Query psy2786
Match_columns 198
No_of_seqs 137 out of 965
Neff 8.0
Searched_HMMs 29240
Date Fri Aug 16 16:50:35 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2786.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/2786hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3h08_A RNH (ribonuclease H); R 99.3 3.9E-13 1.3E-17 100.9 0.8 69 3-75 54-142 (146)
2 2qkb_A Ribonuclease H1, HS-RNA 99.2 1.9E-12 6.6E-17 98.0 2.8 72 3-76 60-150 (154)
3 2e4l_A Ribonuclease HI, RNAse 99.2 2.1E-12 7.2E-17 98.4 3.0 71 3-77 56-145 (158)
4 3qio_A GAG-POL polyprotein; RN 99.2 2.8E-12 9.5E-17 97.0 3.5 69 3-77 59-147 (150)
5 1jl1_A Ribonuclease HI; RNAse 99.2 2.5E-12 8.7E-17 97.6 2.8 71 3-77 54-143 (155)
6 3p1g_A Xenotropic murine leuke 99.2 1.1E-11 3.7E-16 95.2 2.7 70 3-77 73-156 (165)
7 2kq2_A Ribonuclease H-related 99.1 8.2E-13 2.8E-17 99.5 -3.6 74 3-78 60-138 (147)
8 1ril_A Ribonuclease H; hydrola 99.1 1.2E-11 4E-16 95.0 1.5 72 3-78 58-149 (166)
9 2zd1_A Reverse transcriptase/r 98.9 2.7E-10 9.2E-15 102.6 3.0 66 3-74 486-557 (557)
10 1mu2_A HIV-2 RT; HIV-2 reverse 98.9 1.1E-09 3.6E-14 98.6 4.9 61 14-75 489-555 (555)
11 2lsn_A Reverse transcriptase; 98.8 8.7E-10 3E-14 84.5 1.8 70 3-75 66-161 (165)
12 3hst_B Protein RV2228C/MT2287; 98.4 1.8E-07 6.2E-12 68.8 3.1 67 3-75 56-131 (141)
13 3u3g_D Ribonuclease H, RNAse H 98.3 2.1E-07 7.1E-12 68.2 2.7 67 3-74 55-134 (140)
14 2ehg_A Ribonuclease HI; RNAse 98.2 4E-07 1.4E-11 67.9 1.1 66 3-76 58-133 (149)
15 3alr_A Nanos protein; zinc-fin 42.3 8.7 0.0003 26.4 1.1 25 160-184 72-98 (106)
16 1zbf_A Ribonuclease H-related 29.9 14 0.00048 26.7 0.5 64 3-69 61-139 (142)
17 2i0f_A 6,7-dimethyl-8-ribityll 27.6 44 0.0015 24.6 2.9 32 40-73 35-66 (157)
18 4htu_A Ribonuclease H, RNAse H 26.5 19 0.00063 25.9 0.7 22 3-26 55-76 (134)
No 1
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=99.29 E-value=3.9e-13 Score=100.91 Aligned_cols=69 Identities=20% Similarity=0.192 Sum_probs=47.3
Q ss_pred hhhhhhcCCCCCCeEEEEecchhhhccCCCC-----------------CCc-hhH-HHHH-HHhCCeEEEEEecCCCCCC
Q psy2786 3 YAVKIASCPANPTYSLLFPDNIDADIYPPNK-----------------PKP-LCL-RVHL-LCYGKQLAFLWCPSHTGIQ 62 (198)
Q Consensus 3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~-----------------~~~-~~~-~~~l-~~~~~~i~l~WvPgH~gI~ 62 (198)
.||+.+.. ...+.|||||+.+ +..++. |.. ... +.+. ......|.|.|||||+|++
T Consensus 54 ~AL~~~~~---~~~v~I~tDS~~v-i~~i~~~w~~~W~~~~w~~~~~~~v~n~~l~~~~~~~~~~~~v~~~~V~gH~g~~ 129 (146)
T 3h08_A 54 KGLEALKE---PARVQLYSDSAYL-VNAMNEGWLKRWVKNGWKTAAKKPVENIDLWQEILKLTTLHRVTFHKVKGHSDNP 129 (146)
T ss_dssp HHHHTCSS---CCEEEEEESCHHH-HHHHHSSHHHHHHHTTCC----CCCTTHHHHHHHHHHHHHSEEEEEECCC-CCSH
T ss_pred HHHHhcCc---cCcEEEEeChHHH-HHHHHHHHHHHHHHCCCccCCCCCcCCHHHHHHHHHHHhhCceEEEEcCCcCCcH
Confidence 57777764 4788999999998 554433 111 111 1111 1124679999999999999
Q ss_pred cchHHHHHHhCCC
Q psy2786 63 GNEAVDRAARNPS 75 (198)
Q Consensus 63 GNE~AD~aAk~a~ 75 (198)
|||.||++||.|.
