Query 034047
Match_columns 105
No_of_seqs 103 out of 234
Neff 4.0
Searched_HMMs 29240
Date Mon Mar 25 15:32:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034047.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/034047hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3tgu_H Mitochondrial ubiquinol 100.0 2.4E-35 8.1E-40 197.8 6.2 69 37-105 7-77 (77)
2 1pp9_H Ubiquinol-cytochrome C 100.0 3.3E-35 1.1E-39 197.5 5.9 68 38-105 9-78 (78)
3 3cx5_F Cytochrome B-C1 complex 100.0 1.2E-31 4.1E-36 197.9 4.1 67 39-105 70-146 (146)
4 2lql_A Coiled-coil-helix-coile 47.3 19 0.00065 24.5 3.5 40 56-98 60-99 (113)
5 1ekz_A DSRBDIII, maternal effe 28.7 39 0.0013 20.5 2.4 20 37-56 1-20 (76)
6 2pa8_L DNA-directed RNA polyme 19.9 1.1E+02 0.0037 19.8 3.4 27 41-67 61-90 (92)
7 1q8h_A Osteocalcin; helix-turn 16.4 1E+02 0.0036 18.4 2.5 22 42-63 12-35 (49)
8 3h0g_K DNA-directed RNA polyme 16.2 1.9E+02 0.0067 19.8 4.2 31 41-71 78-111 (123)
9 1u96_A Cytochrome C oxidase co 16.1 1.1E+02 0.0036 19.7 2.6 24 47-70 30-60 (69)
10 3ees_A Probable pyrophosphohyd 14.2 1.6E+02 0.0055 18.3 3.1 27 24-54 46-72 (153)
No 1
>3tgu_H Mitochondrial ubiquinol-cytochrome C reductase 11 protein, complex III subunit VIII...; cytochrome BC1, membrane protein, heme protein, rieske iron protein; HET: HEM WF3 UQ CDL PEE HEC BOG; 2.70A {Gallus gallus} PDB: 3cwb_H* 3h1i_H* 3h1h_H* 3h1k_H* 3h1l_H* 3h1j_H* 3l71_H* 3l72_H* 3l73_H* 3l74_H* 3l75_H* 3l70_H*
Probab=100.00 E-value=2.4e-35 Score=197.76 Aligned_cols=69 Identities=39% Similarity=0.746 Sum_probs=65.4
Q ss_pred CCCcccCChhHHHHHHhH--hhchhhHHHHHHHHhhhccCCCCCCCchhhhhhhhhhhhhcchhHHHhhhC
Q 034047 37 MADEEIADPKKYLEEACK--PKCVKSLIEYEACIKRIEADDTGSKHCTGQYFDYLSCVDKCVAPKLFTQLK 105 (105)
Q Consensus 37 m~EEE~vDP~~~LrEeC~--~~C~~~~~~y~eC~eRV~s~~~~~E~C~eE~fDl~hCvD~CvAPkLF~~LK 105 (105)
-+|||+|||++.||++|+ ++|++++++|++|++||++++++++||+||||||+||+|||||||||++||
T Consensus 7 eeEeE~vDp~~~lre~C~~~~~C~~~~~~y~~C~eRV~~~~~~~e~C~eE~Fd~~hCvD~CvapkLF~~LK 77 (77)
T 3tgu_H 7 EEEEELVDPLTTIREHCEQTEKCVKARERLELCDARVSSRSHTEEQCTEELFDFLHARDHCVAHKLFNKLK 77 (77)
T ss_dssp --CCCCCCHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHTCSSCCCCSHHHHHHHHHHHHHHHHHHHGGGCC
T ss_pred cccccccCHHHHHHHHHhccchhHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHhhcHHHHHhcC
Confidence 457789999999999998 799999999999999999999999999999999999999999999999998
No 2
>1pp9_H Ubiquinol-cytochrome C reductase complex 11 kDa P; cytochrome BC1, membrane protein, heme protein, rieske iron protein, cytochrome B, complex III; HET: BHG HEM HEC SMA UQ CDL PEE; 2.10A {Bos taurus} SCOP: f.28.1.1 PDB: 1bgy_H* 1be3_H* 1l0n_H* 1ntk_H* 1ntm_H* 1ntz_H* 1nu1_H* 1l0l_H* 1ppj_H* 1sqb_H* 1sqp_H* 1sqq_H* 1sqv_H* 1sqx_H* 2a06_H* 2fyu_H* 2ybb_H* 1bcc_H* 2bcc_H* 3bcc_H* ...
