Query psy11389
Match_columns 73
No_of_seqs 114 out of 474
Neff 5.4
Searched_HMMs 29240
Date Fri Aug 16 17:10:12 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11389.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/11389hhsearch_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 99.0 1.1E-10 3.7E-15 76.6 2.2 32 6-38 115-146 (150)
2 3h08_A RNH (ribonuclease H); R 98.9 2.1E-10 7.3E-15 73.6 1.0 28 8-36 114-141 (146)
3 2qkb_A Ribonuclease H1, HS-RNA 98.9 5E-10 1.7E-14 72.6 1.3 29 8-37 121-149 (154)
4 1jl1_A Ribonuclease HI; RNAse 98.8 5.6E-10 1.9E-14 72.8 1.4 31 8-39 113-143 (155)
5 2e4l_A Ribonuclease HI, RNAse 98.8 5.7E-10 1.9E-14 73.1 1.3 31 8-39 115-145 (158)
6 2kq2_A Ribonuclease H-related 98.8 1.7E-10 5.9E-15 75.0 -1.4 28 10-38 109-136 (147)
7 3p1g_A Xenotropic murine leuke 98.8 8.3E-10 2.8E-14 73.7 0.4 29 7-36 120-153 (165)
8 1ril_A Ribonuclease H; hydrola 98.7 1.5E-09 5.3E-14 71.8 -0.4 29 8-37 118-146 (166)
9 1mu2_A HIV-2 RT; HIV-2 reverse 98.6 1.9E-08 6.7E-13 76.4 3.2 29 7-36 526-554 (555)
10 2zd1_A Reverse transcriptase/r 98.5 2.1E-08 7.3E-13 76.2 1.5 29 7-36 529-557 (557)
11 2lsn_A Reverse transcriptase; 98.4 1.8E-08 6.1E-13 67.4 -0.8 29 7-36 126-160 (165)
12 3hst_B Protein RV2228C/MT2287; 97.5 1.8E-05 6.2E-10 49.2 0.4 25 7-36 106-130 (141)
13 3u3g_D Ribonuclease H, RNAse H 97.4 2.5E-05 8.6E-10 48.1 0.4 23 9-36 112-134 (140)
14 2ehg_A Ribonuclease HI; RNAse 97.4 3.8E-05 1.3E-09 48.8 0.8 22 10-36 110-131 (149)
15 1kn6_A Prohormone convertase 1 30.3 12 0.0004 22.4 0.2 13 24-36 21-33 (90)
16 1kcq_A Gelsolin, brevin, ADF, 26.0 57 0.0019 19.0 2.7 31 2-34 31-61 (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=99.00 E-value=1.1e-10 Score=76.61 Aligned_cols=32 Identities=31% Similarity=0.287 Sum_probs=29.0
Q ss_pred ecCceeEEEEeeCCCCCCccchHHHHHhcCCCC
Q psy11389 6 DKNSYLRYLSNPICHCGIKGNEIVDVAARNPTN 38 (73)
Q Consensus 6 ~~~~~v~~~Wip~~H~gi~gNE~AD~~Ak~a~~ 38 (73)
.+...|.|.||| ||+|++|||.||+||++|..
T Consensus 115 ~~~~~v~~~wV~-gH~g~~~Ne~AD~LA~~a~~ 146 (150)
T 3qio_A 115 IKKEKVYLAWVP-AHKGIGGNEQVDKLVSAGIR 146 (150)
T ss_dssp TTCSEEEEEECC-TTSCCHHHHHHHHHHHTTTS
T ss_pred hhcCceEEEEcc-CcCCChhHHHHHHHHHHHHH
Confidence 356789999999 99999999999999999954
No 2
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=98.91 E-value=2.1e-10 Score=73.57 Aligned_cols=28 Identities=18% Similarity=0.021 Sum_probs=24.8
Q ss_pred CceeEEEEeeCCCCCCccchHHHHHhcCC
Q psy11389 8 NSYLRYLSNPICHCGIKGNEIVDVAARNP 36 (73)
Q Consensus 8 ~~~v~~~Wip~~H~gi~gNE~AD~~Ak~a 36 (73)
...|.|.||| ||+|++|||.||+|||+|
T Consensus 114 ~~~v~~~~V~-gH~g~~~N~~AD~LA~~a 141 (146)
T 3h08_A 114 LHRVTFHKVK-GHSDNPYNSRADELARLA 141 (146)
T ss_dssp HSEEEEEECC-C-CCSHHHHHHHHHHHHH
T ss_pred hCceEEEEcC-CcCCcHhHHHHHHHHHHH
Confidence 3579999999 999999999999999977
No 3
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=98.86 E-value=5e-10 Score=72.62 Aligned_cols=29 Identities=31% Similarity=0.485 Sum_probs=26.8
Q ss_pred CceeEEEEeeCCCCCCccchHHHHHhcCCC
Q psy11389 8 NSYLRYLSNPICHCGIKGNEIVDVAARNPT 37 (73)
Q Consensus 8 ~~~v~~~Wip~~H~gi~gNE~AD~~Ak~a~ 37 (73)
+..|.|.||| ||+|++|||.||+|||+|.
