Query 022238
Match_columns 300
No_of_seqs 117 out of 211
Neff 6.2
Searched_HMMs 29240
Date Mon Mar 25 16:12:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022238.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/022238hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3fxd_A Protein ICMQ; helix bun 33.8 10 0.00035 26.4 0.3 7 286-292 23-29 (57)
2 1v54_M VIIIB, IX, cytochrome C 33.7 27 0.00093 23.3 2.4 24 261-284 18-43 (46)
3 3bkd_A Transmembrane domain of 25.5 70 0.0024 18.5 2.9 19 142-160 1-19 (26)
4 2y69_M Cytochrome C oxidase po 24.6 55 0.0019 23.7 2.9 24 261-284 42-67 (70)
5 2ljb_A M2 protein, BM2 protein 20.6 81 0.0028 19.6 2.6 20 141-160 4-23 (35)
6 2cjr_A Nucleocapsid protein; o 16.7 1.3E+02 0.0044 24.2 3.8 39 3-41 14-62 (128)
7 2kih_A Matrix protein 2; S31N, 13.8 1.5E+02 0.0051 19.0 2.8 20 141-160 4-23 (43)
8 2jyl_A Capsid protein P24 (Ca) 12.7 24 0.00082 27.4 -1.5 22 20-43 30-51 (105)
9 2jy0_A Protease NS2-3; membran 12.6 55 0.0019 19.3 0.4 17 119-135 11-27 (27)
10 1baj_A GAG polyprotein; capsid 10.1 32 0.0011 26.4 -1.6 22 20-43 12-33 (101)
No 1
>3fxd_A Protein ICMQ; helix bundle, helix-turn-helix, unknown function; 2.10A {Legionella pneumophila} PDB: 3fxe_A
Probab=33.82 E-value=10 Score=26.41 Aligned_cols=7 Identities=57% Similarity=1.721 Sum_probs=5.6
Q ss_pred cCCcccc
Q 022238 286 NGPWDEA 292 (300)
Q Consensus 286 ~GPWD~A 292 (300)
.||||+-
T Consensus 23 ~GPWe~S 29 (57)
T 3fxd_A 23 KGPWDKS 29 (57)
T ss_dssp HSCTTSC
T ss_pred cCCchHH
Confidence 5999975
No 2
>1v54_M VIIIB, IX, cytochrome C oxidase polypeptide VIII-heart; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: f.23.7.1 PDB: 1oco_M* 1occ_M* 1ocz_M* 1ocr_M* 1v55_M* 2dyr_M* 2dys_M* 2eij_M* 2eik_M* 2eil_M* 2eim_M* 2ein_M* 2occ_M* 2ybb_X* 2zxw_M* 3abk_M* 3abl_M* 3abm_M* 3ag1_M* 3ag2_M* ...
Probab=33.66 E-value=27 Score=23.26 Aligned_cols=24 Identities=21% Similarity=0.369 Sum_probs=16.7
Q ss_pred HHHHHHHHHhhH--HHHHHhhccCCc
Q 022238 261 LGLLVFVNVVCP--YWLIRIQEYKFE 284 (300)
Q Consensus 261 ~~~~~~i~~v~P--~~~v~~q~yK~~ 284 (300)
.+.++|.+|..| |.+..++.||..
