Query 041078
Match_columns 297
No_of_seqs 129 out of 164
Neff 5.0
Searched_HMMs 29240
Date Mon Mar 25 05:27:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041078.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/041078hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3j27_B Matrix protein, small e 16.2 1E+02 0.0035 23.0 2.9 33 25-61 22-54 (75)
2 1p58_D Envelope protein M; fla 14.6 98 0.0034 23.1 2.4 32 26-61 23-54 (75)
3 3cue_C Transport protein parti 12.3 1.5E+02 0.0051 24.6 3.2 25 19-43 94-119 (159)
4 2j3t_C Trafficking protein par 11.8 1.3E+02 0.0046 24.4 2.7 41 19-59 88-140 (145)
5 2jr1_A Virulence regulator; H- 9.4 1.3E+02 0.0046 22.7 1.7 31 11-45 42-72 (79)
6 3cue_A Transport protein parti 8.2 1.8E+02 0.006 26.0 2.2 21 26-46 177-197 (219)
7 2j3t_D Trafficking protein par 8.0 2.7E+02 0.0091 24.7 3.3 28 18-45 160-187 (219)
8 2fm8_A Surface presentation of 7.2 28 0.00096 28.8 -3.2 81 8-88 51-133 (135)
9 1nkz_B Light-harvesting protei 7.0 76 0.0026 21.2 -0.5 6 244-249 35-40 (41)
10 3t98_B Nucleoporin NUP58/NUP45 6.1 4.8E+02 0.016 19.9 3.5 58 23-90 5-62 (93)
No 1
>3j27_B Matrix protein, small envelope protein M; flavivirus, fusion protein, protein complex, membrane, chape virus; HET: NAG; 3.60A {Dengue virus 2} PDB: 3j2p_B* 1p58_D
Probab=16.20 E-value=1e+02 Score=22.97 Aligned_cols=33 Identities=15% Similarity=0.336 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHhhcchhhHhHHHHHhhhhhhcc
Q 041078 25 LDRVCKAMDAYKRWVRRNRDYVHSLESLANGLTWLLP 61 (297)
Q Consensus 25 l~~~~~~~~~Y~~~V~~Np~~v~~lEs~lr~lsyllp 61 (297)
-+...+-+++=|+||.|||..+- ++=.+.|.+-
T Consensus 22 ~~~~~~~l~rvE~WilrNp~~al----~~~~~~w~lG 54 (75)
T 3j27_B 22 SEGAWKHAQRIETWILRHPGFTI----MAAILAYTIG 54 (75)
T ss_dssp THHHHHHHHHHHHHHHHCCTHHH----HHHHHHHHSS
T ss_pred cchHHHHHHHHHHHHHHChHHHH----HHHHHHHHHc
Confidence 34566777889999999998763 3334666554
No 2
>1p58_D Envelope protein M; flavivirus, flaviviridae, glycoprotein E from borne encephalitis virus, membrane protein M, cryo-EM, ICOS virus; 9.50A {Dengue virus 2 puerto rico} SCOP: i.17.1.1
Probab=14.56 E-value=98 Score=23.12 Aligned_cols=32 Identities=13% Similarity=0.287 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHhhcchhhHhHHHHHhhhhhhcc
Q 041078 26 DRVCKAMDAYKRWVRRNRDYVHSLESLANGLTWLLP 61 (297)
Q Consensus 26 ~~~~~~~~~Y~~~V~~Np~~v~~lEs~lr~lsyllp 61 (297)
+...+-+++=|+||.|||..+--+ =.+.|.+-
T Consensus 23 ~~~~~~l~kvE~WilrNp~~al~a----~~~~w~lG 54 (75)
T 1p58_D 23 EGAWKHAQRIETWILRHPGFTIMA----AILAYTIG 54 (75)
T ss_pred chHHHHHHHHHHHHHHChHHHHHH----HHHHHHHc
Confidence 355666788899999999776322 25566554
No 3
>3cue_C Transport protein particle 18 kDa subunit; membrane traffic, GEF, tethering complex, RAB activation, GU nucleotide exchange factor; HET: PLM; 3.70A {Saccharomyces cerevisiae}
Probab=12.29 E-value=1.5e+02 Score=24.62 Aligned_cols=25 Identities=12% Similarity=0.017 Sum_probs=19.2
Q ss_pred CcchhhHHHHHHHHH-HHHHHHhhcc
Q 041078 19 PSLFLCLDRVCKAMD-AYKRWVRRNR 43 (297)