Probab=100.00 E-value=3.3e-35 Score=197.48 Aligned_cols=68 Identities=38% Similarity=0.739 Sum_probs=63.2
Q ss_pred CCcccCChhHHHHHHhH--hhchhhHHHHHHHHhhhccCCCCCCCchhhhhhhhhhhhhcchhHHHhhhC
Q 034047 38 ADEEIADPKKYLEEACK--PKCVKSLIEYEACIKRIEADDTGSKHCTGQYFDYLSCVDKCVAPKLFTQLK 105 (105)
Q Consensus 38 ~EEE~vDP~~~LrEeC~--~~C~~~~~~y~eC~eRV~s~~~~~E~C~eE~fDl~hCvD~CvAPkLF~~LK 105 (105)
+|||+|||++.||++|+ ++|++++++|++|++||++++++++||+|||||||||+|||||||||++||
T Consensus 9 eeEE~vDp~~~l~e~C~~~~~C~~~~~~y~~C~eRV~s~~~~~e~C~ee~fd~~hCvD~CvapkLf~~LK 78 (78)
T 1pp9_H 9 EEEELVDPLTTVREQCEQLEKCVKARERLELCDERVSSRSQTEEDCTEELLDFLHARDHCVAHKLFNSLK 78 (78)
T ss_dssp ----CCCHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHTCSSCSCCSHHHHHHHHHHHHHHHHHHGGGGCC
T ss_pred hcccccChHHHHHHHHhcchhhHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHhhhHHHHHhcC
Confidence 35789999999999998 899999999999999999999999999999999999999999999999998
No 3
>3cx5_F Cytochrome B-C1 complex subunit 6; complex III, electron transfer complex, cytochrome BC1 complex, mitochondrialtransmembrane complex; HET: M3L SUC 6PH UMQ HEM SMA 8PE 9PE CN5 7PH CN3; 1.90A {Saccharomyces cerevisiae} SCOP: f.28.1.1 PDB: 3cxh_F* 1ezv_H* 1kb9_F* 1p84_F* 2ibz_H* 1kyo_F*
Probab=99.97 E-value=1.2e-31 Score=197.95 Aligned_cols=67 Identities=28% Similarity=0.568 Sum_probs=60.9
Q ss_pred CcccCChhHHHHHHhH--hhchhhHHHHHHHHhhhccCC--------CCCCCchhhhhhhhhhhhhcchhHHHhhhC
Q 034047 39 DEEIADPKKYLEEACK--PKCVKSLIEYEACIKRIEADD--------TGSKHCTGQYFDYLSCVDKCVAPKLFTQLK 105 (105)
Q Consensus 39 EEE~vDP~~~LrEeC~--~~C~~~~~~y~eC~eRV~s~~--------~~~E~C~eE~fDl~hCvD~CvAPkLF~~LK 105 (105)
|||+|||++.||++|+ ++|++++++|++|++||++++ ++++||++|||||+||+|||||||||++||
T Consensus 70 EEE~vDPk~~LrEeC~~s~~C~~~~~~ydeCveRV~s~~e~~G~~~~~~~EdC~eE~Fdl~hCvD~CvAPKLF~~LK 146 (146)
T 3cx5_F 70 EEEVTDQLEDLREHFKNTEEGKALVHHYEECAERVKIQQQQPGYADLEHKEDCVEEFFHLQHYLDTATAPRLFDKLK 146 (146)
T ss_dssp ---CCCHHHHHHHHHHTSHHHHHHHHHHHHHHHHHHHHHHSTTGGGCCSCCCCHHHHHHHHHHHHHHHHHHHGGGCC
T ss_pred cccccChHHHHHHHhcCCchhHHHHHHHHHHHHHHHccccccccccCCCCcccHHHHHHHHhhHhhccCHHHHHhcC
Confidence 4579999999999999 899999999999999999854 268999999999999999999999999998
No 4
>2lql_A Coiled-coil-helix-coiled-coil-helix domain-contai protein 5; CHCH domain, mitochondrial import, MIA40-dependent disulfide system; NMR {Homo sapiens}
