Query 034461
Match_columns 94
No_of_seqs 101 out of 672
Neff 4.1
Searched_HMMs 29240
Date Mon Mar 25 04:26:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034461.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/034461hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1jb0_I Photosystem 1 reaction 15.9 46 0.0016 18.7 0.7 32 27-58 3-35 (38)
2 3r8s_4 50S ribosomal protein L 12.4 51 0.0017 18.5 0.2 16 52-67 23-38 (38)
3 1qf8_A Casein kinase II; casei 11.2 22 0.00076 25.7 -2.0 43 44-86 78-122 (182)
4 1b75_A Protein (50S ribosomal 9.6 36 0.0012 21.5 -1.2 9 43-51 24-32 (94)
5 1v54_G Cytochrome C oxidase po 9.3 66 0.0023 20.7 -0.0 27 30-58 12-38 (85)
6 2y69_G Cytochrome C oxidase po 7.9 82 0.0028 20.7 -0.0 27 30-58 24-50 (97)
7 4dgl_A Casein kinase II subuni 7.7 39 0.0013 25.2 -1.9 42 44-85 78-121 (215)
8 2hjd_A Quorum-sensing antiacti 6.9 1.5E+02 0.0051 19.9 0.9 17 32-48 83-99 (102)
9 1rfy_A TRAM protein;, transcri 6.8 1.5E+02 0.0052 19.8 0.9 17 32-48 83-99 (102)
10 2q0o_C Probable transcriptiona 6.6 1.8E+02 0.0062 19.6 1.2 18 31-48 84-101 (107)
No 1
>1jb0_I Photosystem 1 reaction centre subunit VIII; membrane protein, multiprotein-pigment complex, photosynthes; HET: CL1 PQN BCR LHG LMG; 2.50A {Synechococcus elongatus} SCOP: f.23.17.1 PDB: 3pcq_I*
Probab=15.94 E-value=46 Score=18.73 Aligned_cols=32 Identities=13% Similarity=0.428 Sum_probs=21.7
Q ss_pred cCCChhHHHHHHHHHHHhh-hhhhhhheeEEee
Q 034461 27 GCCTVEFCICLLLTILGYV-PGIIYALYAIVFV 58 (94)
Q Consensus 27 G~~~~~~~InllLtllg~i-PGiIhA~yvi~~~ 58 (94)
|......+=+++-.+.|++ |++.-|+..++.+
T Consensus 3 g~~aa~~LPsI~VPlVglvfPai~Mallf~yIe 35 (38)
T 1jb0_I 3 GSYAASFLPWIFIPVVCWLMPTVVMGLLFLYIE 35 (38)
T ss_dssp CSSTTTTHHHHHHHHHHTHHHHHHHHHHHHHHH
T ss_pred chhhhhhCChhhHhHHHHHHHHHHHHHHHHhhc
Confidence 3344455667777888885 9998887766543
No 2
>3r8s_4 50S ribosomal protein L36; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_4 1p86_4 1vs8_4 1vs6_4 2aw4_4 2awb_4 1vt2_4 2i2v_4 2j28_4 2i2t_4* 2qao_4* 2qba_4* 2qbc_4* 2qbe_4 2qbg_4 2qbi_4* 2qbk_4* 2qov_4 2qox_4 2qoz_4* ...