Q Consensus 19 ~~~~~~l~~~~~~~~-~Y~~~V~~Np 43 (297)
|.....=..++++++ .|.++|.+||
T Consensus 94 ~~~~~i~~~l~~iy~~lYv~yv~kNP 119 (159)
T 3cue_C 94 FKQQSYTQVLQYIYSHIYVKYVSNNL 119 (159)
T ss_dssp SSSSCTHHHHHHHHHHHHHHHHHSCT
T ss_pred CCcchHHHHHHHHHHHHHHHHHHhCC
Confidence 444444456788887 9999999999
No 4
>2j3t_C Trafficking protein particle complex subunit 1, trafficking protein particle complex subunit 3; trapp, palmitate, transport, lipoprotein, ER-golgi transport apparatus, protein transport; HET: PLM; 2.4A {Mus musculus}
Probab=11.77 E-value=1.3e+02 Score=24.41 Aligned_cols=41 Identities=17% Similarity=0.210 Sum_probs=29.3
Q ss_pred CcchhhHHHHHHHH-HHHHHHHhhcc-----------hhhHhHHHHHhhhhhh
Q 041078 19 PSLFLCLDRVCKAM-DAYKRWVRRNR-----------DYVHSLESLANGLTWL 59 (297)
Q Consensus 19 ~~~~~~l~~~~~~~-~~Y~~~V~~Np-----------~~v~~lEs~lr~lsyl 59 (297)
|+....=.-+++++ +.|.++|.+|| ..-..|+..+|.+.+|
T Consensus 88 ~~~~~i~~~l~~iy~~lYv~~v~kNPfy~~~~pI~s~~Fd~~v~~~~~~~~~f 140 (145)
T 2j3t_C 88 LGVGPIRDVLHHIYSALYVEFVVKNPLCPLGQTVQSELFRSRLDSYVRSLPFF 140 (145)
T ss_dssp TTCCCCHHHHHHHHHTTHHHHTTTCTTSCTTSCCCCHHHHHHHHHHHTTSTTC
T ss_pred CCcchHHHHHHHHHHHHHHHHHhcCCCCCCCCceecHHHHHHHHHHHHhCccc
Confidence 44445556788899 89999999997 3445566666666654
No 5
>2jr1_A Virulence regulator; H-NS, DNA biding protein, DNA binding PR; NMR {Xylella fastidiosa}
Probab=9.39 E-value=1.3e+02 Score=22.74 Aligned_cols=31 Identities=26% Similarity=0.492 Sum_probs=23.3
Q ss_pred EEeeeeecCcchhhHHHHHHHHHHHHHHHhhcchh
Q 041078 11 VWTRRFRKPSLFLCLDRVCKAMDAYKRWVRRNRDY 45 (297)
Q Consensus 11 ~~~~~~~~~~~~~~l~~~~~~~~~Y~~~V~~Np~~ 45 (297)
.||-|=+.|.-....-.- .+|++|=.+||+.
T Consensus 42 TWsGrGR~P~Wi~~~l~~----~~~k~wk~~~p~~ 72 (79)
T 2jr1_A 42 TWSGRGKIPKPFEAWIGT----AAYTAWKAKHPDE 72 (79)
T ss_dssp EEEESCCCCHHHHHHHHH----TTHHHHHHHSSSC
T ss_pred cccCCCCCCHHHHHHHHH----hHHHHHHhhCCCC
Confidence 589999999765443322 5699999999974
No 6
>3cue_A Transport protein particle 23 kDa subunit; membrane traffic, GEF, tethering complex, RAB activation, GU nucleotide exchange factor; HET: PLM; 3.70A {Saccharomyces cerevisiae}
Probab=8.17 E-value=1.8e+02 Score=25.97 Aligned_cols=21 Identities=19% Similarity=0.350 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHhhcchhh
Q 041078 26 DRVCKAMDAYKRWVRRNRDYV 46 (297)
Q Consensus 26 ~~~~~~~~~Y~~~V~~Np~~v 46 (297)
.-++++++.|.++|.+||=..
T Consensus 177 ~ff~~VYelYvd~VmkNPFY~ 197 (219)
T 3cue_A 177 NFLRKVYCLYSDYVMKDPSYS 197 (219)
T ss_dssp HHHHHHHHHHHHHHHSCTTCC
T ss_pred HHHHHHHHHHHHHHhcCCCCC
Confidence 467788999999999999543
No 7
>2j3t_D Trafficking protein particle complex subunit 4; trapp, palmitate, transport, lipoprotein, ER-golgi transport apparatus, protein transport; HET: PLM; 2.4A {Homo sapiens} PDB: 2zmv_A 2jsn_A
Probab=7.95 E-value=2.7e+02 Score=24.72 Aligned_cols=28 Identities=18% Similarity=0.174 Sum_probs=21.4
Q ss_pred cCcchhhHHHHHHHHHHHHHHHhhcchh
Q 041078 18 KPSLFLCLDRVCKAMDAYKRWVRRNRDY 45 (297)
Q Consensus 18 ~~~~~~~l~~~~~~~~~Y~~~V~~Np~~ 45 (297)
.|+....=..++++++.|.++|.+||=.