Probab=47.29 E-value=19 Score=24.54 Aligned_cols=40 Identities=20% Similarity=0.674 Sum_probs=29.0
Q ss_pred hchhhHHHHHHHHhhhccCCCCCCCchhhhhhhhhhhhhcchh
Q 034047 56 KCVKSLIEYEACIKRIEADDTGSKHCTGQYFDYLSCVDKCVAP 98 (105)
Q Consensus 56 ~C~~~~~~y~eC~eRV~s~~~~~E~C~eE~fDl~hCvD~CvAP 98 (105)
+|..-...|..|.+.=+ ...+.|..+.-.|..|+.+--.|
T Consensus 60 ~C~~ef~~y~~CL~~n~---~~~~~Cr~~~~~f~~Cae~v~~~ 99 (113)
T 2lql_A 60 ACAQPFEAFEECLRQNE---AAVGNCAEHMRRFLQCAEQVQPP 99 (113)
T ss_dssp HTHHHHHHHHHHHHHCT---TCTTTCCSHHHHHHHHHTTC---
T ss_pred HhHHHHHHHHHHHHHcc---ccHHHHHHHHHHHHHHHHHhccc
Confidence 57888889999987733 33478999999999998765443
No 5
>1ekz_A DSRBDIII, maternal effect protein (staufen); structure, protein/RNA, protein DSRBD, RNA hairpin; NMR {Drosophila melanogaster} SCOP: d.50.1.1 PDB: 1stu_A
Probab=28.69 E-value=39 Score=20.49 Aligned_cols=20 Identities=15% Similarity=0.227 Sum_probs=17.2
Q ss_pred CCCcccCChhHHHHHHhHhh
Q 034047 37 MADEEIADPKKYLEEACKPK 56 (105)
Q Consensus 37 m~EEE~vDP~~~LrEeC~~~ 56 (105)
|++....||+..|.|-|+..
T Consensus 1 m~~~~~~d~ks~LqE~~q~~ 20 (76)
T 1ekz_A 1 MDEGDKKSPISQVHEIGIKR 20 (76)
T ss_dssp CCCCCCSCHHHHHHHHHHHT
T ss_pred CCCCCCCCHHHHHHHHHHHc
Confidence 77788899999999999754
No 6
>2pa8_L DNA-directed RNA polymerase subunit L; ferredoxin-like Fe-S binding motif, platform for RNA polymer assembly, transferase; 1.76A {Sulfolobus solfataricus} PDB: 2pmz_L 3hkz_L 2waq_L 2wb1_L 2y0s_L
Probab=19.94 E-value=1.1e+02 Score=19.80 Aligned_cols=27 Identities=19% Similarity=0.087 Sum_probs=22.8
Q ss_pred ccCChhHHHHHHhH---hhchhhHHHHHHH
Q 034047 41 EIADPKKYLEEACK---PKCVKSLIEYEAC 67 (105)
Q Consensus 41 E~vDP~~~LrEeC~---~~C~~~~~~y~eC 67 (105)
...+|.++|++.|. ..|..+...|++-
T Consensus 61 ~~~~p~~al~~a~~~l~~~~~~~~~~f~~~ 90 (92)
T 2pa8_L 61 GSITPKDALLKAIENIRGMTSHYIDEIKGL 90 (92)
T ss_dssp SSSCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34789999999997 6899999998863
No 7
>1q8h_A Osteocalcin; helix-turn-helix-turn-helix, paper-CLIP, hydroxyapatite CRYS surface binding protein, calcium binding protein; HET: CGU; 2.00A {Sus scrofa} SCOP: g.32.1.1 PDB: 1q3m_A*
Probab=16.42 E-value=1e+02 Score=18.42 Aligned_cols=22 Identities=27% Similarity=0.511 Sum_probs=16.9
Q ss_pred cCChhHHHHHHhH--hhchhhHHH
Q 034047 42 IADPKKYLEEACK--PKCVKSLIE 63 (105)
