666677889987654
No 6
>4aps_A DI-OR tripeptide H+ symporter; transport protein, peptide transport, major facilitator SUPE transporter, MFS; 3.30A {Streptococcus thermophilus}
Probab=56.74 E-value=10 Score=26.37 Aligned_cols=32 Identities=19% Similarity=0.056 Sum_probs=20.0
Q ss_pred hcCchhHHHHHHHHHHHHHHHHHhhccCCCCC
Q 042496 34 DSSATPAVVLGALVAVRGVAFVTFLVPATKGR 65 (80)
Q Consensus 34 ~~g~~~vF~ifa~i~~v~~v~~~~~lPETkg~ 65 (80)
+.+....|.+++++++++.+..++..++++++
T Consensus 447 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 478 (491)
T 4aps_A 447 AKSEVAYFSYFGLGSVVLGIVLVFLSKRIQGL 478 (491)
T ss_dssp GSSTTHHHHHTHHHHHHHHHHHHHC-------
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566788888888888888888888877654
No 7
>2gfp_A EMRD, multidrug resistance protein D; membrane protein, multidrug transporter; 3.50A {Escherichia coli}
Probab=48.76 E-value=2.7 Score=28.30 Aligned_cols=31 Identities=6% Similarity=-0.055 Sum_probs=22.8
Q ss_pred hcCchhHHHHHHHHHHHHHHHHHhhccCCCC
Q 042496 34 DSSATPAVVLGALVAVRGVAFVTFLVPATKG 64 (80)
Q Consensus 34 ~~g~~~vF~ifa~i~~v~~v~~~~~lPETkg 64 (80)
.+||..+|.+.++..++..+..++.+||++.
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 180 (375)
T 2gfp_A 150 MWNWRACYLFLLVLCAGVTFSMARWMPETRP 180 (375)
T ss_dssp HHHHHHHHHHHHHHHHHHHCCCCCSSCCCST
T ss_pred hccHHHHHHHHHHHHHHHHHHHHHHCcccCC
Confidence 3467778888888877777766777888753
No 8
>4ev6_A Magnesium transport protein CORA; membrane protein, ION transporter, metal TR; HET: UMQ; 3.20A {Methanocaldococcus jannaschii}
Probab=38.98 E-value=36 Score=23.61 Aligned_cols=16 Identities=6% Similarity=-0.064 Sum_probs=12.5
Q ss_pred hcchhhhhhhhcCChh
Q 042496 14 LIPSSSLADEIGDGSG 29 (80)
Q Consensus 14 ~~~~~~~~~~~~~~~~ 29 (80)
.+|.+-++-.||++..
T Consensus 289 flP~T~IaGiyGMNf~ 304 (339)
T 4ev6_A 289 FAVPMWITGIYGMNFS 304 (339)
T ss_dssp SSHHHHHHHHTTCCCS
T ss_pred HHHHHHHHhhccCcCC
Confidence 4688888888898765
No 9
>2xut_A Proton/peptide symporter family protein; transport protein, membrane protein, major facilitator super transporter; 3.62A {Shewanella oneidensis}
Probab=37.68 E-value=21 Score=25.01 Aligned_cols=32 Identities=6% Similarity=-0.061 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHhhccCCCCCCHHHHH
Q 042496 40 AVVLGALVAVRGVAFVTFLVPATKGRTLEEIQ 71 (80)
Q Consensus 40 vF~ifa~i~~v~~v~~~~~lPETkg~sLeeI~ 71 (80)
.|++++++++++.++.+++.+++++++.++.+
T Consensus 484 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 515 (524)
T 2xut_A 484 QMFFFAGFAILAAIVFALYARSYQMQDHYRQA 515 (524)
T ss_dssp HHHHHHHHHHHHHHHHC---------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccchhhhhh
Confidence 37778888888887777788888776655443
No 10