T Consensus 160 d~~~~~ir~~l~~IyelYvd~V~kNPFY 187 (219)
T 2j3t_D 160 DPRQAGIDSLLRKIYEIYSDFALKNPFY 187 (219)
T ss_dssp CTTCCCHHHHHHHHHHHHHHHHTTCTTC
T ss_pred cCCchHHHHHHHHHHHHHHHHhccCCCC
Confidence 3455555567888899999999999843
No 8
>2fm8_A Surface presentation of antigens protein SPAK; type III secretion, chaperone, translocation, protein foldin virulence, bacterial, chaperone-cell invasion C; 2.20A {Salmonella typhimurium} SCOP: d.198.1.1
Probab=7.19 E-value=28 Score=28.85 Aligned_cols=81 Identities=12% Similarity=0.187 Sum_probs=53.3
Q ss_pred eEEEEeee--eecCcchhhHHHHHHHHHHHHHHHhhcchhhHhHHHHHhhhhhhccccCCCCcchhhHHHHHHHHHHHhh
Q 041078 8 RVWVWTRR--FRKPSLFLCLDRVCKAMDAYKRWVRRNRDYVHSLESLANGLTWLLPEWFSESEIGPEAVTTFLGIITAIN 85 (297)
Q Consensus 8 ~~~~~~~~--~~~~~~~~~l~~~~~~~~~Y~~~V~~Np~~v~~lEs~lr~lsyllpgrf~~se~~sE~vys~~nLl~l~n 85 (297)
.||+|..- +--..+.++-..+...+-.|.+|...-|......|..+-.=..+-|-...|.+..++++-.+...+.-||
T Consensus 51 ~vwiWs~L~~~~~~~L~~~s~~LL~~ll~~~~F~~gq~~ll~~~d~~LeL~A~v~~~~L~d~~~Fa~ale~Ff~~l~~~~ 130 (135)
T 2fm8_A 51 DVWIWAQLGADSMVVLQQRAYEILMTIMEGCHFARGGQLLLGEQNGELTLKALVHPDFLSDGEKFSTALNGFYNYLEVFS 130 (135)
T ss_dssp EEEEEEECCTTHHHHHHHHHHHHHHHHHTCCTTBGGGSCEEEEETTEEEEEEEBCGGGSSSHHHHHHHHHHHHHHHHHHH
T ss_pred cEEEEEeCCccCHhHHHHHHHHHHHHHhccCCCCcCCceeeeecCCcEEEEEEEcHHHhhCHHHHHHHHHHHHHHHHHHH
Confidence 58999763 1111223444456666666777777777777777777766666777777777777777777776666666
Q ss_pred ccc
Q 041078 86 EHI 88 (297)
Q Consensus 86 D~I 88 (297)
..+
T Consensus 131 ~~l 133 (135)
T 2fm8_A 131 RSL 133 (135)
T ss_dssp HHT
T ss_pred HHH
Confidence 544
No 9
>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=6.98 E-value=76 Score=21.25 Aligned_cols=6 Identities=50% Similarity=1.210 Sum_probs=4.2
Q ss_pred ChHHHH
Q 041078 244 SWIPWF 249 (297)
Q Consensus 244 SWkPWL 249 (297)
.|+||+
T Consensus 35 ~wrPWl 40 (41)
T 1nkz_B 35 SATPWL 40 (41)
T ss_dssp HHSSTT
T ss_pred HhCCCC
Confidence 577775
No 10
>3t98_B Nucleoporin NUP58/NUP45; NUP62 complex, nuclear import, coiled-coil, HE hairpin, FG-repeat, NPC, nuclear tranport, TRA channel, karyopherin; 2.50A {Rattus norvegicus} PDB: 2osz_A
Probab=6.06 E-value=4.8e+02 Score=19.94 Aligned_cols=58 Identities=10% Similarity=0.075 Sum_probs=39.9
Q ss_pred hhHHHHHHHHHHHHHHHhhcchhhHhHHHHHhhhhhhccccCCCCcchhhHHHHHHHHHHHhhccccc
Q 041078 23 LCLDRVCKAMDAYKRWVRRNRDYVHSLESLANGLTWLLPEWFSESEIGPEAVTTFLGIITAINEHIIE 90 (297)
Q Consensus 23 ~~l~~~~~~~~~Y~~~V~~Np~~v~~lEs~lr~lsyllpgrf~~se~~sE~vys~~nLl~l~nD~Il~ 90 (297)
++..=..++.+.|++.+..-...+.++|.-|.+++ -|-- +. -.+++..+.-.|+..+.
T Consensus 5 ~P~~yF~~lv~~fe~rL~~Yr~~IeelE~~L~s~s--~~~~-----~T---pq~L~~~l~~~h~~Fia 62 (93)
T 3t98_B 5 APADYFRVLVQQFEVQLQQYRQQIEELENHLATQA--NNSH-----IT---PQDLSMAMQKIYQTFVA 62 (93)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCHH--HHTT-----SC---HHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--CCCC-----CC---HHHHHHHHHHHHHHHHH
Confidence 44555667788899999999999999999998876 2211 11 25566666666655443
Done!