Q Consensus 42 ~vDP~~~LrEeC~--~~C~~~~~~ 63 (105)
..+|++..||-|. +-|-.+-.+
T Consensus 12 ~k~plE~~rEvCE~~~~C~~~A~~ 35 (49)
T 1q8h_A 12 YPDPLEPRREVCELNPDCDELADH 35 (49)
T ss_dssp -CCTTHHHHHHHHHSHHHHHHHHH
T ss_pred CCChhHHHHHHhccchhHHHHHHH
Confidence 4689999999998 678766543
No 8
>3h0g_K DNA-directed RNA polymerase II subunit RPB11; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=16.24 E-value=1.9e+02 Score=19.77 Aligned_cols=31 Identities=16% Similarity=0.162 Sum_probs=25.1
Q ss_pred ccCChhHHHHHHhH---hhchhhHHHHHHHHhhh
Q 034047 41 EIADPKKYLEEACK---PKCVKSLIEYEACIKRI 71 (105)
Q Consensus 41 E~vDP~~~LrEeC~---~~C~~~~~~y~eC~eRV 71 (105)
...+|+++|++.|. ..|..+...|+.=.++=
T Consensus 78 ~~~~p~eaL~~al~~L~~~~~~l~~~F~~~~~~~ 111 (123)
T 3h0g_K 78 EDCSPKQVIVDAAKSLITHLEEIKVNFMREWELK 111 (123)
T ss_dssp SSSCSHHHHHHHHHHHHHHHHHHHHHHHHHTTTT
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45799999999997 68999999998754443
No 9
>1u96_A Cytochrome C oxidase copper chaperone; metallochaperone, unstructured N-terminus, two alpha- helices; NMR {Saccharomyces cerevisiae} SCOP: a.17.1.2 PDB: 1u97_A 1z2g_A
Probab=16.05 E-value=1.1e+02 Score=19.67 Aligned_cols=24 Identities=29% Similarity=0.667 Sum_probs=19.0
Q ss_pred HHHHHHhH-----h--hchhhHHHHHHHHhh
Q 034047 47 KYLEEACK-----P--KCVKSLIEYEACIKR 70 (105)
Q Consensus 47 ~~LrEeC~-----~--~C~~~~~~y~eC~eR 70 (105)
-..|.+|. + +|..+.+.|.+|-..
T Consensus 30 K~aRDeCil~~gee~~~C~~lIeahk~CMr~ 60 (69)
T 1u96_A 30 KEERDTCILFNGQDSEKCKEFIEKYKECMKG 60 (69)
T ss_dssp HHHHHHHHHHSCSCSGGGHHHHHHHHHHHHT
T ss_pred hhHHHHHHHhcCCcHHHHHHHHHHHHHHHHH
Confidence 46888885 3 799999999998754
No 10
>3ees_A Probable pyrophosphohydrolase; nudix, RNA pyrophosphohydrolase; 1.90A {Bdellovibrio bacteriovorus} PDB: 3eeu_A 3ef5_A* 3ffu_A*
Probab=14.24 E-value=1.6e+02 Score=18.29 Aligned_cols=27 Identities=15% Similarity=0.042 Sum_probs=15.0
Q ss_pred hhhhhhhhcccCCCCCcccCChhHHHHHHhH
Q 034047 24 LNSIQLLHIVFNPMADEEIADPKKYLEEACK 54 (105)
Q Consensus 24 ~~~~~~~~~~~~~m~EEE~vDP~~~LrEeC~ 54 (105)
....|.+|+- .+ |..+++...+.-+..
T Consensus 46 ~~g~w~~PgG--~v--e~gE~~~~aa~RE~~ 72 (153)
T 3ees_A 46 LAGQWEFPGG--KI--ENGETPEEALARELN 72 (153)
T ss_dssp TTTCEECSEE--EC--CTTCCHHHHHHHHHH
T ss_pred CCCeEECCce--ee--CCCCCHHHHHHHHHH
Confidence 3467889984 11 223467666555443
Done!