T Consensus 18 gl~v~f~~~L~PagWVLshL~~YKk~ 43 (46)
T 1v54_M 18 GLSVTFLSFLLPAGWVLYHLDNYKKS 43 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHTHHHHHTC
T ss_pred HHHHHHHHHHhhHHHHHHHHHHhccc
Confidence 566677888888 455566888753
No 3
>3bkd_A Transmembrane domain of matrix protein M2; proton channel, M2TM, influenza A virus M2 protein, viral PR membrane protein; HET: MSE BOG; 2.05A {Synthetic} SCOP: j.35.1.1 PDB: 1mp6_A 1nyj_A 2kqt_A* 2kad_A* 3c9j_A*
Probab=25.52 E-value=70 Score=18.48 Aligned_cols=19 Identities=37% Similarity=0.459 Sum_probs=16.6
Q ss_pred ccchHHHHHHHHHHHHHHh
Q 022238 142 SSDSIWALTISLLVLHLFL 160 (300)
Q Consensus 142 SsDSIwals~~l~l~~l~~ 160 (300)
|||-+.+-+-+..++|+++
T Consensus 1 ssDplv~aa~iiGilHLiL 19 (26)
T 3bkd_A 1 SSDPLVVAASIMGILHLIL 19 (26)
T ss_dssp CCCHHHHHHHHHHHHHHHH
T ss_pred CCCcchhHHHHHHHHHHHH
Confidence 7899999999999999875
No 4
>2y69_M Cytochrome C oxidase polypeptide 8H; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}
Probab=24.55 E-value=55 Score=23.68 Aligned_cols=24 Identities=21% Similarity=0.369 Sum_probs=16.5
Q ss_pred HHHHHHHHHhhH--HHHHHhhccCCc
Q 022238 261 LGLLVFVNVVCP--YWLIRIQEYKFE 284 (300)
Q Consensus 261 ~~~~~~i~~v~P--~~~v~~q~yK~~ 284 (300)
.+.++|.+|..| |.+..++.||..
T Consensus 42 gltv~f~~~L~PagWVLshLe~YKk~ 67 (70)
T 2y69_M 42 GLSVTFLSFLLPAGWVLYHLDNYKKS 67 (70)
T ss_dssp HHHHHHHHHHHHHHHHHHTHHHHSCC
T ss_pred HHHHHHHHHHhhHHHHHHHHHHhccc
Confidence 555667788888 455666889853
No 5
>2ljb_A M2 protein, BM2 protein chimera; M2 channel, transport protein; NMR {Influenza a virus} PDB: 2ljc_A*
Probab=20.56 E-value=81 Score=19.56 Aligned_cols=20 Identities=25% Similarity=0.253 Sum_probs=16.4
Q ss_pred cccchHHHHHHHHHHHHHHh
Q 022238 141 ISSDSIWALTISLLVLHLFL 160 (300)
Q Consensus 141 ~SsDSIwals~~l~l~~l~~ 160 (300)
=|||-+...+.+..++|+++
T Consensus 4 dSsDplviaA~IigiLHlil 23 (35)
T 2ljb_A 4 DSSDPLVVAASIIGILHFIA 23 (35)
T ss_dssp --CCTHHHHHHHHHHHHHHH
T ss_pred CCCCcHHHHHHHHHHHHHHH
Confidence 48999999999999999875
No 6
>2cjr_A Nucleocapsid protein; oligomerization domain, viral protein; 2.50A {Sars coronavirus} SCOP: d.254.1.2 PDB: 2jw8_A
Probab=16.71 E-value=1.3e+02 Score=24.23 Aligned_cols=39 Identities=15% Similarity=0.193 Sum_probs=28.2
Q ss_pred CCCCCCCCCCccccccCC--------CCCC--CCCCCCChhhHHHHHhc
Q 022238 3 DNSSSPNPPRWRKVAYGG--------MQPG--FEDNHTDESFLEQMVMN 41 (300)
Q Consensus 3 ~~~~~~~~~~WkKvLy~~--------~kQ~--yPDNYtD~sFL~~L~~N 41 (300)
+.+.+.+|++|||++=.+ .|.+ +.-|+=|.+++++=..-
T Consensus 14 ~~~~~~~Kp~~KRtp~k~~~Vtq~FG~R~~~~~~~NFGd~~~vk~G~~d 62 (128)
T 2cjr_A 14 SAAEASKKPRQKRTATKQYNVTQAFGRRGPEQTQGNFGDQDLIRQGTDY 62 (128)
