Query gi|254780796|ref|YP_003065209.1| ribonuclease H [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 152
No_of_seqs 114 out of 2571
Neff 7.1
Searched_HMMs 33803
Date Wed Jun 1 13:36:21 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780796.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 >1jl1_A Ribonuclease HI; RNAse 100.0 1E-36 3E-41 226.3 12.0 142 6-147 2-143 (155)
2 >3hyf_A Reverse transcriptase/ 100.0 1.2E-36 3.6E-41 225.9 9.9 139 4-147 8-147 (150)
3 >2e4l_A Ribonuclease HI, RNAse 100.0 1.4E-35 4.2E-40 219.9 12.2 143 5-147 3-145 (158)
4 >2qkb_A Ribonuclease H1, HS-RN 100.0 9.3E-36 2.8E-40 220.9 9.6 147 3-149 2-153 (154)
5 >3h08_A RNH (ribonuclease H); 100.0 2.4E-35 7.2E-40 218.5 11.4 141 6-147 2-144 (146)
6 >1ril_A Ribonuclease H; hydrol 100.0 1.3E-34 3.7E-39 214.5 7.9 148 1-148 1-149 (166)
7 >1zbf_A Ribonuclease H-related 100.0 2.3E-33 6.7E-38 207.5 -1.5 136 3-142 6-142 (142)
8 >2hb5_A Reverse transcriptase/ 100.0 7.9E-31 2.3E-35 193.2 9.9 133 4-148 18-156 (164)
9 >2zd1_A Reverse transcriptase/ 100.0 1.3E-31 3.7E-36 197.7 3.5 123 4-144 6-128 (128)
10 >1mu2_A HIV-2 RT; HIV-2 revers 100.0 6E-30 1.8E-34 188.2 7.5 124 4-145 6-129 (129)
11 >2ehg_A Ribonuclease HI; RNAse 99.9 7.3E-22 2.2E-26 142.8 7.6 128 9-151 2-138 (149)
12 >1rw3_A POL polyprotein; RNA a 71.3 0.68 2E-05 25.0 -0.8 66 8-79 44-121 (153)
No 1
>>1jl1_A Ribonuclease HI; RNAse HI, protein stability, thermostability, hydrogen exchange, cooperativity, hydrolase; 1.30A {Escherichia coli} (A:)
Probab=100.00 E-value=1e-36 Score=226.31 Aligned_cols=142 Identities=56% Similarity=1.002 Sum_probs=135.9
Q ss_pred CCEEEEEECCCCCCCCCCCEEEEEEECCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHCCCCCCCH
Q ss_conf 88899996647579998218999996188127860222766302789999998641134540378840645503256522
Q gi|254780796|r 6 LREVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPCKVLLYTDSSYVHKGFSQW 85 (152)
Q Consensus 6 ~~~i~IytDGS~~~n~~~aG~g~v~~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~~~~~~i~I~tDS~yvv~~i~~~ 85 (152)
|..++|||||||++||+++|+|+++..++...........+|||+|||.|++.||+++.....++|+|||+|++++++.|
T Consensus 2 ~~~~~iy~DGS~~~~~~~~G~g~~~~~~~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~~~~~~~i~i~tDS~~vi~~~~~~ 81 (155)
T 1jl1_A 2 LKQVEIFTAGSALGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKEHAEVILSTDSQYVRQGITQW 81 (155)
T ss_dssp -CCEEEEEEEEESSTTEEEEEEEEEEETTEEEEEEEEEEEECHHHHHHHHHHHHHHTCCSCCEEEEEECCHHHHHHHHTT
T ss_pred CCEEEEEECCCCCCCCCCEEEEEEEEECCEEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEECHHHHHHCCCHH
T ss_conf 96599996247889998579999999699579997145887639999997777898530465358970338765054007
Q ss_pred HHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 56776543200355642110002345410222105589801788884558999999999998
Q gi|254780796|r 86 IKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWIKGHAGNQENEKVDRIARNAAVS 147 (152)
Q Consensus 86 ~~~W~~n~wk~~~~~~v~N~dl~~~l~~l~~~~~v~~~~V~gH~g~~~N~~AD~lA~~aa~~ 147 (152)
...|..++|+++.++++.+.++++.+..+....++.|.||++|+++++|+.||+|||+|+..
