Query psy4066
Match_columns 69
No_of_seqs 101 out of 141
Neff 4.7
Searched_HMMs 29240
Date Sat Aug 17 00:26:31 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4066.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/4066hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2y69_L Cytochrome C oxidase su 100.0 1.3E-35 4.3E-40 177.6 5.9 63 5-67 1-63 (63)
2 1v54_L VIIIA, cytochrome C oxi 100.0 1.3E-28 4.3E-33 140.1 5.9 47 21-67 1-47 (47)
3 2y69_J Cytochrome C oxidase po 56.4 23 0.00078 21.2 4.5 20 1-20 1-21 (80)
4 2rdd_B UPF0092 membrane protei 19.3 83 0.0028 15.6 2.2 11 57-67 18-28 (37)
5 2b2h_A AMT-1, ammonium transpo 12.0 80 0.0027 23.5 1.2 24 26-49 182-205 (399)
6 3cdw_H Protein 3B, VPG; RNA-de 11.9 84 0.0029 15.1 0.9 8 26-33 1-8 (26)
7 2k89_A PLA2P, PLAP, phospholip 8.7 1.4E+02 0.0047 17.7 1.2 23 24-46 25-49 (80)
8 3vw7_A Proteinase-activated re 8.5 4.1E+02 0.014 17.9 3.8 17 44-60 188-204 (484)
9 1u7g_A Probable ammonium trans 8.4 88 0.003 23.1 0.3 23 26-48 193-215 (385)
10 1bax_A M-PMV MA, M-PMV matrix 7.4 2.1E+02 0.0071 17.5 1.7 15 55-69 9-23 (94)
No 1
>2y69_L Cytochrome C oxidase subunit 7C; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}
Probab=100.00 E-value=1.3e-35 Score=177.61 Aligned_cols=63 Identities=46% Similarity=0.844 Sum_probs=45.0
Q ss_pred hhhhhhhhhchhhhhhccCCCCCCCCCcccccchhHHHHHHHHHHHHhhhHHHHHHHHHhhhc
Q psy4066 5 RLAKTVRCFSTSAARASHAYSGPGQNLPFDTHNRYKLTLYFGLFMMTGFGVPFIAVRHQLLKS 67 (69)
Q Consensus 5 ~l~~~~R~f~ts~~r~sh~~eGp~sNLPF~~~nk~~~~~~~~~f~g~GF~~PF~i~~~Ql~K~ 67 (69)
||++++|+|+||++|++||+||||+||||+++||++++++||+||++||++||+|++|||+|+
T Consensus 1 ~l~~s~R~f~ts~~r~sh~~eGp~sNLPF~~~nk~~~~~~~~~f~g~GF~~PF~i~~~Ql~K~ 63 (63)
T 2y69_L 1 MLGQSIRRFTTSVVRRSHYEEGPGKNIPFSVENKWRLLAMMTLFFGSGFAAPFFIVRHQLLKK 63 (63)
T ss_dssp -----------------CCCCSTTTSSSSCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred ChhHHHHHhhccHHHhcCCCCCCCCcCCcCCcchhHHHHHHHHHHHHHHhhhHHHHHHHHhcC
Confidence 567889999999999999999999999999999999999999999999999999999999994
No 2
>1v54_L VIIIA, cytochrome C oxidase polypeptide VIIC; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: f.23.6.1 PDB: 1oco_L* 1occ_L* 1ocz_L* 1ocr_L* 1v55_L* 2dyr_L* 2dys_L* 2eij_L* 2eik_L* 2eil_L* 2eim_L* 2ein_L* 2occ_L* 2ybb_W* 2zxw_L* 3abk_L* 3abl_L* 3abm_L* 3ag1_L* 3ag2_L* ...