T ss_dssp CCCSSSSSCGGGCCCBTTBCHHHHHCCCCSSTTSCCBCCHHHHHHGGGS
T ss_pred CHHHHhcCccccccCCCCCCceeeecCCCCCcccCccCcHHHHHccccC
Confidence 566778899999998731 2333 46899999998876543
No 7
>2kih_A Matrix protein 2; S31N, proton channel, cell membrane, disulfide bond, hydrogen ION transport, ION transport, ionic channel, membrane; NMR {Influenza a virus} PDB: 2rlf_A* 2l0j_A 2kwx_A
Probab=13.80 E-value=1.5e+02 Score=19.03 Aligned_cols=20 Identities=35% Similarity=0.356 Sum_probs=15.9
Q ss_pred cccchHHHHHHHHHHHHHHh
Q 022238 141 ISSDSIWALTISLLVLHLFL 160 (300)
Q Consensus 141 ~SsDSIwals~~l~l~~l~~ 160 (300)
-|||-+.+-+-+..++|+++
T Consensus 4 dssdplv~aa~iiGIlHLiL 23 (43)
T 2kih_A 4 DSSDPLVVAANIIGILHLIL 23 (43)
T ss_dssp --CCHHHHHHHHHHHHHHHH
T ss_pred CCCCcHHHHHHHHHHHHHHH
Confidence 48999999999999999875
No 8
>2jyl_A Capsid protein P24 (Ca); HIV-1, carboxy-terminal, dimerization domain, CTD, 3D- NMR, capsid protein (Ca), double mutant; NMR {Human immunodeficiency virus 1} PDB: 2k1c_A* 2l6e_A*
Probab=12.69 E-value=24 Score=27.45 Aligned_cols=22 Identities=23% Similarity=0.436 Sum_probs=16.0
Q ss_pred CCCCCCCCCCCChhhHHHHHhcCC
Q 022238 20 GMQPGFEDNHTDESFLEQMVMNAS 43 (300)
Q Consensus 20 ~~kQ~yPDNYtD~sFL~~L~~N~~ 43 (300)
|-|.||.| |+|. |++.++.+..
T Consensus 30 GpKEPf~d-yVdR-~~k~l~ae~~ 51 (105)
T 2jyl_A 30 GPKEPFRD-YVDR-FYKTLRAEQA 51 (105)
T ss_dssp CSSSCHHH-HHHH-HHHHHHHHCC
T ss_pred CCCCcHHH-HHHH-HHHHHHHhhc
Confidence 34668888 8886 8888886543
No 9
>2jy0_A Protease NS2-3; membrane segment, HCV NS2 protein, membrane protein, viral protein; NMR {Synthetic}
Probab=12.63 E-value=55 Score=19.33 Aligned_cols=17 Identities=29% Similarity=0.401 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHhHHHH
Q 022238 119 NISFFITGLYVLAPIYQ 135 (300)
Q Consensus 119 s~~i~~~~l~~LSPVLk 135 (300)
..++.+++++.|||-.|
T Consensus 11 ~~vlv~lti~TLsP~YK 27 (27)
T 2jy0_A 11 GAVFVGLVLLTLSPHYK 27 (27)
T ss_dssp SHHHHHHHHHHHCCCCC
T ss_pred hHHHHHHHHHhcCcccC
Confidence 35666777888888543
No 10
>1baj_A GAG polyprotein; capsid, HIV-1 assembly protein, viral protein; 2.60A {Human immunodeficiency virus 1} SCOP: a.28.3.1
Probab=10.14 E-value=32 Score=26.40 Aligned_cols=22 Identities=23% Similarity=0.436 Sum_probs=15.8
Q ss_pred CCCCCCCCCCCChhhHHHHHhcCC
Q 022238 20 GMQPGFEDNHTDESFLEQMVMNAS 43 (300)
Q Consensus 20 ~~kQ~yPDNYtD~sFL~~L~~N~~ 43 (300)
|-|.||.| |+|. |++.++.+..
T Consensus 12 Gpkepf~d-~v~R-~~k~l~~e~~ 33 (101)
T 1baj_A 12 GPKEPFRD-YVDR-FYKTLRAEQA 33 (101)
T ss_dssp CSSCCHHH-HHHH-HHHHHHHTTC
T ss_pred CCCCcHHH-HHHH-HHHHHHHhhc
Confidence 34667887 7876 8888887643
Done!