Query psy5385
Match_columns 180
No_of_seqs 133 out of 166
Neff 5.4
Searched_HMMs 29240
Date Sat Aug 17 01:14:55 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5385.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/5385hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3qio_A GAG-POL polyprotein; RN 98.0 2.7E-06 9.2E-11 66.1 2.7 29 20-48 115-144 (150)
2 3h08_A RNH (ribonuclease H); R 97.9 4.5E-06 1.5E-10 63.5 2.4 26 22-47 114-140 (146)
3 2kq2_A Ribonuclease H-related 97.8 3.3E-06 1.1E-10 65.1 0.4 25 24-48 109-134 (147)
4 2e4l_A Ribonuclease HI, RNAse 97.8 7.9E-06 2.7E-10 63.5 2.5 27 22-48 115-142 (158)
5 2qkb_A Ribonuclease H1, HS-RNA 97.8 8.8E-06 3E-10 62.6 2.7 27 22-48 121-148 (154)
6 1jl1_A Ribonuclease HI; RNAse 97.8 8.7E-06 3E-10 63.0 2.5 27 22-48 113-140 (155)
7 3p1g_A Xenotropic murine leuke 97.6 2.1E-05 7.1E-10 62.2 2.5 28 21-48 120-153 (165)
8 1ril_A Ribonuclease H; hydrola 97.6 1.7E-05 5.7E-10 62.3 1.0 27 22-48 118-145 (166)
9 3hst_B Protein RV2228C/MT2287; 92.3 0.062 2.1E-06 39.4 2.2 27 17-47 102-129 (141)
10 3u3g_D Ribonuclease H, RNAse H 91.4 0.093 3.2E-06 38.1 2.3 25 19-47 108-133 (140)
11 2ehg_A Ribonuclease HI; RNAse 90.5 0.11 3.6E-06 38.9 1.9 20 24-47 110-130 (149)
12 2lsn_A Reverse transcriptase; 71.5 1.1 3.8E-05 34.9 0.8 19 19-37 124-142 (165)
13 2l7x_A Envelope glycoprotein; 38.8 13 0.00043 25.7 1.5 34 121-154 31-68 (77)
No 1
>3qio_A GAG-POL polyprotein; RNAse H, inhibitor, nuclease, transferase, hydrolase- complex; HET: QID; 1.40A {Hiv-1 M} SCOP: c.55.3.1 PDB: 3qin_A* 3hyf_A* 1o1w_A 3lp3_A* 1hrh_A 3k2p_A* 1rdh_A
Probab=97.98 E-value=2.7e-06 Score=66.11 Aligned_cols=29 Identities=7% Similarity=-0.027 Sum_probs=26.0
Q ss_pred ccCCceEEEEeccccccchh-HHHHhhhcC
Q psy5385 20 KTQETLRYLHAPSVVLLTIR-IARRYTILS 48 (180)
Q Consensus 20 ~~~~~V~l~WIP~H~gipGN-~ADr~A~~s 48 (180)
.....|.|.|||||.|++|| .||++|+.+
T Consensus 115 ~~~~~v~~~wV~gH~g~~~Ne~AD~LA~~a 144 (150)
T 3qio_A 115 IKKEKVYLAWVPAHKGIGGNEQVDKLVSAG 144 (150)
T ss_dssp TTCSEEEEEECCTTSCCHHHHHHHHHHHTT
T ss_pred hhcCceEEEEccCcCCChhHHHHHHHHHHH
Confidence 35778999999999999999 999999765
No 2
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=97.89 E-value=4.5e-06 Score=63.53 Aligned_cols=26 Identities=8% Similarity=-0.050 Sum_probs=22.6
Q ss_pred CCceEEEEeccccccchh-HHHHhhhc
Q psy5385 22 QETLRYLHAPSVVLLTIR-IARRYTIL 47 (180)
Q Consensus 22 ~~~V~l~WIP~H~gipGN-~ADr~A~~ 47 (180)
+..|+|.|||||+|++|| .||++|+.
