Query psy1455
Match_columns 221
No_of_seqs 189 out of 917
Neff 7.6
Searched_HMMs 29240
Date Fri Aug 16 22:44:36 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1455.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/1455hhsearch_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 98.4 1.3E-07 4.6E-12 73.6 2.5 31 66-96 116-146 (150)
2 2kq2_A Ribonuclease H-related 98.3 1E-07 3.5E-12 73.9 1.6 30 69-98 109-138 (147)
3 3h08_A RNH (ribonuclease H); R 98.3 1.7E-07 5.8E-12 72.2 1.2 30 67-96 114-143 (146)
4 2qkb_A Ribonuclease H1, HS-RNA 98.3 2.2E-07 7.7E-12 72.3 1.9 32 66-97 120-151 (154)
5 3p1g_A Xenotropic murine leuke 98.2 1.7E-07 5.8E-12 74.2 0.8 33 66-98 120-157 (165)
6 1jl1_A Ribonuclease HI; RNAse 98.2 2.7E-07 9.2E-12 72.0 1.5 33 67-99 113-145 (155)
7 2e4l_A Ribonuclease HI, RNAse 98.2 4.2E-07 1.5E-11 71.2 1.5 31 67-97 115-145 (158)
8 1ril_A Ribonuclease H; hydrola 98.0 9.8E-07 3.4E-11 69.7 1.0 32 67-98 118-149 (166)
9 2lsn_A Reverse transcriptase; 97.7 7.5E-06 2.6E-10 64.7 1.6 29 67-95 127-161 (165)
10 1mu2_A HIV-2 RT; HIV-2 reverse 97.7 1.3E-05 4.4E-10 74.5 3.0 29 66-94 526-554 (555)
11 2zd1_A Reverse transcriptase/r 97.5 1.6E-05 5.6E-10 73.8 0.3 28 67-94 530-557 (557)
12 3u3g_D Ribonuclease H, RNAse H 95.5 0.0045 1.6E-07 46.0 1.6 25 68-96 112-136 (140)
13 2ehg_A Ribonuclease HI; RNAse 95.3 0.0059 2E-07 46.4 1.6 25 69-97 110-134 (149)
14 3hst_B Protein RV2228C/MT2287; 95.2 0.0072 2.5E-07 45.1 2.0 26 67-96 107-132 (141)
15 2fq3_A Transcription regulator 30.2 48 0.0016 23.5 3.4 27 193-219 72-98 (104)
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=98.36 E-value=1.3e-07 Score=73.57 Aligned_cols=31 Identities=39% Similarity=0.705 Sum_probs=28.1
Q ss_pred cCCcceeeeccCCCCCccchhHhHHHhhccc
Q psy1455 66 AGNNVKIIWIPSHCGIAGNEEVDKAAQSFTN 96 (221)
Q Consensus 66 ~g~~v~~~wvPgH~gI~GNE~AD~~Ak~~~~ 96 (221)
....|.|.|||||+|++|||.||++|+++..
T Consensus 116 ~~~~v~~~wV~gH~g~~~Ne~AD~LA~~a~~ 146 (150)
T 3qio_A 116 KKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 146 (150)
T ss_dssp TCSEEEEEECCTTSCCHHHHHHHHHHHTTTS
T ss_pred hcCceEEEEccCcCCChhHHHHHHHHHHHHH
Confidence 4578999999999999999999999998764
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=98.35 E-value=1e-07 Score=73.88 Aligned_cols=30 Identities=23% Similarity=0.147 Sum_probs=27.6
Q ss_pred cceeeeccCCCCCccchhHhHHHhhccccc
Q psy1455 69 NVKIIWIPSHCGIAGNEEVDKAAQSFTNAQ 98 (221)
Q Consensus 69 ~v~~~wvPgH~gI~GNE~AD~~Ak~~~~~~ 98 (221)
.|.|.|||||+|++|||.||++|+++...+
T Consensus 109 ~v~~~wV~gH~g~~~Ne~AD~LA~~a~~~~ 138 (147)
T 2kq2_A 109 IYSFEKVKAHSGNEFNDYVDMKAKSALGIR 138 (147)
T ss_dssp TCCBCCCCCCCCCHHHHHHHHHHHHHHTCC
T ss_pred CeeEEEecCcCCCcchHHHHHHHHHHHhcc
Confidence 899999999999999999999999887554
No 3
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=98.27 E-value=1.7e-07 Score=72.22 Aligned_cols=30 Identities=17% Similarity=0.085 Sum_probs=26.0
Q ss_pred CCcceeeeccCCCCCccchhHhHHHhhccc
Q psy1455 67 GNNVKIIWIPSHCGIAGNEEVDKAAQSFTN 96 (221)
Q Consensus 67 g~~v~~~wvPgH~gI~GNE~AD~~Ak~~~~ 96 (221)
..+|.|.|||||+|++|||.||++|+.+..
