Query psy17175
Match_columns 285
No_of_seqs 203 out of 244
Neff 4.8
Searched_HMMs 29240
Date Fri Aug 16 23:48:51 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17175.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/17175hhsearch_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 97.2 9.2E-05 3.2E-09 61.9 1.7 25 117-142 116-140 (150)
2 2kq2_A Ribonuclease H-related 97.2 6.6E-05 2.3E-09 62.2 0.7 22 120-142 109-130 (147)
3 3h08_A RNH (ribonuclease H); R 97.1 0.00013 4.4E-09 59.7 1.1 23 119-142 115-137 (146)
4 2e4l_A Ribonuclease HI, RNAse 97.0 0.00015 5.2E-09 60.6 1.1 23 119-142 116-138 (158)
5 1jl1_A Ribonuclease HI; RNAse 97.0 0.00016 5.3E-09 60.3 1.2 23 119-142 114-136 (155)
6 2qkb_A Ribonuclease H1, HS-RNA 97.0 0.00019 6.5E-09 59.4 1.1 23 119-142 122-144 (154)
7 3p1g_A Xenotropic murine leuke 96.8 0.0003 1E-08 59.9 1.0 25 117-142 120-149 (165)
8 1ril_A Ribonuclease H; hydrola 96.7 0.00032 1.1E-08 59.3 0.6 23 119-142 119-141 (166)
9 2zd1_A Reverse transcriptase/r 96.0 0.002 6.7E-08 63.7 1.6 24 119-143 531-554 (557)
10 1mu2_A HIV-2 RT; HIV-2 reverse 95.9 0.0024 8.2E-08 63.1 2.1 24 118-142 527-550 (555)
11 2lsn_A Reverse transcriptase; 95.2 0.0046 1.6E-07 52.7 0.8 24 118-142 127-156 (165)
12 3u3g_D Ribonuclease H, RNAse H 79.2 0.71 2.4E-05 35.9 1.6 21 117-142 110-130 (140)
13 3hst_B Protein RV2228C/MT2287; 78.3 0.79 2.7E-05 36.0 1.6 21 117-142 106-126 (141)
14 2ehg_A Ribonuclease HI; RNAse 73.8 1.2 4.1E-05 35.7 1.5 18 120-142 110-127 (149)
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=97.22 E-value=9.2e-05 Score=61.90 Aligned_cols=25 Identities=20% Similarity=0.215 Sum_probs=22.1
Q ss_pred cccccceeeeecCCCCcCcchhHHhh
Q psy17175 117 AALSVRHILFCHQHDNAAGVESLFLL 142 (285)
Q Consensus 117 ~~~~vr~~~WIPGH~gIpGNE~AD~~ 142 (285)
....|. +.|||||.|++|||.||++
T Consensus 116 ~~~~v~-~~wV~gH~g~~~Ne~AD~L 140 (150)
T 3qio_A 116 KKEKVY-LAWVPAHKGIGGNEQVDKL 140 (150)
T ss_dssp TCSEEE-EEECCTTSCCHHHHHHHHH
T ss_pred hcCceE-EEEccCcCCChhHHHHHHH
Confidence 355675 9999999999999999997
No 2
>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=97.21 E-value=6.6e-05 Score=62.23 Aligned_cols=22 Identities=5% Similarity=-0.146 Sum_probs=20.5
Q ss_pred ccceeeeecCCCCcCcchhHHhh
Q psy17175 120 SVRHILFCHQHDNAAGVESLFLL 142 (285)
Q Consensus 120 ~vr~~~WIPGH~gIpGNE~AD~~ 142 (285)
.|+ +.|||||+|++|||.||+|
T Consensus 109 ~v~-~~wV~gH~g~~~Ne~AD~L 130 (147)
T 2kq2_A 109 IYS-FEKVKAHSGNEFNDYVDMK 130 (147)
T ss_dssp TCC-BCCCCCCCCCHHHHHHHHH
T ss_pred Cee-EEEecCcCCCcchHHHHHH
Confidence 675 9999999999999999997
No 3
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=97.07 E-value=0.00013 Score=59.67 Aligned_cols=23 Identities=13% Similarity=-0.077 Sum_probs=19.7
Q ss_pred cccceeeeecCCCCcCcchhHHhh
Q psy17175 119 LSVRHILFCHQHDNAAGVESLFLL 142 (285)
Q Consensus 119 ~~vr~~~WIPGH~gIpGNE~AD~~ 142 (285)
..|+ +.|||||+|++|||.||+|
T Consensus 115 ~~v~-~~~V~gH~g~~~N~~AD~L 137 (146)
T 3h08_A 115 HRVT-FHKVKGHSDNPYNSRADEL 137 (146)
T ss_dssp SEEE-EEECCC-CCSHHHHHHHHH