T Consensus 114 ~~~v~~~~V~gH~g~~~N~~AD~LA~~ 140 (146)
T 3h08_A 114 LHRVTFHKVKGHSDNPYNSRADELARL 140 (146)
T ss_dssp HSEEEEEECCC-CCSHHHHHHHHHHHH
T ss_pred hCceEEEEcCCcCCcHhHHHHHHHHHH
Confidence 457999999999999999 99999964
No 3
>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO enzyme, structural genomics, protein structure initiative; NMR {Desulfitobacterium hafniense dcb-2} PDB: 2kw4_A
Probab=97.80 E-value=3.3e-06 Score=65.07 Aligned_cols=25 Identities=0% Similarity=-0.180 Sum_probs=23.1
Q ss_pred ceEEEEeccccccchh-HHHHhhhcC
Q psy5385 24 TLRYLHAPSVVLLTIR-IARRYTILS 48 (180)
Q Consensus 24 ~V~l~WIP~H~gipGN-~ADr~A~~s 48 (180)
.|.|.|||||+|++|| .||++|+.+
T Consensus 109 ~v~~~wV~gH~g~~~Ne~AD~LA~~a 134 (147)
T 2kq2_A 109 IYSFEKVKAHSGNEFNDYVDMKAKSA 134 (147)
T ss_dssp TCCBCCCCCCCCCHHHHHHHHHHHHH
T ss_pred CeeEEEecCcCCCcchHHHHHHHHHH
Confidence 8999999999999999 999999743
No 4
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=97.80 E-value=7.9e-06 Score=63.52 Aligned_cols=27 Identities=0% Similarity=-0.124 Sum_probs=24.1
Q ss_pred CCceEEEEeccccccchh-HHHHhhhcC
Q psy5385 22 QETLRYLHAPSVVLLTIR-IARRYTILS 48 (180)
Q Consensus 22 ~~~V~l~WIP~H~gipGN-~ADr~A~~s 48 (180)
+..|.|.|||||.|++|| .||++|+.+
T Consensus 115 ~~~v~~~wV~gH~g~~~Ne~AD~LAk~a 142 (158)
T 2e4l_A 115 LHQIDWRWVKGHAGHAENERCDQLARAA 142 (158)
T ss_dssp TSEEEEEECCTTCCCHHHHHHHHHHHHH
T ss_pred cCcEEEEEccCCCCchhHHHHHHHHHHH
Confidence 468999999999999999 999998643
No 5
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=97.79 E-value=8.8e-06 Score=62.61 Aligned_cols=27 Identities=15% Similarity=0.150 Sum_probs=24.4
Q ss_pred CCceEEEEeccccccchh-HHHHhhhcC
Q psy5385 22 QETLRYLHAPSVVLLTIR-IARRYTILS 48 (180)
Q Consensus 22 ~~~V~l~WIP~H~gipGN-~ADr~A~~s 48 (180)
+..|.|.|||||.|++|| .||++|+.+
T Consensus 121 ~~~v~~~~V~~H~g~~~N~~AD~LA~~a 148 (154)
T 2qkb_A 121 GMDIQWMHVPGHSGFIGNEEADRLAREG 148 (154)
T ss_dssp TCEEEEEECCTTSSCHHHHHHHHHHHHH
T ss_pred CCceEEEEccCCCCCHhHHHHHHHHHHH
Confidence 567999999999999999 999999754
No 6
>1jl1_A Ribonuclease HI; RNAse HI, protein stability, thermostability, hydrogen exchange, cooperativity, hydrolase; 1.30A {Escherichia coli} SCOP: c.55.3.1 PDB: 1f21_A 1jxb_A 1g15_A 1rch_A 1rdd_A 1rnh_A* 2rn2_A 1rda_A 1law_A 1rdb_A 1lav_A 3aa4_A 1rbu_A 1gob_A 1rdc_A 1kvc_A 3aa3_A 3aa2_A 3aa5_X 1rbv_A ...