T Consensus 114 ~~~v~~~~V~gH~g~~~N~~AD~LA~~a~~ 143 (146)
T 3h08_A 114 LHRVTFHKVKGHSDNPYNSRADELARLAIK 143 (146)
T ss_dssp HSEEEEEECCC-CCSHHHHHHHHHHHHHHH
T ss_pred hCceEEEEcCCcCCcHhHHHHHHHHHHHHH
Confidence 457999999999999999999999997764
No 4
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=98.27 E-value=2.2e-07 Score=72.26 Aligned_cols=32 Identities=31% Similarity=0.614 Sum_probs=28.5
Q ss_pred cCCcceeeeccCCCCCccchhHhHHHhhcccc
Q psy1455 66 AGNNVKIIWIPSHCGIAGNEEVDKAAQSFTNA 97 (221)
Q Consensus 66 ~g~~v~~~wvPgH~gI~GNE~AD~~Ak~~~~~ 97 (221)
.+..|.|.|||||+|++|||.||++|+.+...
T Consensus 120 ~~~~v~~~~V~~H~g~~~N~~AD~LA~~a~~~ 151 (154)
T 2qkb_A 120 QGMDIQWMHVPGHSGFIGNEEADRLAREGAKQ 151 (154)
T ss_dssp TTCEEEEEECCTTSSCHHHHHHHHHHHHHHTC
T ss_pred cCCceEEEEccCCCCCHhHHHHHHHHHHHHHh
Confidence 35689999999999999999999999987654
No 5
>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=98.25 E-value=1.7e-07 Score=74.20 Aligned_cols=33 Identities=27% Similarity=0.330 Sum_probs=29.5
Q ss_pred cCCcceeeeccCCCC-----CccchhHhHHHhhccccc
Q psy1455 66 AGNNVKIIWIPSHCG-----IAGNEEVDKAAQSFTNAQ 98 (221)
Q Consensus 66 ~g~~v~~~wvPgH~g-----I~GNE~AD~~Ak~~~~~~ 98 (221)
.+..|.|.|||||+| ++|||+||++|+++...+
T Consensus 120 ~~~~v~~~wVkgH~g~~~~~~~gNe~AD~LA~~aa~~~ 157 (165)
T 3p1g_A 120 LPKRLSIIHCPGHQKGNSAEARGNRMADQAAREAAMKA 157 (165)
T ss_dssp SBSEEEEEECCSSCCSCSHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCceEEEEecCCCCCCcCcchHHHHHHHHHHHHHhcC
Confidence 467899999999999 999999999999887654
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=98.23 E-value=2.7e-07 Score=72.02 Aligned_cols=33 Identities=24% Similarity=0.434 Sum_probs=29.2
Q ss_pred CCcceeeeccCCCCCccchhHhHHHhhcccccc
Q psy1455 67 GNNVKIIWIPSHCGIAGNEEVDKAAQSFTNAQI 99 (221)
Q Consensus 67 g~~v~~~wvPgH~gI~GNE~AD~~Ak~~~~~~~ 99 (221)
+..|.|.|||||+|++|||.||++|+.+...+.
T Consensus 113 ~~~v~~~wV~gH~g~~~Ne~AD~LA~~a~~~~~ 145 (155)
T 1jl1_A 113 QHQIKWEWVKGHAGHPENERADELARAAAMNPT 145 (155)
T ss_dssp TCEEEEEECCSSTTCHHHHHHHHHHHHHHHSCC
T ss_pred cCceEEEEcCCCCCCHHHHHHHHHHHHHHhccc
Confidence 458999999999999999999999998876543
No 7
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=98.17 E-value=4.2e-07 Score=71.15 Aligned_cols=31 Identities=29% Similarity=0.494 Sum_probs=28.2
Q ss_pred CCcceeeeccCCCCCccchhHhHHHhhcccc
Q psy1455 67 GNNVKIIWIPSHCGIAGNEEVDKAAQSFTNA 97 (221)
Q Consensus 67 g~~v~~~wvPgH~gI~GNE~AD~~Ak~~~~~ 97 (221)
+..|.|.|||||+|++|||.||++|+.+...
