Query 028705
Match_columns 205
No_of_seqs 121 out of 240
Neff 3.9
Searched_HMMs 29240
Date Tue Mar 26 02:28:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028705.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/028705hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3j01_A Preprotein translocase 35.1 59 0.002 29.9 5.8 108 73-184 308-426 (435)
2 3owt_C Regulatory protein SIR3 34.4 12 0.00042 22.1 0.7 15 31-45 13-27 (27)
3 2rdd_B UPF0092 membrane protei 30.0 58 0.002 20.0 3.4 27 152-179 6-32 (37)
4 3r84_A Mediator of RNA polymer 28.5 32 0.0011 25.5 2.3 24 165-188 60-86 (86)
5 3din_C Preprotein translocase 26.3 61 0.0021 29.8 4.3 108 73-184 304-422 (431)
6 3dl8_G Preprotein translocase 19.4 52 0.0018 30.2 2.3 104 73-183 309-426 (429)
7 2hac_A T-cell surface glycopro 15.7 1.1E+02 0.0037 19.1 2.4 19 154-172 10-28 (33)
8 1v74_A Colicin D; colicin D - 12.7 86 0.003 24.2 1.7 12 169-180 12-23 (107)
9 1u84_A Hypothetical protein; s 9.9 1.5E+02 0.0051 21.9 2.1 23 168-191 9-31 (90)
10 3fcn_A AN alpha-helical protei 9.0 1.1E+02 0.0039 24.7 1.3 15 168-182 62-76 (164)
No 1
>3j01_A Preprotein translocase SECY subunit; ribonucleoprotein, nucleotide-binding, PR biosynthesis, translation, zinc-finger, 70S ribosome, ribos translocon; 7.10A {Escherichia coli 536} PDB: 2akh_Y 2aki_Y
Probab=35.09 E-value=59 Score=29.91 Aligned_cols=108 Identities=15% Similarity=0.273 Sum_probs=55.8
Q ss_pred cEEEeehhHHHHHHHHHHhhcCCCCCCCC------CCCCCCCCCCCCCCCCcccCCchhHHHHHHHHHHHHH---HHHHh
Q 028705 73 GFYIITYGLGIYLLNLLMGFLSPQIDPEY------SDGPTLPTRGSDEFRPFVRRLPEFKFWYCVTRSFCIG---FVLTF 143 (205)
Q Consensus 73 g~YiVtY~LgIylLnlfi~FLtPk~Dp~l------~eg~~LP~~~~dEFRPFiRRLPEFkFW~~~trat~ia---~~~Tf 143 (205)
-.|.+.|++-|....-|..++ .+||+. +.|...|+-++. +|=.+-|-.--.=.....|+.++ .+..+
T Consensus 308 ~~~~~~y~~lii~F~~fyt~i--~~np~diA~~lkk~G~~IpGiRpG--~~T~~yL~~vi~rit~~Ga~~L~~iavlP~~ 383 (435)
T 3j01_A 308 PLYVLLYASAIIFFCFFYTAL--VFNPRETADNLKKSGAFVPGIRPG--EQTAKYIDKVMTRLTLVGALYITFICLIPEF 383 (435)
T ss_dssp GGGTHHHHHHHHHHHHHHHHH--SSCTTHHHHHTTSTTCSSSCCSSS--SSSCSHHHHHHHHHCHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHH--ccCHHHHHHHHHHcCCcCCCcCCC--hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357788888888888888887 578876 346666654432 12111111111112223333333 33455
Q ss_pred hc-cCCCcchhHHH-HHHHHHHHHHHHHHHHHHHhhhccccCC