T ss_pred CceE-EEEcCCcCCcHhHHHHHHH
Confidence 3575 9999999999999999987
No 4
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=97.02 E-value=0.00015 Score=60.64 Aligned_cols=23 Identities=17% Similarity=0.072 Sum_probs=20.9
Q ss_pred cccceeeeecCCCCcCcchhHHhh
Q psy17175 119 LSVRHILFCHQHDNAAGVESLFLL 142 (285)
Q Consensus 119 ~~vr~~~WIPGH~gIpGNE~AD~~ 142 (285)
..|+ +.|||||+|++|||.||+|
T Consensus 116 ~~v~-~~wV~gH~g~~~Ne~AD~L 138 (158)
T 2e4l_A 116 HQID-WRWVKGHAGHAENERCDQL 138 (158)
T ss_dssp SEEE-EEECCTTCCCHHHHHHHHH
T ss_pred CcEE-EEEccCCCCchhHHHHHHH
Confidence 3675 9999999999999999987
No 5
>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=97.02 E-value=0.00016 Score=60.28 Aligned_cols=23 Identities=13% Similarity=0.063 Sum_probs=20.9
Q ss_pred cccceeeeecCCCCcCcchhHHhh
Q psy17175 119 LSVRHILFCHQHDNAAGVESLFLL 142 (285)
Q Consensus 119 ~~vr~~~WIPGH~gIpGNE~AD~~ 142 (285)
..|. +.|||||+|++|||.||+|
T Consensus 114 ~~v~-~~wV~gH~g~~~Ne~AD~L 136 (155)
T 1jl1_A 114 HQIK-WEWVKGHAGHPENERADEL 136 (155)
T ss_dssp CEEE-EEECCSSTTCHHHHHHHHH
T ss_pred CceE-EEEcCCCCCCHHHHHHHHH
Confidence 4675 9999999999999999997
No 6
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=96.95 E-value=0.00019 Score=59.37 Aligned_cols=23 Identities=17% Similarity=0.216 Sum_probs=20.7
Q ss_pred cccceeeeecCCCCcCcchhHHhh
Q psy17175 119 LSVRHILFCHQHDNAAGVESLFLL 142 (285)
Q Consensus 119 ~~vr~~~WIPGH~gIpGNE~AD~~ 142 (285)
..|. +.|||||+|++|||.||+|
T Consensus 122 ~~v~-~~~V~~H~g~~~N~~AD~L 144 (154)
T 2qkb_A 122 MDIQ-WMHVPGHSGFIGNEEADRL 144 (154)
T ss_dssp CEEE-EEECCTTSSCHHHHHHHHH
T ss_pred CceE-EEEccCCCCCHhHHHHHHH
Confidence 3575 9999999999999999997
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=96.78 E-value=0.0003 Score=59.94 Aligned_cols=25 Identities=20% Similarity=0.254 Sum_probs=22.1
Q ss_pred cccccceeeeecCCCC-----cCcchhHHhh
Q psy17175 117 AALSVRHILFCHQHDN-----AAGVESLFLL 142 (285)
Q Consensus 117 ~~~~vr~~~WIPGH~g-----IpGNE~AD~~ 142 (285)
....|. +.|||||.| ++|||.||++
T Consensus 120 ~~~~v~-~~wVkgH~g~~~~~~~gNe~AD~L 149 (165)
T 3p1g_A 120 LPKRLS-IIHCPGHQKGNSAEARGNRMADQA 149 (165)
T ss_dssp SBSEEE-EEECCSSCCSCSHHHHHHHHHHHH
T ss_pred cCCceE-EEEecCCCCCCcCcchHHHHHHHH
Confidence 456785 999999999 9999999987
No 8
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=96.71 E-value=0.00032 Score=59.30 Aligned_cols=23 Identities=22% Similarity=0.151 Sum_probs=20.9
Q ss_pred cccceeeeecCCCCcCcchhHHhh
Q psy17175 119 LSVRHILFCHQHDNAAGVESLFLL 142 (285)
Q Consensus 119 ~~vr~~~WIPGH~gIpGNE~AD~~ 142 (285)
..|+ +.|||||+|++|||.||+|
T Consensus 119 ~~v~-~~wV~gH~g~~~Ne~AD~L 141 (166)
T 1ril_A 119 HRVR-FHFVKGHTGHPENERVDRE 141 (166)
T ss_dssp SEEE-CCCCCGGGSCTHHHHHHHH
T ss_pred CeEE-EEEeeCCCCchhHHHHHHH
Confidence 3675 9999999999999999987
No 9
>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} PDB: 3is9_A* 3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A 1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A* 2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ...