T Consensus 115 ~~~v~~~wV~gH~g~~~Ne~AD~LAk~a~~~ 145 (158)
T 2e4l_A 115 LHQIDWRWVKGHAGHAENERCDQLARAAAEA 145 (158)
T ss_dssp TSEEEEEECCTTCCCHHHHHHHHHHHHHHHS
T ss_pred cCcEEEEEccCCCCchhHHHHHHHHHHHHHh
Confidence 4689999999999999999999999988765
No 8
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=98.03 E-value=9.8e-07 Score=69.67 Aligned_cols=32 Identities=28% Similarity=0.475 Sum_probs=28.3
Q ss_pred CCcceeeeccCCCCCccchhHhHHHhhccccc
Q psy1455 67 GNNVKIIWIPSHCGIAGNEEVDKAAQSFTNAQ 98 (221)
Q Consensus 67 g~~v~~~wvPgH~gI~GNE~AD~~Ak~~~~~~ 98 (221)
+..|.|.|||||+|++|||.||++|+.+....
T Consensus 118 ~~~v~~~wV~gH~g~~~Ne~AD~LAk~a~~~~ 149 (166)
T 1ril_A 118 PHRVRFHFVKGHTGHPENERVDREARRQAQSQ 149 (166)
T ss_dssp TSEEECCCCCGGGSCTHHHHHHHHHHHHHTSS
T ss_pred cCeEEEEEeeCCCCchhHHHHHHHHHHHHHHh
Confidence 45899999999999999999999999876543
No 9
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=97.74 E-value=7.5e-06 Score=64.69 Aligned_cols=29 Identities=24% Similarity=0.192 Sum_probs=25.6
Q ss_pred CCcceeeeccCCCCC------ccchhHhHHHhhcc
Q psy1455 67 GNNVKIIWIPSHCGI------AGNEEVDKAAQSFT 95 (221)
Q Consensus 67 g~~v~~~wvPgH~gI------~GNE~AD~~Ak~~~ 95 (221)
...|.|.|||||+|+ +|||+||++|++++
T Consensus 127 ~~~v~~~~VkgH~g~~~~~~~~gNe~AD~LA~~gA 161 (165)
T 2lsn_A 127 KPDITIQHEKGHQPTNTSIHTEGNALADKLATQGS 161 (165)
T ss_dssp CTTCEEEECCSSSCSSSCHHHHHHHHHHHHHHHHH
T ss_pred CCCEEEEEEeCCCCccCCCCChHHHHHHHHHHHhh
Confidence 457999999999996 58999999999876
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=97.72 E-value=1.3e-05 Score=74.48 Aligned_cols=29 Identities=34% Similarity=0.704 Sum_probs=26.6
Q ss_pred cCCcceeeeccCCCCCccchhHhHHHhhc
Q psy1455 66 AGNNVKIIWIPSHCGIAGNEEVDKAAQSF 94 (221)
Q Consensus 66 ~g~~v~~~wvPgH~gI~GNE~AD~~Ak~~ 94 (221)
.+..|.|.|||||+|++|||.||++|+++
T Consensus 526 ~~~~v~~~wV~~H~g~~~Ne~AD~LA~~a 554 (555)
T 1mu2_A 526 KKEAIYVAWVPAHKGIGGNQEVDHLVSQG 554 (555)
T ss_dssp HCSEEEEEECCSSSCCTTHHHHHHHHHTT
T ss_pred cCCcEEEEEEECCCCChhHHHHHHHHHhh
Confidence 45789999999999999999999999876
No 11
>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=97.50 E-value=1.6e-05 Score=73.84 Aligned_cols=28 Identities=43% Similarity=0.788 Sum_probs=23.5
Q ss_pred CCcceeeeccCCCCCccchhHhHHHhhc
Q psy1455 67 GNNVKIIWIPSHCGIAGNEEVDKAAQSF 94 (221)
Q Consensus 67 g~~v~~~wvPgH~gI~GNE~AD~~Ak~~ 94 (221)
...|.|.|||||+|++|||.||++|+++
T Consensus 530 ~~~v~~~wV~~H~g~~~Ne~AD~LA~~a 557 (557)
T 2zd1_A 530 KEKVYLAWVPAHKGIGGNEQVDKLVSAG 557 (557)
T ss_dssp CSEEEEEECCSSSCCTTCCGGGGCC---
T ss_pred CCCEEEEEcCCCCCChhHHHHHHHHhcC
Confidence 4579999999999999999999999864
No 12
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=95.47 E-value=0.0045 Score=46.01 Aligned_cols=25 Identities=20% Similarity=0.347 Sum_probs=21.7
Q ss_pred CcceeeeccCCCCCccchhHhHHHhhccc
Q psy1455 68 NNVKIIWIPSHCGIAGNEEVDKAAQSFTN 96 (221)
Q Consensus 68 ~~v~~~wvPgH~gI~GNE~AD~~Ak~~~~ 96 (221)
..|.|.|||. +|||.||++|+.+..