T Consensus 130 ~N~~AD~LA~~a~ 142 (146)
T 3h08_A 130 YNSRADELARLAI 142 (146)
T ss_dssp HHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHH
Confidence 9999999998764
No 2
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=99.25 E-value=1.9e-12 Score=98.01 Aligned_cols=72 Identities=22% Similarity=0.263 Sum_probs=50.0
Q ss_pred hhhhhhcCCCCCCeEEEEecchhhhccCCCC----------------CCc-hhH-HHHH-HHhCCeEEEEEecCCCCCCc
Q psy2786 3 YAVKIASCPANPTYSLLFPDNIDADIYPPNK----------------PKP-LCL-RVHL-LCYGKQLAFLWCPSHTGIQG 63 (198)
Q Consensus 3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~----------------~~~-~~~-~~~l-~~~~~~i~l~WvPgH~gI~G 63 (198)
.||+.+...+ ...+.|||||+.+ +..++. |.. ..+ +.+. ...+..|.|.|||||+|++|
T Consensus 60 ~aL~~~~~~~-~~~v~i~tDS~~v-i~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~~~~v~~~~V~~H~g~~~ 137 (154)
T 2qkb_A 60 KAIEQAKTQN-INKLVLYTNSMFT-INGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQGMDIQWMHVPGHSGFIG 137 (154)
T ss_dssp HHHHHHHHTT-CCEEEEEESCHHH-HHHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHTTCEEEEEECCTTSSCHH
T ss_pred HHHHHHHhCC-CceEEEEECcHHH-HhhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHcCCceEEEEccCCCCCHh
Confidence 5788887543 4678899999998 543322 111 111 1111 12367899999999999999
Q ss_pred chHHHHHHhCCCC
Q psy2786 64 NEAVDRAARNPSA 76 (198)
Q Consensus 64 NE~AD~aAk~a~~ 76 (198)
||.||++||.+..
T Consensus 138 N~~AD~LA~~a~~ 150 (154)
T 2qkb_A 138 NEEADRLAREGAK 150 (154)
T ss_dssp HHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHH
Confidence 9999999987654
No 3
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=99.25 E-value=2.1e-12 Score=98.36 Aligned_cols=71 Identities=21% Similarity=0.193 Sum_probs=49.7
Q ss_pred hhhhhhcCCCCCCeEEEEecchhhhccCCCC----------------CCch-hH-HHHH-HHhCCeEEEEEecCCCCCCc
Q psy2786 3 YAVKIASCPANPTYSLLFPDNIDADIYPPNK----------------PKPL-CL-RVHL-LCYGKQLAFLWCPSHTGIQG 63 (198)
Q Consensus 3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~----------------~~~~-~~-~~~l-~~~~~~i~l~WvPgH~gI~G 63 (198)
.||+.+..+ ..+.|||||+.+ +..++. |... .+ +.+. ...+..|.|.|||||+|++|
T Consensus 56 ~AL~~~~~~---~~v~I~tDS~~v-i~~i~~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~g~~~ 131 (158)
T 2e4l_A 56 VALEALKEP---CKIILTSDSQYM-RQGIMTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQLHQIDWRWVKGHAGHAE 131 (158)
T ss_dssp HHHHTCSSC---CEEEEEECCHHH-HHHHHTHHHHHHHTTTBCTTSSBCTTHHHHHHHHHHHTTSEEEEEECCTTCCCHH
T ss_pred HHHHHhccC---CeEEEEeCHHHH-HHHHHHHHHHHHHccccccCCCcccCHHHHHHHHHHHccCcEEEEEccCCCCchh
Confidence 577877643 788899999999 554332 2211 11 1111 12357999999999999999
Q ss_pred chHHHHHHhCCCCC
Q psy2786 64 NEAVDRAARNPSAS 77 (198)
Q Consensus 64 NE~AD~aAk~a~~~ 77 (198)
||.||++|+.+...