T Consensus 121 ~~~v~~~~V~-~H~g~~~N~~AD~LA~~a~ 149 (154)
T 2qkb_A 121 GMDIQWMHVP-GHSGFIGNEEADRLAREGA 149 (154)
T ss_dssp TCEEEEEECC-TTSSCHHHHHHHHHHHHHH
T ss_pred CCceEEEEcc-CCCCCHhHHHHHHHHHHHH
Confidence 5679999999 9999999999999999884
No 4
>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=98.85 E-value=5.6e-10 Score=72.85 Aligned_cols=31 Identities=23% Similarity=0.205 Sum_probs=27.8
Q ss_pred CceeEEEEeeCCCCCCccchHHHHHhcCCCCC
Q psy11389 8 NSYLRYLSNPICHCGIKGNEIVDVAARNPTNA 39 (73)
Q Consensus 8 ~~~v~~~Wip~~H~gi~gNE~AD~~Ak~a~~~ 39 (73)
...|.|.||| ||+|++|||.||+|||+|...
T Consensus 113 ~~~v~~~wV~-gH~g~~~Ne~AD~LA~~a~~~ 143 (155)
T 1jl1_A 113 QHQIKWEWVK-GHAGHPENERADELARAAAMN 143 (155)
T ss_dssp TCEEEEEECC-SSTTCHHHHHHHHHHHHHHHS
T ss_pred cCceEEEEcC-CCCCCHHHHHHHHHHHHHHhc
Confidence 4689999999 999999999999999999433
No 5
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=98.85 E-value=5.7e-10 Score=73.13 Aligned_cols=31 Identities=26% Similarity=0.207 Sum_probs=27.8
Q ss_pred CceeEEEEeeCCCCCCccchHHHHHhcCCCCC
Q psy11389 8 NSYLRYLSNPICHCGIKGNEIVDVAARNPTNA 39 (73)
Q Consensus 8 ~~~v~~~Wip~~H~gi~gNE~AD~~Ak~a~~~ 39 (73)
+..|.|.||| ||+|++|||.||+|||+|...
T Consensus 115 ~~~v~~~wV~-gH~g~~~Ne~AD~LAk~a~~~ 145 (158)
T 2e4l_A 115 LHQIDWRWVK-GHAGHAENERCDQLARAAAEA 145 (158)
T ss_dssp TSEEEEEECC-TTCCCHHHHHHHHHHHHHHHS
T ss_pred cCcEEEEEcc-CCCCchhHHHHHHHHHHHHHh
Confidence 4689999999 999999999999999999443
No 6
>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=98.84 E-value=1.7e-10 Score=74.98 Aligned_cols=28 Identities=21% Similarity=0.306 Sum_probs=26.1
Q ss_pred eeEEEEeeCCCCCCccchHHHHHhcCCCC
Q psy11389 10 YLRYLSNPICHCGIKGNEIVDVAARNPTN 38 (73)
Q Consensus 10 ~v~~~Wip~~H~gi~gNE~AD~~Ak~a~~ 38 (73)
.|.|.||| ||+|++|||.||+|||+|..
T Consensus 109 ~v~~~wV~-gH~g~~~Ne~AD~LA~~a~~ 136 (147)
T 2kq2_A 109 IYSFEKVK-AHSGNEFNDYVDMKAKSALG 136 (147)
T ss_dssp TCCBCCCC-CCCCCHHHHHHHHHHHHHHT
T ss_pred CeeEEEec-CcCCCcchHHHHHHHHHHHh
Confidence 79999999 99999999999999999943
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=98.78 E-value=8.3e-10 Score=73.74 Aligned_cols=29 Identities=31% Similarity=0.421 Sum_probs=27.4
Q ss_pred cCceeEEEEeeCCCCC-----CccchHHHHHhcCC
Q psy11389 7 KNSYLRYLSNPICHCG-----IKGNEIVDVAARNP 36 (73)
Q Consensus 7 ~~~~v~~~Wip~~H~g-----i~gNE~AD~~Ak~a 36 (73)
.+..|.|.||| ||+| ++|||.||+|||+|
T Consensus 120 ~~~~v~~~wVk-gH~g~~~~~~~gNe~AD~LA~~a 153 (165)
T 3p1g_A 120 LPKRLSIIHCP-GHQKGNSAEARGNRMADQAAREA 153 (165)
T ss_dssp SBSEEEEEECC-SSCCSCSHHHHHHHHHHHHHHHH
T ss_pred cCCceEEEEec-CCCCCCcCcchHHHHHHHHHHHH
Confidence 56789999999 9999 99999999999988
No 8
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=98.69 E-value=1.5e-09 Score=71.77 Aligned_cols=29 Identities=31% Similarity=0.307 Sum_probs=26.9
Q ss_pred CceeEEEEeeCCCCCCccchHHHHHhcCCC
Q psy11389 8 NSYLRYLSNPICHCGIKGNEIVDVAARNPT 37 (73)
Q Consensus 8 ~~~v~~~Wip~~H~gi~gNE~AD~~Ak~a~ 37 (73)
...|.|.||| ||+|++|||.||+|||+|.