T Consensus 112 ~~v~~~~V~~----~~N~~AD~LA~~a~~ 136 (140)
T 3u3g_D 112 PNLVFVHIPR----EKNARADELVNEAID 136 (140)
T ss_dssp TTCEEEECCG----GGGHHHHHHHHHHHH
T ss_pred CcEEEEEcCc----hhhHHHHHHHHHHHH
Confidence 4899999994 799999999997764
No 13
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=95.26 E-value=0.0059 Score=46.40 Aligned_cols=25 Identities=28% Similarity=0.628 Sum_probs=21.5
Q ss_pred cceeeeccCCCCCccchhHhHHHhhcccc
Q psy1455 69 NVKIIWIPSHCGIAGNEEVDKAAQSFTNA 97 (221)
Q Consensus 69 ~v~~~wvPgH~gI~GNE~AD~~Ak~~~~~ 97 (221)
+|.|.|||+| +||.||++|+.+...
T Consensus 110 ~v~~~~V~~~----~N~~AD~LA~~a~~~ 134 (149)
T 2ehg_A 110 NATLIWVPRE----ENKEADRLSRVAYEL 134 (149)
T ss_dssp TCEEEECCGG----GCHHHHHHHHHHHHH
T ss_pred CEEEEEcCCc----ccHHHHHHHHHHHHh
Confidence 5999999994 899999999977643
No 14
>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=95.22 E-value=0.0072 Score=45.12 Aligned_cols=26 Identities=23% Similarity=0.414 Sum_probs=22.4
Q ss_pred CCcceeeeccCCCCCccchhHhHHHhhccc
Q psy1455 67 GNNVKIIWIPSHCGIAGNEEVDKAAQSFTN 96 (221)
Q Consensus 67 g~~v~~~wvPgH~gI~GNE~AD~~Ak~~~~ 96 (221)
...|.|.|||+ +|||.||++|+.+..
T Consensus 107 ~~~v~~~~V~~----~~N~~AD~LA~~a~~ 132 (141)
T 3hst_B 107 FRRINYEWVPR----ARNTYADRLANDAMD 132 (141)
T ss_dssp SSEEEEEECCG----GGCHHHHHHHHHHHH
T ss_pred CCeEEEEEcCC----cccHHHHHHHHHHHH
Confidence 46899999996 799999999997764
No 15
>2fq3_A Transcription regulatory protein SWI3; four-helix bundle; 1.40A {Saccharomyces cerevisiae} SCOP: a.4.1.18
Probab=30.19 E-value=48 Score=23.49 Aligned_cols=27 Identities=19% Similarity=0.266 Sum_probs=21.3
Q ss_pred cHHhhhCCChHHHHHHHHHHHHcCCCC
Q psy1455 193 QIKDILGDNPRTIDLLFKFLKDSNLLP 219 (221)
Q Consensus 193 ~l~~~L~~~~~~~~~i~~Fl~~t~l~~ 219 (221)
+++..|.-|...+..|..||++-||+|
T Consensus 72 ~~r~~l~gDv~~i~RVh~FLe~wGLIN 98 (104)
T 2fq3_A 72 TARRNVSGDAAALFRLHKFLTKWGLIN 98 (104)
T ss_dssp HHHHHSCSCHHHHHHHHHHHHHTTSSS
T ss_pred HHHHHccccHHHHHHHHHHHHHcCeec
Confidence 334445456788999999999999998
Done!