>1nkz_B Light-harvesting protein B-800/850, beta chain; light harvesting complex II, trans-membrane helices, rhodopi glucoside; HET: CXM RG1 BOG BCL; 2.00A {Rhodoblastus acidophilus} SCOP: f.3.1.1 PDB: 1kzu_B* 2fkw_B* 1ijd_B*
Probab=33.12 E-value=51 Score=16.64 Aligned_cols=21 Identities=10% Similarity=-0.105 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHhhcc
Q 042496 40 AVVLGALVAVRGVAFVTFLVP 60 (80)
Q Consensus 40 vF~ifa~i~~v~~v~~~~~lP 60 (80)
.|..|.++++++-+.+|.+-|
T Consensus 18 ~~~~F~~iA~vAH~l~w~wrP 38 (41)
T 1nkz_B 18 GTRVFLGLALVAHFLAFSATP 38 (41)
T ss_dssp HHHHHHHHHHHHHHHHHHHSS
T ss_pred HHHHHHHHHHHHHHHHHHhCC
Confidence 466677788888888877665
No 11
>3o7q_A L-fucose-proton symporter; transporter, multi-PASS membrane protei transport protein; HET: BNG; 3.14A {Escherichia coli} PDB: 3o7p_A*
Probab=32.47 E-value=72 Score=21.40 Aligned_cols=28 Identities=7% Similarity=0.091 Sum_probs=16.4
Q ss_pred chhHHHHHHHHHHHHHHHHH-hhccCCCC
Q 042496 37 ATPAVVLGALVAVRGVAFVT-FLVPATKG 64 (80)
Q Consensus 37 ~~~vF~ifa~i~~v~~v~~~-~~lPETkg 64 (80)
|...|++.+++..+..+..+ ...||++.
T Consensus 208 w~~~~~~~~~~~~~~~~~~~~~~~p~~~~ 236 (438)
T 3o7q_A 208 VQTPYMIIVAIVLLVALLIMLTKFPALQS 236 (438)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCCCCCCTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCcccc
Confidence 56777777666655554433 34566543
No 12
>2xut_A Proton/peptide symporter family protein; transport protein, membrane protein, major facilitator super transporter; 3.62A {Shewanella oneidensis}
Probab=32.38 E-value=85 Score=21.84 Aligned_cols=26 Identities=12% Similarity=0.064 Sum_probs=17.8
Q ss_pred hhcCchhHHHHHHHHHHHHHHHHHhh
Q 042496 33 SDSSATPAVVLGALVAVRGVAFVTFL 58 (80)
Q Consensus 33 ~~~g~~~vF~ifa~i~~v~~v~~~~~ 58 (80)
+..||..+|++.+++.+++.+..++.
T Consensus 173 ~~~g~~~~f~~~~~~~~~~~~~~~~~ 198 (524)
T 2xut_A 173 KNFGAAVAFGIPGVLMFVATVFFWLG 198 (524)
T ss_dssp HTSCHHHHHHHHHHHHHHHHHHHHSS
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHHh
Confidence 35788888888887777665555443
No 13
>2ki0_A DS119; beta-alpha-beta, de novo protein; NMR {Synthetic}
Probab=31.32 E-value=9.4 Score=18.51 Aligned_cols=12 Identities=50% Similarity=0.598 Sum_probs=9.1
Q ss_pred ChhHhhhhhhhh
Q 042496 3 RPEERLKLEERL 14 (80)
Q Consensus 3 ~~~~~~~~~~~~ 14 (80)
.|||-.||+++-
T Consensus 13 tpeelkklkeea 24 (36)
T 2ki0_A 13 TPEELKKLKEEA 24 (36)
T ss_dssp CHHHHHHHHHHH
T ss_pred CHHHHHHHHHHH
Confidence 488888887764
No 14
>2iub_A CORA, divalent cation transport-related protein; membrane protein, ION transporter; 2.9A {Thermotoga maritima} SCOP: d.328.1.1 f.17.3.1 PDB: 2hn2_A 2bbj_A
Probab=30.96 E-value=31 Score=24.23 Aligned_cols=17 Identities=18% Similarity=0.171 Sum_probs=9.1
Q ss_pred hhcchhhhhhhhcCChh
Q 042496 13 RLIPSSSLADEIGDGSG 29 (80)
Q Consensus 13 ~~~~~~~~~~~~~~~~~ 29 (80)
=.+|-+-++-.||++..