Probab=99.95 E-value=1.3e-28 Score=140.11 Aligned_cols=47 Identities=49% Similarity=0.926 Sum_probs=44.9
Q ss_pred ccCCCCCCCCCcccccchhHHHHHHHHHHHHhhhHHHHHHHHHhhhc
Q psy4066 21 SHAYSGPGQNLPFDTHNRYKLTLYFGLFMMTGFGVPFIAVRHQLLKS 67 (69)
Q Consensus 21 sh~~eGp~sNLPF~~~nk~~~~~~~~~f~g~GF~~PF~i~~~Ql~K~ 67 (69)
+|++||||+||||+++||+++++++|+||++||++||+|++|||+|+
T Consensus 1 ~H~~egp~sNLPF~~~nk~~~~~~~~~f~g~GF~~PF~i~~~Ql~K~ 47 (47)
T 1v54_L 1 SHYEEGPGKNIPFSVENKWRLLAMMTLFFGSGFAAPFFIVRHQLLKK 47 (47)
T ss_dssp -CCCCSTTTSSSSCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred CCCCCCCCCcCCcCCCcccHHHHHHHHHHHHHHHhHHHHHHHHHhcC
Confidence 59999999999999999999999999999999999999999999994
No 3
>2y69_J Cytochrome C oxidase polypeptide 7A1; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}
Probab=56.43 E-value=23 Score=21.17 Aligned_cols=20 Identities=35% Similarity=0.536 Sum_probs=0.0
Q ss_pred Ccchhhhhh-hhhhchhhhhh
Q psy4066 1 MLGSRLAKT-VRCFSTSAARA 20 (69)
Q Consensus 1 ~~~~~l~~~-~R~f~ts~~r~ 20 (69)
|.+.+|.|. +|.|+||..|.
T Consensus 1 ~~~~~l~~~~~r~~st~~~r~ 21 (80)
T 2y69_J 1 MRALRVSQALVRSFSSTARNR 21 (80)
T ss_dssp ---------------------
T ss_pred CchhHHHHHHHHHhcccchhh
Confidence 344566666 79999999875
No 4
>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=19.29 E-value=83 Score=15.60 Aligned_cols=11 Identities=27% Similarity=0.525 Sum_probs=8.9
Q ss_pred HHHHHHHhhhc
Q psy4066 57 FIAVRHQLLKS 67 (69)
Q Consensus 57 F~i~~~Ql~K~ 67 (69)
|++.|-|-+|.
T Consensus 18 Fl~iRPQ~Kr~ 28 (37)
T 2rdd_B 18 FMILRPQQKRT 28 (37)
T ss_dssp HHTHHHHHHHH
T ss_pred HHHhhhHHHHH
Confidence 77888898875
No 5
>2b2h_A AMT-1, ammonium transporter; membrane protein, transport protein; 1.54A {Archaeoglobus fulgidus} PDB: 2b2f_A 2b2i_A 2b2j_A
Probab=11.96 E-value=80 Score=23.48 Aligned_cols=24 Identities=13% Similarity=-0.036 Sum_probs=15.7
Q ss_pred CCCCCCcccccchhHHHHHHHHHH
Q psy4066 26 GPGQNLPFDTHNRYKLTLYFGLFM 49 (69)
Q Consensus 26 Gp~sNLPF~~~nk~~~~~~~~~f~ 49 (69)
-|++|+|+..---..+++.+.+|=
T Consensus 182 ~~~hn~~~~~lG~~lLW~GWfGFN 205 (399)
T 2b2h_A 182 IEPHSIPLTLIGAALLWFGWFGFN 205 (399)
T ss_dssp CCCSCHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHhhc
Confidence 388999987765555555544443
No 6
>3cdw_H Protein 3B, VPG; RNA-dependent RNA polymerase, protein primer vizier viral enzymes involved in replication, transferase-V protein complex; 2.50A {Coxsackievirus B3} PDB: 2bbl_A 2bbp_A
Probab=11.93 E-value=84 Score=15.15 Aligned_cols=8 Identities=25% Similarity=0.401 Sum_probs=6.3
Q ss_pred CCCCCCcc
Q psy4066 26 GPGQNLPF 33 (69)
Q Consensus 26 Gp~sNLPF 33 (69)
|||+-+|-
T Consensus 1 G~YsG~p~ 8 (26)