T Consensus 132 Ne~AD~LAk~a~~~ 145 (158)
T 2e4l_A 132 NERCDQLARAAAEA 145 (158)
T ss_dssp HHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHh
Confidence 99999999877644
No 4
>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=99.24 E-value=2.8e-12 Score=96.99 Aligned_cols=69 Identities=23% Similarity=0.305 Sum_probs=48.3
Q ss_pred hhhhhhcCCCCCCeEEEEecchhhhccCCCC----------------CC-chhH-HHHH--HHhCCeEEEEEecCCCCCC
Q psy2786 3 YAVKIASCPANPTYSLLFPDNIDADIYPPNK----------------PK-PLCL-RVHL--LCYGKQLAFLWCPSHTGIQ 62 (198)
Q Consensus 3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~----------------~~-~~~~-~~~l--~~~~~~i~l~WvPgH~gI~ 62 (198)
.||+.+ ...+.|||||+.+ +..++. |. -... +.++ ......|.|.|||||+|++
T Consensus 59 ~AL~~~-----~~~v~i~tDS~~v-~~~i~~w~~~W~~~gw~~~~g~~v~n~~l~~~l~~~l~~~~~v~~~wV~gH~g~~ 132 (150)
T 3qio_A 59 LALQDS-----GLEVNIVTDSQYA-LGIITQWIHNWKKRGWKTADKKPVKNVDLVNQIIEQLIKKEKVYLAWVPAHKGIG 132 (150)
T ss_dssp HHHHHS-----CSEEEEEESCHHH-HHHHHHHHHHHCC------------CHHHHHHHHHHHTTCSEEEEEECCTTSCCH
T ss_pred HHHHhC-----CCcEEEEeCcHHH-HHHHHHHHHHHhhcCcCcCcCcccccHHHHHHHHHHHhhcCceEEEEccCcCCCh
Confidence 456653 3678899999999 554332 11 1111 2222 2357899999999999999
Q ss_pred cchHHHHHHhCCCCC
Q psy2786 63 GNEAVDRAARNPSAS 77 (198)
Q Consensus 63 GNE~AD~aAk~a~~~ 77 (198)
|||.||++|+.|...
T Consensus 133 ~Ne~AD~LA~~a~~~ 147 (150)
T 3qio_A 133 GNEQVDKLVSAGIRK 147 (150)
T ss_dssp HHHHHHHHHHTTTSC
T ss_pred hHHHHHHHHHHHHHH
Confidence 999999999988654
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=99.23 E-value=2.5e-12 Score=97.59 Aligned_cols=71 Identities=20% Similarity=0.178 Sum_probs=49.9
Q ss_pred hhhhhhcCCCCCCeEEEEecchhhhccCCCC----------------CCc-hhH-HHHH-HHhCCeEEEEEecCCCCCCc
Q psy2786 3 YAVKIASCPANPTYSLLFPDNIDADIYPPNK----------------PKP-LCL-RVHL-LCYGKQLAFLWCPSHTGIQG 63 (198)
Q Consensus 3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~----------------~~~-~~~-~~~l-~~~~~~i~l~WvPgH~gI~G 63 (198)
.||+.+... ..+.|+|||+.+ +..++. |.. ... +.+. ......|.|.|||||+|++|
T Consensus 54 ~aL~~~~~~---~~v~I~tDS~~v-i~~i~~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~g~~~ 129 (155)
T 1jl1_A 54 VALEALKEH---AEVILSTDSQYV-RQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHAGHPE 129 (155)
T ss_dssp HHHHTCCSC---CEEEEEECCHHH-HHHHHTTHHHHHHTTTBCTTSCBCTTHHHHHHHHHHTTTCEEEEEECCSSTTCHH
T ss_pred HHHHHhCcC---CcEEEEeCHHHH-HHHHHHHHHHHhhcccccccCCccCCHHHHHHHHHHHccCceEEEEcCCCCCCHH
Confidence 577777643 678899999999 554432 211 122 1111 12356899999999999999
Q ss_pred chHHHHHHhCCCCC
Q psy2786 64 NEAVDRAARNPSAS 77 (198)
Q Consensus 64 NE~AD~aAk~a~~~ 77 (198)
||.||++|+.+...