Q 028705 144 FS-AFDVPVFWPIL-LFYWLMLFTLTMRRQIMHMIKYRYVPFS 184 (205)
Q Consensus 144 f~-~fDiPVFWPIL-l~YFi~Lf~lTm~rqI~HMiKyrYvPf~ 184 (205)
+. .+++|.+-.-- ++=-+..-.=|+++--.||+.++|-.|-
T Consensus 384 l~~~~~~~~~~gGTslLI~VgV~ldt~~qi~s~l~~~~Y~g~~ 426 (435)
T 3j01_A 384 MRDAMKVPFYFGGTSLLIVVVVIMDFMAQVQTLMMSSQYESAL 426 (435)
T ss_dssp TTSCCSSSSSSCCHHHHHTHHHHHHHHHHHHHHTSCCCCCCSC
T ss_pred HHHhhccCeecccHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 54 35666431110 1111222223455555688999999884
No 2
>3owt_C Regulatory protein SIR3; RCT domain, protein binding; 2.00A {Saccharomyces cerevisiae}
Probab=34.41 E-value=12 Score=22.15 Aligned_cols=15 Identities=27% Similarity=0.514 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHhhc
Q 028705 31 WKYNVSRRYQHLLDK 45 (205)
Q Consensus 31 ~~~k~~~~yQ~~LDk 45 (205)
..++++.+||..||+
T Consensus 13 tlsklkkkyqiildr 27 (27)
T 3owt_C 13 TLSKLKKKYQIILDR 27 (27)
T ss_pred HHHHHHhhheeeecC
Confidence 467899999999995
No 3
>2rdd_B UPF0092 membrane protein YAJC; drug resistance, multidrug efflux, transporter, antiporter, novel transmembrane helix, ACRB, inner membrane; HET: AIC; 3.50A {Escherichia coli}
Probab=30.01 E-value=58 Score=19.97 Aligned_cols=27 Identities=11% Similarity=0.305 Sum_probs=17.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 028705 152 FWPILLFYWLMLFTLTMRRQIMHMIKYR 179 (205)
Q Consensus 152 FWPILl~YFi~Lf~lTm~rqI~HMiKyr 179 (205)
++|+++ -+++++++..|-|-|...+++
T Consensus 6 ~l~~v~-~~~ifYFl~iRPQ~Kr~K~~~ 32 (37)
T 2rdd_B 6 ILMLVV-FGLIFYFMILRPQQKRTKEHK 32 (37)
T ss_dssp HHHHHH-HHHHHHHHTHHHHHHHHHHHT
T ss_pred HHHHHH-HHHHHHHHHhhhHHHHHHHHH
Confidence 344443 345566777788888777764
No 4
>3r84_A Mediator of RNA polymerase II transcription subun; four-helix bundle, nucleus; HET: MSE; 2.05A {Saccharomyces cerevisiae}
Probab=28.52 E-value=32 Score=25.50 Aligned_cols=24 Identities=25% Similarity=0.556 Sum_probs=15.3
Q ss_pred HHHHHHHHHHH---hhhccccCCCCcc
Q 028705 165 TLTMRRQIMHM---IKYRYVPFSLGKQ 188 (205)
Q Consensus 165 ~lTm~rqI~HM---iKyrYvPf~~gK~ 188 (205)
...|||||+|| |--|-+|-+.+||
T Consensus 60 ~v~LrkEIk~LdEnig~~~LPinv~~k 86 (86)
T 3r84_A 60 TTQLRKEIQLLDENVGTRLLPINVNKK 86 (86)
T ss_dssp HHHHHHHHHHHHHTBTTTBCCC-----
T ss_pred HHHHHHHHHHHHHccCCeeecccCCCC
Confidence 45789999999 6677788777664
No 5