T Consensus 118 ~~~v~~~wV~-gH~g~~~Ne~AD~LAk~a~ 146 (166)
T 1ril_A 118 PHRVRFHFVK-GHTGHPENERVDREARRQA 146 (166)
T ss_dssp TSEEECCCCC-GGGSCTHHHHHHHHHHHHH
T ss_pred cCeEEEEEee-CCCCchhHHHHHHHHHHHH
Confidence 4589999999 9999999999999999993
No 9
>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=98.60 E-value=1.9e-08 Score=76.35 Aligned_cols=29 Identities=31% Similarity=0.338 Sum_probs=26.9
Q ss_pred cCceeEEEEeeCCCCCCccchHHHHHhcCC
Q psy11389 7 KNSYLRYLSNPICHCGIKGNEIVDVAARNP 36 (73)
Q Consensus 7 ~~~~v~~~Wip~~H~gi~gNE~AD~~Ak~a 36 (73)
.+..|.|.||| ||+|++|||.||+|||+|
T Consensus 526 ~~~~v~~~wV~-~H~g~~~Ne~AD~LA~~a 554 (555)
T 1mu2_A 526 KKEAIYVAWVP-AHKGIGGNQEVDHLVSQG 554 (555)
T ss_dssp HCSEEEEEECC-SSSCCTTHHHHHHHHHTT
T ss_pred cCCcEEEEEEE-CCCCChhHHHHHHHHHhh
Confidence 45789999999 999999999999999987
No 10
>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=98.52 E-value=2.1e-08 Score=76.17 Aligned_cols=29 Identities=34% Similarity=0.363 Sum_probs=24.1
Q ss_pred cCceeEEEEeeCCCCCCccchHHHHHhcCC
Q psy11389 7 KNSYLRYLSNPICHCGIKGNEIVDVAARNP 36 (73)
Q Consensus 7 ~~~~v~~~Wip~~H~gi~gNE~AD~~Ak~a 36 (73)
....|.|.||| ||+|++|||.||+|||+|
T Consensus 529 ~~~~v~~~wV~-~H~g~~~Ne~AD~LA~~a 557 (557)
T 2zd1_A 529 KKEKVYLAWVP-AHKGIGGNEQVDKLVSAG 557 (557)
T ss_dssp HCSEEEEEECC-SSSCCTTCCGGGGCC---
T ss_pred cCCCEEEEEcC-CCCCChhHHHHHHHHhcC
Confidence 34579999999 999999999999999976
No 11
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=98.43 E-value=1.8e-08 Score=67.39 Aligned_cols=29 Identities=17% Similarity=0.168 Sum_probs=25.4
Q ss_pred cCceeEEEEeeCCCCCC------ccchHHHHHhcCC
Q psy11389 7 KNSYLRYLSNPICHCGI------KGNEIVDVAARNP 36 (73)
Q Consensus 7 ~~~~v~~~Wip~~H~gi------~gNE~AD~~Ak~a 36 (73)
....|.|.||| ||+|+ +|||.||+||+++
T Consensus 126 ~~~~v~~~~Vk-gH~g~~~~~~~~gNe~AD~LA~~g 160 (165)
T 2lsn_A 126 MKPDITIQHEK-GHQPTNTSIHTEGNALADKLATQG 160 (165)
T ss_dssp HCTTCEEEECC-SSSCSSSCHHHHHHHHHHHHHHHH
T ss_pred CCCCEEEEEEe-CCCCccCCCCChHHHHHHHHHHHh
Confidence 45689999999 99996 5899999999876
No 12
>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=97.49 E-value=1.8e-05 Score=49.18 Aligned_cols=25 Identities=20% Similarity=0.173 Sum_probs=22.1
Q ss_pred cCceeEEEEeeCCCCCCccchHHHHHhcCC
Q psy11389 7 KNSYLRYLSNPICHCGIKGNEIVDVAARNP 36 (73)
Q Consensus 7 ~~~~v~~~Wip~~H~gi~gNE~AD~~Ak~a 36 (73)
....|.|.||| + +|||.||+|||+|
T Consensus 106 ~~~~v~~~~V~-~----~~N~~AD~LA~~a 130 (141)
T 3hst_B 106 QFRRINYEWVP-R----ARNTYADRLANDA 130 (141)
