Query 030357
Match_columns 179
No_of_seqs 108 out of 123
Neff 2.7
Searched_HMMs 29240
Date Mon Mar 25 20:18:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030357.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/030357hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3soo_A LINE-1 type transposase 12.3 37 0.0013 24.8 -0.5 19 91-109 48-66 (88)
2 2jrb_A ORF 1 protein; RNA bind 11.0 43 0.0015 24.5 -0.5 19 91-109 48-66 (88)
3 2pmi_B PHO85 cyclin PHO80, ami 7.1 96 0.0033 26.8 0.0 15 118-132 278-292 (293)
4 3fz2_A Minor tail protein U; m 5.5 2.3E+02 0.0077 22.0 1.3 22 79-105 14-35 (134)
5 1mg4_A Doublecortin, doublecor 4.8 4.3E+02 0.015 19.4 2.4 23 75-97 39-69 (113)
6 2k0n_A Mediator of RNA polymer 4.5 2.1E+02 0.0072 21.0 0.5 20 3-22 51-70 (85)
7 2yko_A LINE-1 ORF1P; RNA-bindi 4.2 1.5E+02 0.0053 24.9 -0.5 19 91-109 182-200 (233)
8 2oyz_A UPF0345 protein VPA0057 4.1 2E+02 0.0067 21.1 0.0 12 94-105 7-18 (94)
9 1kmi_Z CHEZ, chemotaxis protei 4.0 2E+02 0.0069 23.2 0.0 17 3-23 135-151 (214)
10 1dev_B SMAD anchor for recepto 3.8 2.3E+02 0.0078 18.4 0.2 16 3-18 9-24 (41)
No 1
>3soo_A LINE-1 type transposase domain-containing protein; alpha/beta protein, structural genomics, joint center for ST genomics, JCSG; 2.73A {Homo sapiens} PDB: 2lr6_A
Probab=12.25 E-value=37 Score=24.85 Aligned_cols=19 Identities=26% Similarity=0.457 Sum_probs=16.3
Q ss_pred CcccccccccccccccccC
Q 030357 91 GLSKFYQGKSQSFTSLASV 109 (179)
Q Consensus 91 GLSkfY~GKSkSFtsLa~v 109 (179)
=|+.+|+|+-++|.+..+.
T Consensus 48 kLsf~~eGeiksF~dkqkl 66 (88)
T 3soo_A 48 XLAFXCDGEIXTFSDLQSL 66 (88)
T ss_dssp CEEEECSSSEEEESSHHHH
T ss_pred eEEEEecCceeccCCHHHc
Confidence 4899999999999988753
No 2
>2jrb_A ORF 1 protein; RNA binding protein; NMR {Mus musculus}
Probab=10.98 E-value=43 Score=24.54 Aligned_cols=19 Identities=21% Similarity=0.294 Sum_probs=16.3
Q ss_pred CcccccccccccccccccC
Q 030357 91 GLSKFYQGKSQSFTSLASV 109 (179)
Q Consensus 91 GLSkfY~GKSkSFtsLa~v 109 (179)
-|+.+|+|+-+||.+..+.
T Consensus 48 kLsf~~eGeiksF~dkqkl 66 (88)
T 2jrb_A 48 KLSITIDGETKVFHDKTKF 66 (88)
T ss_dssp EEEEESSSCEEEESSHHHH
T ss_pred eeEEEECCeEeccCCHHHH
Confidence 3789999999999987763
No 3
>2pmi_B PHO85 cyclin PHO80, aminoglycoside anti; cyclin-dependent kinase, signaling protein,transfera cycle complex; HET: MES AGS; 2.90A {Saccharomyces cerevisiae} PDB: 2pk9_B*
Probab=7.09 E-value=96 Score=26.76 Aligned_cols=15 Identities=27% Similarity=0.446 Sum_probs=0.0
Q ss_pred ccccCCCCchhhhcc
Q 030357 118 MNIKGSHYYRMKMKS 132 (179)
Q Consensus 118 ~e~K~~~Py~kkrK~ 132 (179)
+|.|.-||||+|+|.