>3din_C Preprotein translocase subunit SECY; protein translocation, membrane protein, ATPase, ATP-binding membrane, nucleotide-binding, protein transport; HET: ADP; 4.50A {Thermotoga maritima MSB8}
Probab=26.30 E-value=61 Score=29.79 Aligned_cols=108 Identities=17% Similarity=0.230 Sum_probs=53.2
Q ss_pred cEEEeehhHHHHHHHHHHhhcCCCCCCCC------CCCCCCCCCCCCCCCCcccCCchhHHHHHHHHHHHHHH---HHHh
Q 028705 73 GFYIITYGLGIYLLNLLMGFLSPQIDPEY------SDGPTLPTRGSDEFRPFVRRLPEFKFWYCVTRSFCIGF---VLTF 143 (205)
Q Consensus 73 g~YiVtY~LgIylLnlfi~FLtPk~Dp~l------~eg~~LP~~~~dEFRPFiRRLPEFkFW~~~trat~ia~---~~Tf 143 (205)
-+|.+.|++.|.+..-|-.+++ +||+. +.|...|+-++. +|=.+-|-.--.=.....++.+++ +..+
T Consensus 304 ~~y~~~y~~lii~Fs~fy~~i~--~np~diA~~lkk~G~~IpGiRpG--~~T~~yL~~vi~rit~~Ga~~L~~iavlp~~ 379 (431)
T 3din_C 304 FLYLLIYGLLVFFFTYFYSVVI--FDPREISENIRKYGGYIPGLRPG--RSTEQYLHRVLNRVTFIGAVFLVVIALLPYL 379 (431)
T ss_dssp HHHHHHHHHHHHHHHHHHHTCT--THHHHHTTSCCCCBCSSCCCCCT--THHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHh--cCHHHHHHHHHHCCCcCCCCCCC--hhHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 3567788888888888888886 88865 223344443322 121111111111112233333333 3355
Q ss_pred hcc-CCCcchhHHHHHHHHHHHHHHHHHHH-HHHhhhccccCC
Q 028705 144 FSA-FDVPVFWPILLFYWLMLFTLTMRRQI-MHMIKYRYVPFS 184 (205)
Q Consensus 144 f~~-fDiPVFWPILl~YFi~Lf~lTm~rqI-~HMiKyrYvPf~ 184 (205)
+.. +++|.+-.---+--++-.++-..+|| .|++.++|-.|-
T Consensus 380 ~~~~~g~~~~~gGTslLI~Vgv~l~~~~qi~s~~~~~~Y~g~~ 422 (431)
T 3din_C 380 VQGAIKVNVWIGGTSALIAVGVALDIIQQMETHMVMRHYEGFI 422 (431)
T ss_dssp HTTTSCCSCCTTHHHHHHHHHHHHHHHHHHHHHCCCCCSSTTC
T ss_pred HHHHhCCCccccchhhhhhHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 543 56763322111111223334444555 688899999884
No 6
>3dl8_G Preprotein translocase subunit SECY; RECA-type ATPase membrane protein translocation protein- protein complex, ATP-binding, cell membrane; 7.50A {Aquifex aeolicus}
Probab=19.40 E-value=52 Score=30.21 Aligned_cols=104 Identities=18% Similarity=0.287 Sum_probs=51.4
Q ss_pred cEEEeehhHHHHHHHHHHhhcCCCCCCCC-CCCCCCCCCCCCCCCCcccCC-c------hhHHHHHHHHHHHHH---HHH
Q 028705 73 GFYIITYGLGIYLLNLLMGFLSPQIDPEY-SDGPTLPTRGSDEFRPFVRRL-P------EFKFWYCVTRSFCIG---FVL 141 (205)
Q Consensus 73 g~YiVtY~LgIylLnlfi~FLtPk~Dp~l-~eg~~LP~~~~dEFRPFiRRL-P------EFkFW~~~trat~ia---~~~ 141 (205)
-+|.+.|++.|.+..-|-.+++ +||+. .|. -+++..|=|=+|.= | .--.=.....|+.++ .+.