T Consensus 130 Ne~AD~LA~~a~~~ 143 (155)
T 1jl1_A 130 NERADELARAAAMN 143 (155)
T ss_dssp HHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHhc
Confidence 99999999877543
No 6
>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=99.15 E-value=1.1e-11 Score=95.19 Aligned_cols=70 Identities=24% Similarity=0.341 Sum_probs=50.2
Q ss_pred hhhhhhcCCCCCCeEEEEecchhhhccCC-----CCCCch-h-HHHHHHH--hCCeEEEEEecCCCC-----CCcchHHH
Q psy2786 3 YAVKIASCPANPTYSLLFPDNIDADIYPP-----NKPKPL-C-LRVHLLC--YGKQLAFLWCPSHTG-----IQGNEAVD 68 (198)
Q Consensus 3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~-----~~~~~~-~-~~~~l~~--~~~~i~l~WvPgH~g-----I~GNE~AD 68 (198)
.||+.+. ...+.|||||+.+ +..+ ..|... . .+.++.. .+..|.|.|||||+| ++|||+||
T Consensus 73 ~AL~~~~----~~~v~I~tDS~~v-i~~iw~~~~g~~v~n~dl~~~l~~~l~~~~~v~~~wVkgH~g~~~~~~~gNe~AD 147 (165)
T 3p1g_A 73 QALKMAE----GKKLNVYTDSRYA-FATAHVHSEGREIKNKNEILALLKALFLPKRLSIIHCPGHQKGNSAEARGNRMAD 147 (165)
T ss_dssp HHHHHTB----TSEEEEEECCHHH-HHHHHSCCCSCCCSSHHHHHHHHHHTTSBSEEEEEECCSSCCSCSHHHHHHHHHH
T ss_pred HHHHHcc----CceEEEEEchHHH-HhhhhcccCCCcccCHHHHHHHHHHHhcCCceEEEEecCCCCCCcCcchHHHHHH
Confidence 5778772 5788999999988 4332 233222 2 2333232 568999999999999 99999999
Q ss_pred HHHhCCCCC
Q psy2786 69 RAARNPSAS 77 (198)
Q Consensus 69 ~aAk~a~~~ 77 (198)
++|+.+...
T Consensus 148 ~LA~~aa~~ 156 (165)
T 3p1g_A 148 QAAREAAMK 156 (165)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHhc
Confidence 999877643
No 7
>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=99.15 E-value=8.2e-13 Score=99.52 Aligned_cols=74 Identities=22% Similarity=0.145 Sum_probs=48.8
Q ss_pred hhhhhhcCCCCCCeEEEEecchhhhccCCCCCCchh-----HHHHHHHhCCeEEEEEecCCCCCCcchHHHHHHhCCCCC
Q psy2786 3 YAVKIASCPANPTYSLLFPDNIDADIYPPNKPKPLC-----LRVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPSAS 77 (198)
Q Consensus 3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~~~~~~-----~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~aAk~a~~~ 77 (198)
.||+.|...+. .+.|||||+++..+..+.-.... .+..++.....|.|.|||||+|++|||+||++||.|...
T Consensus 60 ~AL~~a~~~~~--~v~I~tDS~~i~~w~~~~w~~~~~~~~~~~~l~~~l~~~v~~~wV~gH~g~~~Ne~AD~LA~~a~~~ 137 (147)
T 2kq2_A 60 YAVKKASQLGV--KIRILHDYAGIAFWATGEWKAKNEFTQAYAKLMNQYRGIYSFEKVKAHSGNEFNDYVDMKAKSALGI 137 (147)
T ss_dssp HHHHHHHHHTC--CCCBSSCCSTHHHHTTSSSSCCHHHHHHHHCGGGGGSTTCCBCCCCCCCCCHHHHHHHHHHHHHHTC
T ss_pred HHHHHHHHCCC--eEEEEECcHHHHHHHhCCCccCCcchHHHHHHHHHhcCCeeEEEecCcCCCcchHHHHHHHHHHHhc
Confidence 57776654443 67789999987333333221111 111222222389999999999999999999999987655
Q ss_pred C
Q psy2786 78 L 78 (198)
Q Consensus 78 ~ 78 (198)
.
T Consensus 138 ~ 138 (147)
T 2kq2_A 138 R 138 (147)
T ss_dssp C
T ss_pred c
Confidence 4
No 8
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=99.11 E-value=1.2e-11 Score=94.98 Aligned_cols=72 Identities=26% Similarity=0.241 Sum_probs=49.5
Q ss_pred hhhhhhcCCCCCCeEEEEecchhhhccCCCC-----------------CCch-hH-HHHH-HHhCCeEEEEEecCCCCCC
Q psy2786 3 YAVKIASCPANPTYSLLFPDNIDADIYPPNK-----------------PKPL-CL-RVHL-LCYGKQLAFLWCPSHTGIQ 62 (198)
Q Consensus 3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~-----------------~~~~-~~-~~~l-~~~~~~i~l~WvPgH~gI~ 62 (198)
.||+.+... ..+.|||||+.+ +..++. |... .+ +.+. ......|.|.|||||+|++
T Consensus 58 ~AL~~~~~~---~~v~I~tDS~~v-i~~i~~~w~~~W~~~~w~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~g~~ 133 (166)
T 1ril_A 58 EGLKALKEP---CEVDLYTDSHYL-KKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFVKGHTGHP 133 (166)
T ss_dssp HHHHSCCSC---CEEEEECCCHHH-HHHHHSSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHHTTSEEECCCCCGGGSCT
T ss_pred HHHHHhccC---CeEEEEeChHHH-HHHHhhhHHHHHHhcccccccCCccCcHHHHHHHHHHHhcCeEEEEEeeCCCCch
Confidence 577777643 478899999998 544333 1111 11 1111 1234699999999999999
Q ss_pred cchHHHHHHhCCCCCC
Q psy2786 63 GNEAVDRAARNPSASL 78 (198)
Q Consensus 63 GNE~AD~aAk~a~~~~ 78 (198)
|||.||++||.+....