Probab=12.43 E-value=51 Score=18.49 Aligned_cols=16 Identities=6% Similarity=-0.043 Sum_probs=10.5
Q ss_pred heeEEeeCcchhhhhc
Q 034461 52 LYAIVFVDRDEYFDEY 67 (94)
Q Consensus 52 ~yvi~~~~~~~~~~~g 67 (94)
+|+|++.+|...+++|
T Consensus 23 v~Vick~nPrhKqRQG 38 (38)
T 3r8s_4 23 IRVICSAEPKHKQRQG 38 (38)
T ss_dssp EEEEETTCGGGCEECC
T ss_pred EEEEeCCCCchhhcCC
Confidence 5777776777665544
No 3
>1qf8_A Casein kinase II; casein kinase beta subunit (1-182), Ser/Thr protein kinase, Zn finger, transferase; HET: MSE; 1.74A {Homo sapiens} SCOP: g.41.4.1 PDB: 3eed_A 1rqf_A
Probab=11.23 E-value=22 Score=25.75 Aligned_cols=43 Identities=16% Similarity=0.154 Sum_probs=29.3
Q ss_pred hhhhhhhhheeEEeeCcchhhhhcCcccccc--ccccceeeccCC
Q 034461 44 YVPGIIYALYAIVFVDRDEYFDEYRRPLKVP--YTFTFSAFCLPS 86 (94)
Q Consensus 44 ~iPGiIhA~yvi~~~~~~~~~~~g~rp~~~~--~~f~~~~~~~~~ 86 (94)
-+=|+|||=|++..+.=++..+...+..++. ..+-+...++|-
T Consensus 78 ~LYGLIHaRyIlT~~Gl~~M~eKy~~g~FG~CPRv~C~~q~~LPv 122 (182)
T 1qf8_A 78 MLYGLIHARYILTNRGIAQMLEKYQQGDFGYCPRVYCENQPMLPI 122 (182)
T ss_dssp HHHHHHHHHHTTSHHHHHHHHHHHHTTTTCBCCBGGGTTCBCEEE
T ss_pred HHhchhhhhhcccHHHHHHHHHhhhcCcCCCCCccccCCCcccCC
Confidence 3668999999987666566666666666665 555566666664
No 4
>1b75_A Protein (50S ribosomal protein L25); RNA-binding protein, RNA binding protein; NMR {Escherichia coli} SCOP: b.53.1.1 PDB: 1d6k_A 1dfu_P 1giy_V 1ml5_v* 1p85_T 1p86_T 1vs6_V 1vs8_V 1vt2_V 2aw4_V 2awb_V 2gya_T 2gyc_T 2i2t_V 2i2v_V 2j28_V 2qam_V* 2qao_V* 2qba_V* 2qbc_V* ...
Probab=9.64 E-value=36 Score=21.46 Aligned_cols=9 Identities=44% Similarity=0.844 Sum_probs=7.1
Q ss_pred Hhhhhhhhh
Q 034461 43 GYVPGIIYA 51 (94)
Q Consensus 43 g~iPGiIhA 51 (94)
|.+||++|.
T Consensus 24 G~vPaVvYG 32 (94)
T 1b75_A 24 NKFPAIIYG 32 (94)
T ss_dssp TBCCEEEEC
T ss_pred CCceEEEEC
Confidence 678988875
No 5
>1v54_G Cytochrome C oxidase polypeptide VIA-heart; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: f.23.2.1 PDB: 1v55_G* 2dyr_G* 2dys_G* 2eij_G* 2eik_G* 2eil_G* 2eim_G* 2ein_G* 2zxw_G* 3abk_G* 3abl_G* 3abm_G* 3ag1_G* 3ag2_G* 3ag3_G* 3ag4_G* 3asn_G* 3aso_G* 2occ_G* 1oco_G* ...
Probab=9.29 E-value=66 Score=20.67 Aligned_cols=27 Identities=11% Similarity=-0.046 Sum_probs=18.4
Q ss_pred ChhHHHHHHHHHHHhhhhhhhhheeEEee
Q 034461 30 TVEFCICLLLTILGYVPGIIYALYAIVFV 58 (94)
Q Consensus 30 ~~~~~InllLtllg~iPGiIhA~yvi~~~ 58 (94)
+...|-+ ||+++-+|+++-+.+-.+..
T Consensus 12 ~~~~Wkk--is~~va~P~v~l~~~n~y~~ 38 (85)
T 1v54_G 12 GARTWRF--LTFGLALPSVALCTLNSWLH 38 (85)
T ss_dssp CHHHHHH--HHHHTHHHHHHHHHHHHTTS
T ss_pred hHHHHHH--HHHHHHHHHHHHHHHHHHHh
Confidence 3456655 46688899998887766433
No 6
>2y69_G Cytochrome C oxidase polypeptide 6A2; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}
Probab=7.88 E-value=82 Score=20.71 Aligned_cols=27 Identities=11% Similarity=-0.046 Sum_probs=18.8
Q ss_pred ChhHHHHHHHHHHHhhhhhhhhheeEEee
Q 034461 30 TVEFCICLLLTILGYVPGIIYALYAIVFV 58 (94)
Q Consensus 30 ~~~~~InllLtllg~iPGiIhA~yvi~~~ 58 (94)
+.++|-++ |+++-+|+++-+.+-.+..