T 3cdw_H 1 GAYTGVPN 8 (26)
T ss_pred CCccCCCc
Confidence 78888883
No 7
>2k89_A PLA2P, PLAP, phospholipase A-2-activating protein; ubiquitin binding, WD repeat, protein binding; NMR {Homo sapiens} PDB: 2k8a_A 2k8b_B 2k8c_B
Probab=8.72 E-value=1.4e+02 Score=17.68 Aligned_cols=23 Identities=26% Similarity=0.553 Sum_probs=16.6
Q ss_pred CCC-CCCCCcccc-cchhHHHHHHH
Q psy4066 24 YSG-PGQNLPFDT-HNRYKLTLYFG 46 (69)
Q Consensus 24 ~eG-p~sNLPF~~-~nk~~~~~~~~ 46 (69)
++| |.--||||. +|.|..+-+|+
T Consensus 25 ~dG~~~lkLpyN~~dnP~~aAqkFi 49 (80)
T 2k89_A 25 NEGGPSYKLPYNTSDDPWLTAYNFL 49 (80)
T ss_dssp SSSCSCEEEEECTTSCHHHHHHHHH
T ss_pred CCCCcccccCccCCCCHHHHHHHHH
Confidence 455 778899998 78877665543
No 8
>3vw7_A Proteinase-activated receptor 1, lysozyme; high resolution structure, protease-activated receptor 1, in conformation, antagonist vorapaxar; HET: VPX OLC; 2.20A {Homo sapiens}
Probab=8.53 E-value=4.1e+02 Score=17.87 Aligned_cols=17 Identities=41% Similarity=0.602 Sum_probs=12.8
Q ss_pred HHHHHHHHhhhHHHHHH
Q psy4066 44 YFGLFMMTGFGVPFIAV 60 (69)
Q Consensus 44 ~~~~f~g~GF~~PF~i~ 60 (69)
.++.++.++|.+|+++.
T Consensus 188 ~~~~~~~~~~~~P~~ii 204 (484)
T 3vw7_A 188 YFSAFSAVFFFVPLIIS 204 (484)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhHHHHHH
Confidence 45667788899998754
No 9
>1u7g_A Probable ammonium transporter; right handed helical bundle, transmembrane helices, ammonia membrane protein, RH protein, transport protein; HET: MSE BOG; 1.40A {Escherichia coli} SCOP: f.44.1.1 PDB: 1u77_A* 1u7c_A* 1xqf_A 1xqe_A 2ns1_A* 2nop_A 2nmr_A 3c1g_A 3c1i_A* 3c1h_A* 2now_A 2npe_A 2npc_A 2npd_A 2npg_A 2npj_A 2nuu_A* 3c1j_A 2npk_A
Probab=8.45 E-value=88 Score=23.12 Aligned_cols=23 Identities=22% Similarity=0.049 Sum_probs=14.8
Q ss_pred CCCCCCcccccchhHHHHHHHHH
Q psy4066 26 GPGQNLPFDTHNRYKLTLYFGLF 48 (69)
Q Consensus 26 Gp~sNLPF~~~nk~~~~~~~~~f 48 (69)
-|++|+|+..---..+++.+.+|
T Consensus 193 ~~~hn~~~~~lGt~lLW~GWfGF 215 (385)
T 1u7g_A 193 FKPHNLPMVFTGTAILYIGWFGF 215 (385)
T ss_dssp CCGGGHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHhhh
Confidence 38888888765555555544444
No 10
>1bax_A M-PMV MA, M-PMV matrix protein; core protein, polyprotein, myristylation; NMR {Mason-pfizer monkey virus} SCOP: a.61.1.3 PDB: 2f76_X 2f77_X
Probab=7.42 E-value=2.1e+02 Score=17.47 Aligned_cols=15 Identities=33% Similarity=0.530 Sum_probs=11.9
Q ss_pred HHHHHHHHHhhhcCC
Q psy4066 55 VPFIAVRHQLLKSRG 69 (69)
Q Consensus 55 ~PF~i~~~Ql~K~~~ 69 (69)
.+|+-+..|++|.+|
T Consensus 9 q~fi~~lk~lLk~Rg 23 (94)
T 1bax_A 9 ERYVEQLKQALKTRG 23 (94)
T ss_pred hHHHHHHHHHHHHcC
Confidence 367888888988876
Done!