Probab=97.78 E-value=8.7e-06 Score=63.00 Aligned_cols=27 Identities=7% Similarity=-0.038 Sum_probs=24.1
Q ss_pred CCceEEEEeccccccchh-HHHHhhhcC
Q psy5385 22 QETLRYLHAPSVVLLTIR-IARRYTILS 48 (180)
Q Consensus 22 ~~~V~l~WIP~H~gipGN-~ADr~A~~s 48 (180)
+..|.|.|||||.|++|| .||++|+.+
T Consensus 113 ~~~v~~~wV~gH~g~~~Ne~AD~LA~~a 140 (155)
T 1jl1_A 113 QHQIKWEWVKGHAGHPENERADELARAA 140 (155)
T ss_dssp TCEEEEEECCSSTTCHHHHHHHHHHHHH
T ss_pred cCceEEEEcCCCCCCHHHHHHHHHHHHH
Confidence 468999999999999999 999998643
No 7
>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV, RNAse H, reverse transcriptase, transcription; 1.50A {Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A 3v1r_A* 2hb5_A 4e89_A
Probab=97.62 E-value=2.1e-05 Score=62.24 Aligned_cols=28 Identities=14% Similarity=0.110 Sum_probs=25.2
Q ss_pred cCCceEEEEeccccc-----cchh-HHHHhhhcC
Q psy5385 21 TQETLRYLHAPSVVL-----LTIR-IARRYTILS 48 (180)
Q Consensus 21 ~~~~V~l~WIP~H~g-----ipGN-~ADr~A~~s 48 (180)
.+..|.|.|||||.| ++|| .||++|+.+
T Consensus 120 ~~~~v~~~wVkgH~g~~~~~~~gNe~AD~LA~~a 153 (165)
T 3p1g_A 120 LPKRLSIIHCPGHQKGNSAEARGNRMADQAAREA 153 (165)
T ss_dssp SBSEEEEEECCSSCCSCSHHHHHHHHHHHHHHHH
T ss_pred cCCceEEEEecCCCCCCcCcchHHHHHHHHHHHH
Confidence 578899999999999 9999 999999643
No 8
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=97.55 E-value=1.7e-05 Score=62.30 Aligned_cols=27 Identities=7% Similarity=-0.065 Sum_probs=24.0
Q ss_pred CCceEEEEeccccccchh-HHHHhhhcC
Q psy5385 22 QETLRYLHAPSVVLLTIR-IARRYTILS 48 (180)
Q Consensus 22 ~~~V~l~WIP~H~gipGN-~ADr~A~~s 48 (180)
+..|.|.|||||+|++|| .||++|+.+
T Consensus 118 ~~~v~~~wV~gH~g~~~Ne~AD~LAk~a 145 (166)
T 1ril_A 118 PHRVRFHFVKGHTGHPENERVDREARRQ 145 (166)
T ss_dssp TSEEECCCCCGGGSCTHHHHHHHHHHHH
T ss_pred cCeEEEEEeeCCCCchhHHHHHHHHHHH
Confidence 458999999999999999 999999743
No 9
>3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain, fusion protein, maltose binding protein, HYDR; HET: MLR TAR; 2.25A {Mycobacterium tuberculosis}
Probab=92.32 E-value=0.062 Score=39.36 Aligned_cols=27 Identities=19% Similarity=0.143 Sum_probs=21.7
Q ss_pred cccccCCceEEEEeccccccchh-HHHHhhhc
Q psy5385 17 ARPKTQETLRYLHAPSVVLLTIR-IARRYTIL 47 (180)
Q Consensus 17 ~l~~~~~~V~l~WIP~H~gipGN-~ADr~A~~ 47 (180)
++.+....|+|.|||+ +|| .||++|+.