T Consensus 278 ~~~~~~~~~~~~~~~ 292 (293)
T 2pmi_B 278 SEAKDAHIYNKRSKP 292 (293)
T ss_dssp ---------------
T ss_pred chhhhccccccccCC
Confidence 566667899999984
No 4
>3fz2_A Minor tail protein U; mixed alpha-beta fold, viral protein; 2.70A {Enterobacteria phage lambda} SCOP: d.323.1.1 PDB: 3fzb_A 1z1z_A
Probab=5.48 E-value=2.3e+02 Score=22.03 Aligned_cols=22 Identities=18% Similarity=0.422 Sum_probs=16.1
Q ss_pred hHHHHHhcccccCcccccccccccccc
Q 030357 79 FSELMAQLPIKRGLSKFYQGKSQSFTS 105 (179)
Q Consensus 79 m~sL~~~LPiKRGLSkfY~GKSkSFts 105 (179)
++.|+..|| ++ .||+|+-- |.+
T Consensus 14 ld~L~~~~~---~v-~~fdGrP~-fiD 35 (134)
T 3fz2_A 14 LDALEKHDT---GA-TFFDGRPA-VFD 35 (134)
T ss_dssp HHHHHHHCC---SS-EEEESCCS-SCC
T ss_pred HHHHHhcCC---Cc-EEECCCcc-ccC
Confidence 578888877 36 89999864 444
No 5
>1mg4_A Doublecortin, doublecortin-like kinase (N-terminal domain); DCX domain, microtubule bundling, cortex development, transferase; 1.50A {Homo sapiens} SCOP: d.15.11.1 PDB: 1mfw_A 1mjd_A 2bqq_A 2xrp_I*
Probab=4.78 E-value=4.3e+02 Score=19.40 Aligned_cols=23 Identities=26% Similarity=0.590 Sum_probs=18.2
Q ss_pred CCcchHHHHHhc--------ccccCcccccc
Q 030357 75 PLYEFSELMAQL--------PIKRGLSKFYQ 97 (179)
Q Consensus 75 pL~~m~sL~~~L--------PiKRGLSkfY~ 97 (179)
-+-+|++|.+.| ++..|+.+.|+
T Consensus 39 ~~~tfd~LL~~lT~~Ls~~v~lp~GVR~lyt 69 (113)
T 1mg4_A 39 RFRSFEALLADLTRTLSDNVNLPQGVRTIYT 69 (113)
T ss_dssp TCSSHHHHHHHHHHHHCCSSSSTTCCCEEEE
T ss_pred ccCCHHHHHHHHHHHHhhcCCCCcceeEEEc
Confidence 356888888875 77789999995
No 6
>2k0n_A Mediator of RNA polymerase II transcription subunit 15; protein, activator, nucleus, phosphoprotein, transcription regulation; NMR {Saccharomyces cerevisiae}
Probab=4.50 E-value=2.1e+02 Score=21.04 Aligned_cols=20 Identities=20% Similarity=0.331 Sum_probs=15.9
Q ss_pred cccccchHHHHHHhhhcccc
Q 030357 3 IMESCSSKQIFQQLNSKKID 22 (179)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~ 22 (179)
+.+.|++|+.|+.---+||.
T Consensus 51 LyaksSSK~eYmdsMr~ki~ 70 (85)
T 2k0n_A 51 LFAKSSSKKEYMDSMNEKVA 70 (85)
T ss_dssp HHHSCCSHHHHHHHHHHHHH
T ss_pred HHHhcccHHHHHHHHHHHHH
Confidence 56899999999877666664
No 7
>2yko_A LINE-1 ORF1P; RNA-binding protein, genome evolution, nucleic acid chaperon coiled-coil; HET: MSE; 2.10A {Homo sapiens} PDB: 2ykp_A 2ykq_A 2ldy_A
Probab=4.21 E-value=1.5e+02 Score=24.92 Aligned_cols=19 Identities=21% Similarity=0.233 Sum_probs=16.4
Q ss_pred CcccccccccccccccccC
Q 030357 91 GLSKFYQGKSQSFTSLASV 109 (179)
Q Consensus 91 GLSkfY~GKSkSFtsLa~v 109 (179)
-|+.+|+|+-+||.+....
T Consensus 182 kLsf~~eGeiksF~dkqkl 200 (233)
T 2yko_A 182 KLSFISEGEIKYFIDKQML 200 (233)
T ss_dssp EEEEESSSSEEEESSHHHH
T ss_pred ceEEEEcCeEeecCCHHHH
Confidence 3789999999999988764
No 8
>2oyz_A UPF0345 protein VPA0057; unknown function, structural genomi 2, protein structure initiative, midwest center for structu genomics, MCSG; 1.71A {Vibrio parahaemolyticus} SCOP: b.82.1.22
Probab=4.06 E-value=2e+02 Score=21.15 Aligned_cols=12 Identities=17% Similarity=0.457 Sum_probs=8.6
Q ss_pred cccccccccccc
Q 030357 94 KFYQGKSQSFTS 105 (179)
Q Consensus 94 kfY~GKSkSFts 105 (179)
-||+||-+|-+=
T Consensus 7 vYFdGkv~S~~~ 18 (94)
T 2oyz_A 7 SYFAGGVKSLGF 18 (94)
T ss_dssp EEGGGTEEEEEE
T ss_pred EEeCCeEEEEEE
Confidence 488898877553
No 9
>1kmi_Z CHEZ, chemotaxis protein CHEZ; four-helix bundle, signaling protein; HET: BCN; 2.90A {Escherichia coli} SCOP: h.4.11.1
Probab=3.96 E-value=2e+02 Score=23.22 Aligned_cols=17 Identities=35% Similarity=0.493 Sum_probs=13.6
Q ss_pred cccccchHHHHHHhhhccccc
Q 030357 3 IMESCSSKQIFQQLNSKKIDS 23 (179)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~ 23 (179)
||+.|. ||-|.-|+|..
T Consensus 135 Im~Aqd----FQDLTGQ~I~K 151 (214)
T 1kmi_Z 135 IMMAQD----FQDLTGQVIKR 151 (214)
T ss_dssp HHHHTT----HHHHHHHHHHH
T ss_pred HHHHhc----cchHHHHHHHH
Confidence 788888 88888887754
No 10
>1dev_B SMAD anchor for receptor activation; beta sheet, three-helix bundle, signaling protein; 2.20A {Homo sapiens} SCOP: j.64.1.1 PDB: 1mk2_B
Probab=3.82 E-value=2.3e+02 Score=18.36 Aligned_cols=16 Identities=31% Similarity=0.349 Sum_probs=12.4
Q ss_pred cccccchHHHHHHhhh
Q 030357 3 IMESCSSKQIFQQLNS 18 (179)
Q Consensus 3 ~~~~~~~~~~~~~~~~ 18 (179)
-||.||.---+||.+.
T Consensus 9 PmEYCStiPP~qQ~~~ 24 (41)
T 1dev_B 9 PAEYCSTIPPLQQAQA 24 (41)
T ss_dssp GGGTCBCSCHHHHHTT
T ss_pred cchhhccCCcHHHHhh
Confidence 4899998877888754
Done!