T Consensus 134 ~Ne~AD~LAk~a~~~~ 149 (166)
T 1ril_A 134 ENERVDREARRQAQSQ 149 (166)
T ss_dssp HHHHHHHHHHHHHTSS
T ss_pred hHHHHHHHHHHHHHHh
Confidence 9999999998776543
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=98.94 E-value=2.7e-10 Score=102.56 Aligned_cols=66 Identities=23% Similarity=0.248 Sum_probs=45.8
Q ss_pred hhhhhhcCCCCCCeEEEEecchhhhccCCCCCCch---hH-HHH--HHHhCCeEEEEEecCCCCCCcchHHHHHHhCC
Q psy2786 3 YAVKIASCPANPTYSLLFPDNIDADIYPPNKPKPL---CL-RVH--LLCYGKQLAFLWCPSHTGIQGNEAVDRAARNP 74 (198)
Q Consensus 3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~~~~~---~~-~~~--l~~~~~~i~l~WvPgH~gI~GNE~AD~aAk~a 74 (198)
.||+.+ ...+.|+||||.+ +..++..... .. +.. .......|.|.|||||+|++|||.||++|++|
T Consensus 486 ~aL~~~-----~~~v~I~tDS~~v-i~~i~~~~~~~~~~l~~~~~~~l~~~~~v~~~wV~~H~g~~~Ne~AD~LA~~a 557 (557)
T 2zd1_A 486 LALQDS-----GLEVNIVTDSQYA-LGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAG 557 (557)
T ss_dssp HHHHHS-----CSEEEEEECCHHH-HHHHTTCCSEESSHHHHHHHHHHHHCSEEEEEECCSSSCCTTCCGGGGCC---
T ss_pred HHHHhC-----CCcEEEEeChHHH-HHHHhcCCccCCHHHHHHHHHHHhcCCCEEEEEcCCCCCChhHHHHHHHHhcC
Confidence 577777 3678899999999 6665443211 11 111 12235689999999999999999999999875
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=98.88 E-value=1.1e-09 Score=98.65 Aligned_cols=61 Identities=16% Similarity=0.188 Sum_probs=44.3
Q ss_pred CCeEEEEecchhhhccCCCCCC---chhH-HHH--HHHhCCeEEEEEecCCCCCCcchHHHHHHhCCC
Q psy2786 14 PTYSLLFPDNIDADIYPPNKPK---PLCL-RVH--LLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPS 75 (198)
Q Consensus 14 ~~~~~i~sDn~aa~i~~~~~~~---~~~~-~~~--l~~~~~~i~l~WvPgH~gI~GNE~AD~aAk~a~ 75 (198)
...+.|+|||+-+ +..++.-. .... +.. +...+..|.|.|||||+|++|||.||++|+.|.