T Consensus 312 IflP~T~IaGiyGMNf~ 328 (363)
T 2iub_A 312 IFMPLTFIAGIYGMNFE 328 (363)
T ss_dssp HHHHHHHHTTSCC----
T ss_pred HHHHHHHHHhhhcccCC
Confidence 35577777777887765
No 15
>1lgh_B LH II, B800/850, light harvesting complex II; bacteriochlorophyll, dexter energy transfer, foerster exciton transfer mechanism; HET: BCL LYC DET HTO; 2.40A {Phaeospirillum molischianum} SCOP: f.3.1.1
Probab=30.68 E-value=60 Score=16.71 Aligned_cols=21 Identities=14% Similarity=0.056 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHhhcc
Q 042496 40 AVVLGALVAVRGVAFVTFLVP 60 (80)
Q Consensus 40 vF~ifa~i~~v~~v~~~~~lP 60 (80)
.|..|.++++++-+.+|.+-|
T Consensus 23 ~~~~F~~iA~vAH~L~~~wrP 43 (45)
T 1lgh_B 23 TFSAFIILAAVAHVLVWVWKP 43 (45)
T ss_dssp HHHHHHHHHHHHHHHHHHHSC
T ss_pred HHHHHHHHHHHHHHHHHHhcC
Confidence 466777788888888877665
No 16
>4aps_A DI-OR tripeptide H+ symporter; transport protein, peptide transport, major facilitator SUPE transporter, MFS; 3.30A {Streptococcus thermophilus}
Probab=27.08 E-value=79 Score=21.74 Aligned_cols=26 Identities=19% Similarity=0.116 Sum_probs=18.1
Q ss_pred hhcCchhHHHHHHHHHHHHHHHHHhh
Q 042496 33 SDSSATPAVVLGALVAVRGVAFVTFL 58 (80)
Q Consensus 33 ~~~g~~~vF~ifa~i~~v~~v~~~~~ 58 (80)
+..||..+|++.++..+++.+..++.
T Consensus 171 ~~~g~~~~f~~~~~~~~~~~~~~~~~ 196 (491)
T 4aps_A 171 EAAGYHVAFSLAAIGMFIGLLVYYFG 196 (491)
T ss_dssp HHSCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHh
Confidence 45788888888877776666655443
No 17
>2wwb_A Protein transport protein SEC61 subunit alpha ISO; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Canis lupus familiaris}
Probab=25.66 E-value=1.6e+02 Score=21.95 Aligned_cols=18 Identities=6% Similarity=0.300 Sum_probs=14.4
Q ss_pred CCCCCCHHHHHHHHhhcc
Q 042496 61 ATKGRTLEEIQASITKLS 78 (80)
Q Consensus 61 ETkg~sLeeI~~~~~~~~ 78 (80)
+..|.+.+|+.+.+++..
T Consensus 381 ~i~g~np~dvA~~Lkk~G 398 (476)
T 2wwb_A 381 EVSGSSAKDVAKQLKEQQ 398 (476)
T ss_dssp TTSSCCHHHHHHHHHHHC
T ss_pred HHhCCCHHHHHHHHHHcC
Confidence 777889999998887643
No 18
>1dx7_A Light-harvesting protein B-875-beta chain; bacteriochlorophyll binding, membrane protein, photosynthesis; NMR {Rhodobacter sphaeroides} SCOP: f.3.1.1 PDB: 1jo5_A
Probab=23.40 E-value=51 Score=17.19 Aligned_cols=21 Identities=24% Similarity=0.124 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHhhcc
Q 042496 40 AVVLGALVAVRGVAFVTFLVP 60 (80)
Q Consensus 40 vF~ifa~i~~v~~v~~~~~lP 60 (80)
.|..|.++++++-+.+|.+-|
T Consensus 26 ~~~~F~~iA~vAH~l~w~wrP 46 (48)
T 1dx7_A 26 GLWLFSAVAIVAHLAVYIWRP 46 (48)
T ss_dssp HHHHHTTHHHHHHHHHHHSSC
T ss_pred HHHHHHHHHHHHHHHHHHhcC
Confidence 466777788888888887665
Done!