Probab=95.97 E-value=0.002 Score=63.75 Aligned_cols=24 Identities=21% Similarity=0.205 Sum_probs=21.1
Q ss_pred cccceeeeecCCCCcCcchhHHhhh
Q psy17175 119 LSVRHILFCHQHDNAAGVESLFLLN 143 (285)
Q Consensus 119 ~~vr~~~WIPGH~gIpGNE~AD~~~ 143 (285)
..|. +.|||||.|++|||.||++|
T Consensus 531 ~~v~-~~wV~~H~g~~~Ne~AD~LA 554 (557)
T 2zd1_A 531 EKVY-LAWVPAHKGIGGNEQVDKLV 554 (557)
T ss_dssp SEEE-EEECCSSSCCTTCCGGGGCC
T ss_pred CCEE-EEEcCCCCCChhHHHHHHHH
Confidence 4575 99999999999999999973
No 10
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug design, transferase; 2.35A {Human immunodeficiency virus 2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B
Probab=95.94 E-value=0.0024 Score=63.08 Aligned_cols=24 Identities=13% Similarity=0.220 Sum_probs=21.2
Q ss_pred ccccceeeeecCCCCcCcchhHHhh
Q psy17175 118 ALSVRHILFCHQHDNAAGVESLFLL 142 (285)
Q Consensus 118 ~~~vr~~~WIPGH~gIpGNE~AD~~ 142 (285)
...|+ +.|||||.|++|||.||++
T Consensus 527 ~~~v~-~~wV~~H~g~~~Ne~AD~L 550 (555)
T 1mu2_A 527 KEAIY-VAWVPAHKGIGGNQEVDHL 550 (555)
T ss_dssp CSEEE-EEECCSSSCCTTHHHHHHH
T ss_pred CCcEE-EEEEECCCCChhHHHHHHH
Confidence 34565 9999999999999999997
No 11
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=95.19 E-value=0.0046 Score=52.69 Aligned_cols=24 Identities=17% Similarity=0.068 Sum_probs=20.0
Q ss_pred ccccceeeeecCCCCc------CcchhHHhh
Q psy17175 118 ALSVRHILFCHQHDNA------AGVESLFLL 142 (285)
Q Consensus 118 ~~~vr~~~WIPGH~gI------pGNE~AD~~ 142 (285)
...|. +.|||||.|+ +|||.||+|
T Consensus 127 ~~~v~-~~~VkgH~g~~~~~~~~gNe~AD~L 156 (165)
T 2lsn_A 127 KPDIT-IQHEKGHQPTNTSIHTEGNALADKL 156 (165)
T ss_dssp CTTCE-EEECCSSSCSSSCHHHHHHHHHHHH
T ss_pred CCCEE-EEEEeCCCCccCCCCChHHHHHHHH
Confidence 34675 9999999995 589999997
No 12
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=79.20 E-value=0.71 Score=35.91 Aligned_cols=21 Identities=5% Similarity=-0.159 Sum_probs=17.1
Q ss_pred cccccceeeeecCCCCcCcchhHHhh
Q psy17175 117 AALSVRHILFCHQHDNAAGVESLFLL 142 (285)
Q Consensus 117 ~~~~vr~~~WIPGH~gIpGNE~AD~~ 142 (285)
.+..|+ +.||| .+|||.||++
T Consensus 110 ~~~~v~-~~~V~----~~~N~~AD~L 130 (140)
T 3u3g_D 110 RVPNLV-FVHIP----REKNARADEL 130 (140)
T ss_dssp HCTTCE-EEECC----GGGGHHHHHH
T ss_pred CCCcEE-EEEcC----chhhHHHHHH
Confidence 345775 99999 4999999987
No 13
>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=78.27 E-value=0.79 Score=35.98 Aligned_cols=21 Identities=10% Similarity=-0.119 Sum_probs=17.5
Q ss_pred cccccceeeeecCCCCcCcchhHHhh
Q psy17175 117 AALSVRHILFCHQHDNAAGVESLFLL 142 (285)
Q Consensus 117 ~~~~vr~~~WIPGH~gIpGNE~AD~~ 142 (285)
.+..|+ +.|||+ .|||.||++
T Consensus 106 ~~~~v~-~~~V~~----~~N~~AD~L 126 (141)
T 3hst_B 106 QFRRIN-YEWVPR----ARNTYADRL 126 (141)
T ss_dssp TSSEEE-EEECCG----GGCHHHHHH
T ss_pred cCCeEE-EEEcCC----cccHHHHHH
Confidence 356775 999995 999999987
No 14
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=73.83 E-value=1.2 Score=35.73 Aligned_cols=18 Identities=6% Similarity=0.093 Sum_probs=15.6
Q ss_pred ccceeeeecCCCCcCcchhHHhh
Q psy17175 120 SVRHILFCHQHDNAAGVESLFLL 142 (285)
Q Consensus 120 ~vr~~~WIPGH~gIpGNE~AD~~ 142 (285)
.|+ +.|||| .|||.||++
T Consensus 110 ~v~-~~~V~~----~~N~~AD~L 127 (149)
T 2ehg_A 110 NAT-LIWVPR----EENKEADRL 127 (149)
T ss_dssp TCE-EEECCG----GGCHHHHHH
T ss_pred CEE-EEEcCC----cccHHHHHH
Confidence 575 999999 599999987
Done!