T Consensus 489 ~~~v~I~tDS~~v-~~~i~~~~~~~~~~l~~~~~~~~~~~~~v~~~wV~~H~g~~~Ne~AD~LA~~a~ 555 (555)
T 1mu2_A 489 GPKVNIIVDSQYV-MGIVASQPTESESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQGI 555 (555)
T ss_dssp CSEEEEEESCHHH-HHHHHTCCSEESCHHHHHHHHHHHHCSEEEEEECCSSSCCTTHHHHHHHHHTTC
T ss_pred CCeEEEEEehHHH-HHHHhcccccccHHHHHHHHHHhccCCcEEEEEEECCCCChhHHHHHHHHHhhC
Confidence 4688899999999 55544321 1111 111 223468899999999999999999999999873
No 11
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=98.82 E-value=8.7e-10 Score=84.51 Aligned_cols=70 Identities=20% Similarity=0.196 Sum_probs=45.5
Q ss_pred hhhhhhcCCCCCCeEEEEecchhhhccCC----------------CCCCc-hhH-HHH--HHHhCCeEEEEEecCCCCC-
Q psy2786 3 YAVKIASCPANPTYSLLFPDNIDADIYPP----------------NKPKP-LCL-RVH--LLCYGKQLAFLWCPSHTGI- 61 (198)
Q Consensus 3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~----------------~~~~~-~~~-~~~--l~~~~~~i~l~WvPgH~gI- 61 (198)
+|++.|...+ ..+.|+|||+=+ +..+ ..|-. ..+ +.+ +......|.|.|||||+|+
T Consensus 66 ~al~~al~~~--~~v~I~TDS~Yv-i~~it~w~~~Wk~ngw~~~~~~pVkN~dL~~~l~~~~~~~~~v~~~~VkgH~g~~ 142 (165)
T 2lsn_A 66 FACKKALKIP--GPVLVITDSFYV-AESANKELPYWKSNGFVNNKKKPLKHISKWKSIAECLSMKPDITIQHEKGHQPTN 142 (165)
T ss_dssp HHHHHHHHSS--SCEEEEESCHHH-HHHHHTHHHHHHHTTSCSCSSSCCSSHHHHHHHHHHHHHCTTCEEEECCSSSCSS
T ss_pred HHHHHHhcCC--CeEEEEeChHHH-HhhhhhhhhhheeccccccCCCcccCHHHHHHHHHHHhCCCCEEEEEEeCCCCcc
Confidence 4455554332 458899999988 4432 22322 222 211 2234568999999999996
Q ss_pred -----CcchHHHHHHhCCC
Q psy2786 62 -----QGNEAVDRAARNPS 75 (198)
Q Consensus 62 -----~GNE~AD~aAk~a~ 75 (198)
+|||+||++|++++
T Consensus 143 ~~~~~~gNe~AD~LA~~gA 161 (165)
T 2lsn_A 143 TSIHTEGNALADKLATQGS 161 (165)
T ss_dssp SCHHHHHHHHHHHHHHHHH
T ss_pred CCCCChHHHHHHHHHHHhh
Confidence 48999999998764
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=98.36 E-value=1.8e-07 Score=68.79 Aligned_cols=67 Identities=18% Similarity=0.132 Sum_probs=46.4
Q ss_pred hhhhhhcCCCCCCeEEEEecchhhhccCCCCC---CchhHHH------HHHHhCCeEEEEEecCCCCCCcchHHHHHHhC
Q psy2786 3 YAVKIASCPANPTYSLLFPDNIDADIYPPNKP---KPLCLRV------HLLCYGKQLAFLWCPSHTGIQGNEAVDRAARN 73 (198)
Q Consensus 3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~~---~~~~~~~------~l~~~~~~i~l~WvPgH~gI~GNE~AD~aAk~ 73 (198)
.||+.|...+ .+.+.|+|||+.+ +..++.. ....... .+......|.|.|||+ +|||.||++||.
T Consensus 56 ~aL~~a~~~~-~~~v~i~tDS~~v-v~~i~~~~~~~~~~l~~~~~~i~~l~~~~~~v~~~~V~~----~~N~~AD~LA~~ 129 (141)
T 3hst_B 56 AGLDDAVKLG-ATEAAVLMDSKLV-VEQMSGRWKVKHPDLLKLYVQAQALASQFRRINYEWVPR----ARNTYADRLAND 129 (141)
T ss_dssp HHHHHHHHHT-CSEEEEEESCHHH-HHHHTTSSCCCSHHHHHHHHHHHHHHTTSSEEEEEECCG----GGCHHHHHHHHH
T ss_pred HHHHHHHHCC-CceEEEEeChHHH-HHHHhCCcccCCHHHHHHHHHHHHHHhcCCeEEEEEcCC----cccHHHHHHHHH
Confidence 5777777533 3678899999999 6655442 2222221 1223457999999996 899999999986
Q ss_pred CC
Q psy2786 74 PS 75 (198)
Q Consensus 74 a~ 75 (198)
|.