T Consensus 24 ~~~~Wkki--S~~va~P~v~l~~~n~y~~ 50 (97)
T 2y69_G 24 GARTWRFL--TFGLALPSVALCTLNSWLH 50 (97)
T ss_dssp CHHHHHHH--HHHTHHHHHHHHHHHHTTS
T ss_pred hhhhHHHH--HHHHHHHHHHHHHHHHHHh
Confidence 35666664 5688899999887765433
No 7
>4dgl_A Casein kinase II subunit beta; protein kinase, transferase; 3.00A {Homo sapiens} PDB: 2r6m_A 1jwh_C 1ds5_E*
Probab=7.73 E-value=39 Score=25.21 Aligned_cols=42 Identities=17% Similarity=0.172 Sum_probs=24.9
Q ss_pred hhhhhhhhheeEEeeCcchhhhhcCcccccc--ccccceeeccC
Q 034461 44 YVPGIIYALYAIVFVDRDEYFDEYRRPLKVP--YTFTFSAFCLP 85 (94)
Q Consensus 44 ~iPGiIhA~yvi~~~~~~~~~~~g~rp~~~~--~~f~~~~~~~~ 85 (94)
-+=|+|||=|++..+.=++..+...+..++. -.+=+...++|
T Consensus 78 ~LYGLIHARYIlT~~Gl~~M~eKY~~g~FG~CPRv~C~~q~~LP 121 (215)
T 4dgl_A 78 MLYGLIHARYILTNRGIAQMLEKYQQGDFGYCPRVYCENQPMLP 121 (215)
T ss_dssp HHHHHHHHHHTTSHHHHHHHHHHHHTTTTCBCCBGGGTSCBCEE
T ss_pred HHhhhhhHhheecHHHHHHHHHHHhcCCCCcCCccccCCCceec
Confidence 4568999999997665555555555555543 33334444444
No 8
>2hjd_A Quorum-sensing antiactivator; helix coiled coil, signaling protein; 2.10A {Agrobacterium tumefaciens}
Probab=6.88 E-value=1.5e+02 Score=19.86 Aligned_cols=17 Identities=24% Similarity=0.620 Sum_probs=13.9
Q ss_pred hHHHHHHHHHHHhhhhh
Q 034461 32 EFCICLLLTILGYVPGI 48 (94)
Q Consensus 32 ~~~InllLtllg~iPGi 48 (94)
..-+|-++-+|||+|-+
T Consensus 83 q~~lstli~~LGyvP~v 99 (102)
T 2hjd_A 83 MSAVNTLVGLLGFIPKV 99 (102)
T ss_dssp HHHHHHHHHHHTSCCCC
T ss_pred HHHHHHHHHHhcCCCCC
Confidence 45689999999999954
No 9
>1rfy_A TRAM protein;, transcriptional repressor TRAM; inter- and intra-molcular two-helix coiled coil, homodimer; 1.60A {Agrobacterium tumefaciens} SCOP: a.2.13.1 PDB: 1us6_A 1upg_A
Probab=6.82 E-value=1.5e+02 Score=19.83 Aligned_cols=17 Identities=29% Similarity=0.708 Sum_probs=13.5
Q ss_pred hHHHHHHHHHHHhhhhh
Q 034461 32 EFCICLLLTILGYVPGI 48 (94)
Q Consensus 32 ~~~InllLtllg~iPGi 48 (94)
..-+|-++-+|||+|-+
T Consensus 83 q~~lstli~~LGyvP~v 99 (102)
T 1rfy_A 83 MSALNTLISILGFIPKV 99 (102)
T ss_dssp HHHHHHHHHHHTSCCC-
T ss_pred HHHHHHHHHHhcCCCCC
Confidence 45689999999999964
No 10
>2q0o_C Probable transcriptional repressor TRAM; helix-turn-helix, two-helix coiled coil; HET: LAE; 2.00A {Rhizobium SP}
Probab=6.57 E-value=1.8e+02 Score=19.59 Aligned_cols=18 Identities=28% Similarity=0.521 Sum_probs=14.7
Q ss_pred hhHHHHHHHHHHHhhhhh
Q 034461 31 VEFCICLLLTILGYVPGI 48 (94)
Q Consensus 31 ~~~~InllLtllg~iPGi 48 (94)
....+|-++-+|||+|-+
T Consensus 84 Qq~~lstLid~LGyvPkV 101 (107)
T 2q0o_C 84 QQEELSDILDALGFVPDV 101 (107)
T ss_dssp HHHHHHHHHHHHCSCCCC
T ss_pred HHHHHHHHHHHhcCCCCC
Confidence 356789999999999954
Done!