T Consensus 309 ~~y~~~y~~lii~Fs~fy~~i~--~np~diA~~----lkk~G~~IpGiRpG~~T~~yL~~vi~rit~~Ga~~L~~iavlp 382 (429)
T 3dl8_G 309 IFYNFLYVTFIVFFTYFYTAVL--INPVELAEN----LHKAGAFIPGVRPGQDTVKYLERIINRLIFFGALFLSVIALIP 382 (429)
T ss_dssp HHHHHHHHHHHHHHHHHHHTCT--THHHHHHHT----CCCCBSSSBCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHc--cCHHHHHHH----HHHCCCcCCCCCCChhHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 3677788888888888888886 88875 111 12333444443331 1 111111222333333 334
Q ss_pred Hhhcc-CCCcchh-HHHHHHHHHHHHHHHHHHH-HHHhhhccccC
Q 028705 142 TFFSA-FDVPVFW-PILLFYWLMLFTLTMRRQI-MHMIKYRYVPF 183 (205)
Q Consensus 142 Tff~~-fDiPVFW-PILl~YFi~Lf~lTm~rqI-~HMiKyrYvPf 183 (205)
.++.. +++|.+- ..=++ -++-.++-..+|| .||+.++|-.|
T Consensus 383 ~~~~~~~g~~~~~gGTslL-I~Vgv~l~~~~qi~s~l~~~~Y~g~ 426 (429)
T 3dl8_G 383 ILISVWFNIPFYFGGTTAL-IVVGVALDTFRQIETYLIQKKYKSY 426 (429)
T ss_dssp HHHTTSSCCSCCCSTHHHH-HHHHHHHHHHHHHHHHCCCCCTTCS
T ss_pred HHHHHHhCCCccccchhhh-hhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 55543 5777431 11011 1222334444555 67888888776
No 7
>2hac_A T-cell surface glycoprotein CD3 zeta chain; transmembrane, alpha helix, membrane protein; NMR {Homo sapiens}
Probab=15.71 E-value=1.1e+02 Score=19.13 Aligned_cols=19 Identities=32% Similarity=0.522 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 028705 154 PILLFYWLMLFTLTMRRQI 172 (205)
Q Consensus 154 PILl~YFi~Lf~lTm~rqI 172 (205)
-||++|=|++..+-.|..+
T Consensus 10 giL~iYgii~T~Ly~R~K~ 28 (33)
T 2hac_A 10 GILFIYGVILTALFLRVKF 28 (33)
T ss_dssp HHHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 3799999999999988654
No 8
>1v74_A Colicin D; colicin D - IMMD complex, cytotoxicity, transfer RNAse, protein-protein inhibition; HET: 1PE; 2.00A {Escherichia coli} SCOP: d.243.1.1 PDB: 1tfo_A 1tfk_A*
Probab=12.75 E-value=86 Score=24.19 Aligned_cols=12 Identities=25% Similarity=0.135 Sum_probs=10.6
Q ss_pred HHHHHHHhhhcc
Q 028705 169 RRQIMHMIKYRY 180 (205)
Q Consensus 169 ~rqI~HMiKyrY 180 (205)
++|.+||-||.+
T Consensus 12 ~~qLqkkfkHa~ 23 (107)
T 1v74_A 12 RKQLDKKYKHAG 23 (107)
T ss_dssp HHHHHHHGGGGG
T ss_pred HHHHHhHhcccc
Confidence 799999999765
No 9
>1u84_A Hypothetical protein; structural genomics, protein structure initiative, MCSG, PSI center for structural genomics; 1.60A {Geobacillus stearothermophilus} SCOP: a.230.1.1 PDB: 3r2x_C*
Probab=9.88 E-value=1.5e+02 Score=21.95 Aligned_cols=23 Identities=39% Similarity=0.816 Sum_probs=19.6
Q ss_pred HHHHHHHHhhhccccCCCCccccC
Q 028705 168 MRRQIMHMIKYRYVPFSLGKQRYD 191 (205)
Q Consensus 168 m~rqI~HMiKyrYvPf~~gK~~y~ 191 (205)
|.+++.|+|+ .+-||..|+.-|.
T Consensus 9 ~~~~~~~iI~-~WDPf~~g~D~Y~ 31 (90)
T 1u84_A 9 LNRLLLEWIG-AWDPFGLGKDAYD 31 (90)
T ss_dssp HHHHHHHHHH-HHCTTSSCGGGGH
T ss_pred HHHHHHHHHH-cCCCCcCCCccch
Confidence 7789999998 4899999988773
No 10
>3fcn_A AN alpha-helical protein of unknown function (PFA; DUF29 family protein, structural genomics; HET: MSE; 1.45A {Rhodospirillum rubrum atcc 11170}
Probab=9.05 E-value=1.1e+02 Score=24.73 Aligned_cols=15 Identities=20% Similarity=0.293 Sum_probs=0.0
Q ss_pred HHHHHHHHhhhcccc
Q 028705 168 MRRQIMHMIKYRYVP 182 (205)
Q Consensus 168 m~rqI~HMiKyrYvP 182 (205)
+++.|.|++|++|.|
T Consensus 62 L~~Ll~HLLKwqyqp 76 (164)
T 3fcn_A 62 VRQICVRVIMAMSAP 76 (164)
T ss_dssp HHHHHHHHHHHHHST
T ss_pred HHHHHHHHHHHHHhh
Done!