T Consensus 130 a~ 131 (141)
T 3hst_B 130 AM 131 (141)
T ss_dssp HH
T ss_pred HH
Confidence 53
No 13
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=98.32 E-value=2.1e-07 Score=68.17 Aligned_cols=67 Identities=15% Similarity=0.082 Sum_probs=44.4
Q ss_pred hhhhhhcCCCC---CCeEEEEecchhhhccCCCCC---CchhHH----H--HH-HHhCCeEEEEEecCCCCCCcchHHHH
Q psy2786 3 YAVKIASCPAN---PTYSLLFPDNIDADIYPPNKP---KPLCLR----V--HL-LCYGKQLAFLWCPSHTGIQGNEAVDR 69 (198)
Q Consensus 3 ~a~~~~~~~~~---~~~~~i~sDn~aa~i~~~~~~---~~~~~~----~--~l-~~~~~~i~l~WvPgH~gI~GNE~AD~ 69 (198)
.||+.|...+. ...+.|+|||+.+ +..++.. ...... . .+ ......|.|.|||+ +|||.||+
T Consensus 55 ~aL~~a~~~~~~~~~~~v~i~tDS~~v-i~~i~~~~~~~~~~l~~~~~~i~~l~~~~~~~v~~~~V~~----~~N~~AD~ 129 (140)
T 3u3g_D 55 RALEDLQMFGDKLVDMEVEVRMDSELI-VRQMQGVYKVKEPTLKEKFAKIAHIKMERVPNLVFVHIPR----EKNARADE 129 (140)
T ss_dssp HHHHHHGGGGGGGTTCEEEEEESCHHH-HHHHTTSSCCCCGGGHHHHHHHHHHHHHHCTTCEEEECCG----GGGHHHHH
T ss_pred HHHHHHHHcCCCCCCceEEEEeChHHH-HHHhCCCcccCCHHHHHHHHHHHHHhhcCCCcEEEEEcCc----hhhHHHHH
Confidence 57777765332 2278899999999 6655432 111111 1 12 23335899999995 89999999
Q ss_pred HHhCC
Q psy2786 70 AARNP 74 (198)
Q Consensus 70 aAk~a 74 (198)
+||.|
T Consensus 130 LA~~a 134 (140)
T 3u3g_D 130 LVNEA 134 (140)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 99865
No 14
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=98.16 E-value=4e-07 Score=67.89 Aligned_cols=66 Identities=15% Similarity=0.135 Sum_probs=44.0
Q ss_pred hhhhhhcCCCCCCeEEEEecchhhhccCCCCC------CchhH----HHHHHHhCCeEEEEEecCCCCCCcchHHHHHHh
Q psy2786 3 YAVKIASCPANPTYSLLFPDNIDADIYPPNKP------KPLCL----RVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAAR 72 (198)
Q Consensus 3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~~------~~~~~----~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~aAk 72 (198)
.||+.|...+ .+.+.|+|||+.+ +..++.. .-... ...+... .|.|.|||+ ++||.||++|+
T Consensus 58 ~aL~~a~~~g-~~~v~i~tDS~~v-i~~i~~~w~~~~~~~~~l~~~i~~l~~~~--~v~~~~V~~----~~N~~AD~LA~ 129 (149)
T 2ehg_A 58 CLMETMLRLG-ISSPIIKGDSQLV-IKQMNGEYKVKAKRIIPLYEKAIELKKKL--NATLIWVPR----EENKEADRLSR 129 (149)
T ss_dssp HHHHHHHHHT-CCSCEEEESCHHH-HHHHTTSSCCCCTTHHHHHHHHHHHHHHH--TCEEEECCG----GGCHHHHHHHH
T ss_pred HHHHHHHHcC-CCEEEEEeChHHH-HHHHhCccccCCHHHHHHHHHHHHHHhcC--CEEEEEcCC----cccHHHHHHHH
Confidence 4777776543 3567789999999 6554332 11111 1223333 599999999 59999999998
Q ss_pred CCCC
Q psy2786 73 NPSA 76 (198)
Q Consensus 73 ~a~~ 76 (198)
.|..
T Consensus 130 ~a~~ 133 (149)
T 2ehg_A 130 VAYE 133 (149)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 7653
No 15
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=42.27 E-value=8.7 Score=26.36 Aligned_cols=25 Identities=24% Similarity=0.468 Sum_probs=21.4
Q ss_pred CCc-ccCCCCCcceeee-ccccHHhhh
Q psy2786 160 STC-RCGETLSVQHILT-CTLHGHIRA 184 (198)
Q Consensus 160 p~C-~Cg~~~t~~Hil~-Cp~~~~~R~ 184 (198)
-.| .||+..+-.|.+- ||+......