T Consensus 102 ~l~~~~~~v~~~~V~~----~~N~~AD~LA~~ 129 (141)
T 3hst_B 102 ALASQFRRINYEWVPR----ARNTYADRLAND 129 (141)
T ss_dssp HHHTTSSEEEEEECCG----GGCHHHHHHHHH
T ss_pred HHHhcCCeEEEEEcCC----cccHHHHHHHHH
Confidence 4444568999999995 899 99999864
No 10
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=91.42 E-value=0.093 Score=38.06 Aligned_cols=25 Identities=16% Similarity=0.151 Sum_probs=20.0
Q ss_pred cccCCceEEEEeccccccchh-HHHHhhhc
Q psy5385 19 PKTQETLRYLHAPSVVLLTIR-IARRYTIL 47 (180)
Q Consensus 19 ~~~~~~V~l~WIP~H~gipGN-~ADr~A~~ 47 (180)
.+.-..|+|.|||+ +|| .||++|+.
T Consensus 108 ~~~~~~v~~~~V~~----~~N~~AD~LA~~ 133 (140)
T 3u3g_D 108 MERVPNLVFVHIPR----EKNARADELVNE 133 (140)
T ss_dssp HHHCTTCEEEECCG----GGGHHHHHHHHH
T ss_pred hcCCCcEEEEEcCc----hhhHHHHHHHHH
Confidence 33345899999993 899 99999964
No 11
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=90.53 E-value=0.11 Score=38.91 Aligned_cols=20 Identities=15% Similarity=0.187 Sum_probs=17.6
Q ss_pred ceEEEEeccccccchh-HHHHhhhc
Q psy5385 24 TLRYLHAPSVVLLTIR-IARRYTIL 47 (180)
Q Consensus 24 ~V~l~WIP~H~gipGN-~ADr~A~~ 47 (180)
.|+|.|||+ ++| .||++|+.
T Consensus 110 ~v~~~~V~~----~~N~~AD~LA~~ 130 (149)
T 2ehg_A 110 NATLIWVPR----EENKEADRLSRV 130 (149)
T ss_dssp TCEEEECCG----GGCHHHHHHHHH
T ss_pred CEEEEEcCC----cccHHHHHHHHH
Confidence 599999999 599 99999864
No 12
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=71.49 E-value=1.1 Score=34.86 Aligned_cols=19 Identities=5% Similarity=-0.038 Sum_probs=15.0
Q ss_pred cccCCceEEEEeccccccc
Q psy5385 19 PKTQETLRYLHAPSVVLLT 37 (180)
Q Consensus 19 ~~~~~~V~l~WIP~H~gip 37 (180)
......|.|.|||||.|+.
T Consensus 124 ~~~~~~v~~~~VkgH~g~~ 142 (165)
T 2lsn_A 124 LSMKPDITIQHEKGHQPTN 142 (165)
T ss_dssp HHHCTTCEEEECCSSSCSS
T ss_pred HhCCCCEEEEEEeCCCCcc
Confidence 3345679999999999864
No 13
>2l7x_A Envelope glycoprotein; cytoplasmic tail, viral protein; NMR {Crimean-congo hemorrhagic fever virus}
Probab=38.78 E-value=13 Score=25.73 Aligned_cols=34 Identities=21% Similarity=0.381 Sum_probs=22.2
Q ss_pred CCcc-cCCcc---cchhhhhcCcccHHHhhhCCCCCCh
Q psy5385 121 PTCR-CGDIL---TTVKHILTCPLDIQLRSSLPNPPSL 154 (180)
Q Consensus 121 p~C~-Cg~~~---QTv~HI~eCp~~~~~R~~~~~~~~l 154 (180)
-.|. |+..+ --+.|+..||+..+.-.+..+--++
T Consensus 31 NiCPYC~nRls~eGl~RHV~~CPKR~erleEielyln~ 68 (77)
T 2l7x_A 31 NICPYCASRLTSDGLARHVTQCPKRKEKVEETELYLNL 68 (77)
T ss_dssp TCCTTTCCCCCTTTHHHHHTTCSHHHHHHHHHTTTTSS
T ss_pred ccChhhhccCCccchhhhcccCccHHHHHHHHHHHhhh
Confidence 3577 77665 2378999999987665554443333
Done!