T ss_dssp TSSEEEEEECC-G----GGCHHHHHHHHHH
T ss_pred cCCeEEEEEcC-C----cccHHHHHHHHHH
Confidence 34789999999 4 9999999999877
No 13
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=97.42 E-value=2.5e-05 Score=48.13 Aligned_cols=23 Identities=17% Similarity=0.218 Sum_probs=20.8
Q ss_pred ceeEEEEeeCCCCCCccchHHHHHhcCC
Q psy11389 9 SYLRYLSNPICHCGIKGNEIVDVAARNP 36 (73)
Q Consensus 9 ~~v~~~Wip~~H~gi~gNE~AD~~Ak~a 36 (73)
..|+|.||| -+|||.||+|||+|
T Consensus 112 ~~v~~~~V~-----~~~N~~AD~LA~~a 134 (140)
T 3u3g_D 112 PNLVFVHIP-----REKNARADELVNEA 134 (140)
T ss_dssp TTCEEEECC-----GGGGHHHHHHHHHH
T ss_pred CcEEEEEcC-----chhhHHHHHHHHHH
Confidence 589999999 49999999999876
No 14
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=97.37 E-value=3.8e-05 Score=48.76 Aligned_cols=22 Identities=18% Similarity=0.125 Sum_probs=20.3
Q ss_pred eeEEEEeeCCCCCCccchHHHHHhcCC
Q psy11389 10 YLRYLSNPICHCGIKGNEIVDVAARNP 36 (73)
Q Consensus 10 ~v~~~Wip~~H~gi~gNE~AD~~Ak~a 36 (73)
.|.|.||| + ++||.||+|||.|
T Consensus 110 ~v~~~~V~-~----~~N~~AD~LA~~a 131 (149)
T 2ehg_A 110 NATLIWVP-R----EENKEADRLSRVA 131 (149)
T ss_dssp TCEEEECC-G----GGCHHHHHHHHHH
T ss_pred CEEEEEcC-C----cccHHHHHHHHHH
Confidence 49999999 7 6999999999988
No 15
>1kn6_A Prohormone convertase 1; beta-alpha-beta-BETA-alpha-beta, hydrolase; NMR {Mus musculus} SCOP: d.58.3.3
Probab=30.35 E-value=12 Score=22.44 Aligned_cols=13 Identities=23% Similarity=0.266 Sum_probs=10.9
Q ss_pred ccchHHHHHhcCC
Q psy11389 24 KGNEIVDVAARNP 36 (73)
Q Consensus 24 ~gNE~AD~~Ak~a 36 (73)
.|+|.||++|++.
T Consensus 21 ~g~~~A~~iA~k~ 33 (90)
T 1kn6_A 21 GGQEAASAIAEEL 33 (90)
T ss_dssp STHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHc
Confidence 4779999999876
No 16
>1kcq_A Gelsolin, brevin, ADF, AGEL; alpha-beta structure, actin-binding protein, familial amyloi finnish type, cadmium binding, metal binding; 1.65A {Homo sapiens} SCOP: d.109.1.1
Probab=25.98 E-value=57 Score=19.00 Aligned_cols=31 Identities=10% Similarity=-0.029 Sum_probs=23.6
Q ss_pred eeEeecCceeEEEEeeCCCCCCccchHHHHHhc
Q psy11389 2 VYILDKNSYLRYLSNPICHCGIKGNEIVDVAAR 34 (73)
Q Consensus 2 ~~~~~~~~~v~~~Wip~~H~gi~gNE~AD~~Ak 34 (73)
+||+..+.. .|.|+- ..++..--+.|-.+|+
T Consensus 31 ~FILd~g~~-iyvW~G-~~s~~~Ek~~A~~~a~ 61 (104)
T 1kcq_A 31 CFILDLGNN-IHQWCG-SNSNRYERLKATQVSK 61 (104)
T ss_dssp EEEEECSSE-EEEEEC-TTCCHHHHHHHHHHHH
T ss_pred eEEEeCCCE-EEEEeC-CCCCHHHHHHHHHHHH
Confidence 688988874 688998 7887777777767664
Done!