T Consensus 72 Y~CpiCGATGd~AHT~kYCP~~~~~~~ 98 (106)
T 3alr_A 72 YKCPLCGATGAKAHTKRFCPMVDKNYC 98 (106)
T ss_dssp CCCTTTCCCGGGCCCGGGCTTCGGGGC
T ss_pred ccCCCCCCcCCcccceecCCCCCCccC
Confidence 579 9999999999999 998876544
No 16
>1zbf_A Ribonuclease H-related protein; RNAse H, RNA/DNA hybrid, DDE motif, hydrolase; 1.50A {Bacillus halodurans} SCOP: c.55.3.1 PDB: 1zbi_A 2g8u_A 2g8i_A 2g8h_A 2g8k_A 2g8f_A 2g8v_A 2g8w_A 3ey1_A* 1zbl_A 3d0p_A* 3i8d_A* 2r7y_A*
Probab=29.85 E-value=14 Score=26.65 Aligned_cols=64 Identities=8% Similarity=-0.055 Sum_probs=36.2
Q ss_pred hhhhhhcCCCCCCeEEEEecchhhhccCC---------CCCC-chhHHHHH-----HHhCCeEEEEEecCCCCCCcchHH
Q psy2786 3 YAVKIASCPANPTYSLLFPDNIDADIYPP---------NKPK-PLCLRVHL-----LCYGKQLAFLWCPSHTGIQGNEAV 67 (198)
Q Consensus 3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~---------~~~~-~~~~~~~l-----~~~~~~i~l~WvPgH~gI~GNE~A 67 (198)
.||+.+..... .+.|+|||+=+ |.-+ ..|. ...+-..+ ...+..+....+.-|++.-||.-|
T Consensus 61 ~aL~~~~~~~~--~v~i~tDS~~v-i~w~~~~~~k~~~~~~v~n~dLw~~l~~~~~w~~~~~~~~~~~kw~~~~~ge~pa 137 (142)
T 1zbf_A 61 HGLRYLKERNS--RKPIYSNSQTA-IKWVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKA 137 (142)
T ss_dssp HHHHHHHHTTC--CCCEEESCHHH-HHHHHHTCCCCCCCCSTTTHHHHHHHHHHHHHHHHCCCCCCEEECCHHHHCSCTT
T ss_pred HHHHHHHhCCC--eEEEEEehHHH-HHHHHcCCccCCCCCCcccHHHHHHHHHHHHHHhhCCCceeEEEeccCccCcCcc
Confidence 57888876543 67789999998 4321 1111 11111111 112345566667777777788888
Q ss_pred HH
Q psy2786 68 DR 69 (198)
Q Consensus 68 D~ 69 (198)
|.
T Consensus 138 d~ 139 (142)
T 1zbf_A 138 DY 139 (142)
T ss_dssp CC
T ss_pred cc
Confidence 73
No 17
>2i0f_A 6,7-dimethyl-8-ribityllumazine synthase 1; lumazine synthase RIBH1, transferase; 2.22A {Brucella abortus} PDB: 2f59_A 2o6h_A*
Probab=27.55 E-value=44 Score=24.57 Aligned_cols=32 Identities=16% Similarity=0.135 Sum_probs=23.8
Q ss_pred HHHHHHhCCeEEEEEecCCCCCCcchHHHHHHhC
Q psy2786 40 RVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARN 73 (198)
Q Consensus 40 ~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~aAk~ 73 (198)
...|...|..|.+.||||=-.||- .|.++|+.
T Consensus 35 ~~~l~~~G~~i~v~~VPGafEiP~--aa~~la~~ 66 (157)
T 2i0f_A 35 KAALDEAGATYDVVTVPGALEIPA--TISFALDG 66 (157)
T ss_dssp HHHHHHTTCEEEEEEESSGGGHHH--HHHHHHHH
T ss_pred HHHHHHcCCCeEEEECCcHHHHHH--HHHHHHhh
Confidence 346677888999999999887764 45666653
No 18
>4htu_A Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, W-C base PAIR, wobble base PAIR, D helix; HET: DNA UCL; 1.49A {Bacillus halodurans} PDB: 3d0p_A* 4hue_A* 4huf_A* 4hug_A* 1zbf_A 1zbi_A 2g8u_A 3uld_A* 3ey1_A* 3twh_A* 2g8f_A 2g8v_A 2g8w_A 2g8i_A 2g8h_A 2g8k_A 3i8d_A* 2r7y_A* 1zbl_A
Probab=26.51 E-value=19 Score=25.88 Aligned_cols=22 Identities=5% Similarity=0.111 Sum_probs=16.1
Q ss_pred hhhhhhcCCCCCCeEEEEecchhh
Q psy2786 3 YAVKIASCPANPTYSLLFPDNIDA 26 (198)
Q Consensus 3 ~a~~~~~~~~~~~~~~i~sDn~aa 26 (198)
.||+.+..... + +.|+||||=+
T Consensus 55 ~aL~~l~~~~~-~-v~i~tDSqyV 76 (134)
T 4htu_A 55 HGLRYLKERNS-R-KPIYSNSQTA 76 (134)
T ss_dssp HHHHHHHHTTC-C-CCEEESCHHH
T ss_pred HHHHHHHhCCC-C-EEEEcchHHH
Confidence 57787775432 3 5789999999
Done!