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~H~~~~~N~~AD~LAk~a~~~ 143 (155)
T 1jl1_A 82 IHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHAGHPENERADELARAAAMN 143 (155)
T ss_dssp HHHHHHTTTBCTTSCBCTTHHHHHHHHHHTTTCEEEEEECCSSTTCHHHHHHHHHHHHHHHS
T ss_pred HHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHC
T ss_conf 68888767840144522139999998754014516999826869981379999999999728
No 2
>>3hyf_A Reverse transcriptase/rnaseh; HIV-1, hydrolase, DI-valent metal nucleic acid cleavage mechanism, DI-valent metal coordination; HET: ON1; 1.70A {Human immunodeficiency virus 1} PDB: 1o1w_A 1hrh_A 1rdh_A (A:)
Probab=100.00 E-value=1.2e-36 Score=225.88 Aligned_cols=139 Identities=33% Similarity=0.501 Sum_probs=121.4
Q ss_pred CCCCEEEEEECCCCCCCCCCCEEEEEEECCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHCCCCCC
Q ss_conf 77888999966475799982189999961881278602227663027899999986411345403788406455032565
Q gi|254780796|r 4 KHLREVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPCKVLLYTDSSYVHKGFS 83 (152)
Q Consensus 4 ~~~~~i~IytDGS~~~n~~~aG~g~v~~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~~~~~~i~I~tDS~yvv~~i~ 83 (152)
..+..++|||||||.+|++++|+|+++........ .....+|+.+|+.|++.||+..... +.|+|||+|++++++
T Consensus 8 p~~~~~~iyTDGS~~~~~~~~g~g~~~~~~~~~~~---~~~~~~~~~ae~~A~~~A~~~~~~~--~~i~tds~~~~~~~~ 82 (150)
T 3hyf_A 8 PIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVV---TLTDTTNQKTELQAIYLALQDSGLE--VNIVTDSQYALGIIT 82 (150)
T ss_dssp CCTTSEEEEEEEEECTTTCCEEEEEEETTSCEEEE---EESSCCHHHHHHHHHHHHHHHSCSE--EEEEECCHHHHHHHH
T ss_pred CCCCCCEEEECCCCCCCCCCEEEEEEEEECCEEEE---ECCCCCCHHHHHHHHHHHHCCCCCE--EEEEECCCCCCCCCC
T ss_conf 88999789985897899988889999950686886---2256566899999999764127850--599943620034553
Q ss_pred CHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHCC-CCCEEEEEECCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 225677654320035564211000234541022-2105589801788884558999999999998
Q gi|254780796|r 84 QWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASA-QHKVDLYWIKGHAGNQENEKVDRIARNAAVS 147 (152)
Q Consensus 84 ~~~~~W~~n~wk~~~~~~v~N~dl~~~l~~l~~-~~~v~~~~V~gH~g~~~N~~AD~lA~~aa~~ 147 (152)
.|+.+|..|+|+++.+++++|.++|+++..++. ..+|+|.|||||+|++|||.||+|||+|+..
T Consensus 83 ~~~~~w~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~v~~~wV~gH~g~~gNe~AD~lAk~aa~~ 147 (150)
T 3hyf_A 83 QWIHNWKKRGWKTADKKPVKNVDLVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIRK 147 (150)
T ss_dssp HHHHHHHHTCC------CCTTHHHHHHHHHHHTTSSEEEEEECCTTSCCHHHHHHHHHHHTTTCS
T ss_pred CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEECCCCCCCHHHHHHHHHHHHHHHH
T ss_conf 22222110012345677530289999999987432376458886679980079999999999887
No 3
>>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis mr-1} PDB: 2zqb_A (A:)
Probab=100.00 E-value=1.4e-35 Score=219.88 Aligned_cols=143 Identities=51% Similarity=1.002 Sum_probs=134.3
Q ss_pred CCCEEEEEECCCCCCCCCCCEEEEEEECCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHCCCCCCC
Q ss_conf 78889999664757999821899999618812786022276630278999999864113454037884064550325652
Q gi|254780796|r 5 HLREVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPCKVLLYTDSSYVHKGFSQ 84 (152)
Q Consensus 5 ~~~~i~IytDGS~~~n~~~aG~g~v~~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~~~~~~i~I~tDS~yvv~~i~~ 84 (152)
.+..++|||||||++||+++|||+|+..++......+....+|||+||+.|++.||+.+.....+.|++||+|++++++.
T Consensus 3 ~~~~~~iytDGS~~~~~~~~G~g~v~~~~~~~~~~~~~~~~~tn~~aE~~A~~~al~~a~~~~~~~~~~ds~~~i~~~~~ 82 (158)
T 2e4l_A 3 ELKLIHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGFSLTTNNRMELLAPIVALEALKEPCKIILTSDSQYMRQGIMT 82 (158)
T ss_dssp -CCEEEEEEEEEESSSSEEEEEEEEEEETTEEEEEEEEEEEECHHHHHHHHHHHHHHTCSSCCEEEEEECCHHHHHHHHT
T ss_pred CCCEEEEEEEECCCCCCCCEEEEEEEEECCEEEEEEEECCCCCHHHHHHHHHHHHHHHCCCCCEEEEEECCEEEEEECCC
T ss_conf 78779999700789999947999999979926898620055516677777799999865678729999423014760333
Q ss_pred HHHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 256776543200355642110002345410222105589801788884558999999999998
Q gi|254780796|r 85 WIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWIKGHAGNQENEKVDRIARNAAVS 147 (152)
Q Consensus 85 ~~~~W~~n~wk~~~~~~v~N~dl~~~l~~l~~~~~v~~~~V~gH~g~~~N~~AD~lA~~aa~~ 147 (152)
|+..|..++|++..+.++.+.++++.+..+.+..+|.|.|||||+|++||++||+|||+|+..
T Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~wv~gH~g~~gNe~AD~LAk~a~~~ 145 (158)
T 2e4l_A 83 WIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQLHQIDWRWVKGHAGHAENERCDQLARAAAEA 145 (158)
T ss_dssp HHHHHHHTTTBCTTSSBCTTHHHHHHHHHHHTTSEEEEEECCTTCCCHHHHHHHHHHHHHHHS
T ss_pred CCCHHHHCCHHHCCCCCCCCHHHHHHHHHHCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHC
T ss_conf 231000032112034530018899887763446468999746648964289999999999866
No 4
>>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A* (A:)
Probab=100.00 E-value=9.3e-36 Score=220.89 Aligned_cols=147 Identities=32% Similarity=0.474 Sum_probs=130.0
Q ss_pred CCCCCEEEEEECCCCCCCCCCCEEEEEEECCCCEE---EEECCCCCCCHHHHHHHHHHHHHHCCCC--CCEEEEECCHHH
Q ss_conf 77788899996647579998218999996188127---8602227663027899999986411345--403788406455
Q gi|254780796|r 3 SKHLREVHAYTDGACSGNPGPGGWGVLLRYKGKEK---IISGGEKETTNNRMELMAAIKALTALKY--PCKVLLYTDSSY 77 (152)
Q Consensus 3 ~~~~~~i~IytDGS~~~n~~~aG~g~v~~~~~~~~---~~~~~~~~~Tnn~aEl~Ai~~AL~~~~~--~~~i~I~tDS~y 77 (152)
+..|..++|||||||.+|++++|+|+++...+... ...+....+|||.|||.|++.||+.+.. ..+|.|+|||+|
T Consensus 2 ~~~~~~~~i~tDGs~~~~~~~~g~g~~~~~~~~~~~~~~~~~~~~~~tn~~aEl~Ai~~aL~~a~~~~~~~v~i~tDS~~ 81 (154)
T 2qkb_A 2 SHXGDFVVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQAKTQNINKLVLYTNSXF 81 (154)
T ss_dssp CEETTEEEEEEEEEEETTTSSSCEEEEEEECSTTCTTCEEEECCSSCCHHHHHHHHHHHHHHHHHHTTCCEEEEEESCHH
T ss_pred CCCCCEEEEEECCCCCCCCCCCCEEEEEEEECCCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEECCCEE
T ss_conf 98898799998688789989997079999956987787610456765346899999999998765227653234324022
Q ss_pred CCCCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 032565225677654320035564211000234541022210558980178888455899999999999887
Q gi|254780796|r 78 VHKGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWIKGHAGNQENEKVDRIARNAAVSFK 149 (152)
Q Consensus 78 vv~~i~~~~~~W~~n~wk~~~~~~v~N~dl~~~l~~l~~~~~v~~~~V~gH~g~~~N~~AD~lA~~aa~~~k 149 (152)
|+++++.|...|+.++|++..++++.+.++++.+..+.....|+|.|||||+++++|+.||.|||+|+...+
T Consensus 82 v~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~V~~H~~~~~N~~AD~lAk~a~~~~~ 153 (154)
T 2qkb_A 82 TINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQGXDIQWXHVPGHSGFIGNEEADRLAREGAKQSE 153 (154)
T ss_dssp HHHHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHTTCEEEEEECCTTSSCHHHHHHHHHHHHHHTCC-
T ss_pred EEHHHCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCCCCHHHHHHHHHHHHHCCC
T ss_conf 320000015788761312234453016899999886643035444881687998225999999999986126
No 5
>>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum} (A:)
Probab=100.00 E-value=2.4e-35 Score=218.54 Aligned_cols=141 Identities=47% Similarity=0.679 Sum_probs=120.8
Q ss_pred CCEEEEEECCCCCCCCCCCEEEEEEECCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHCCCCCCCH
Q ss_conf 88899996647579998218999996188127860222766302789999998641134540378840645503256522
Q gi|254780796|r 6 LREVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPCKVLLYTDSSYVHKGFSQW 85 (152)
Q Consensus 6 ~~~i~IytDGS~~~n~~~aG~g~v~~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~~~~~~i~I~tDS~yvv~~i~~~ 85 (152)
...++|||||||.+||+++|+|+|+..++...........+|||+||+.|++.||+.+.....+.|+|||+|++++++.|
T Consensus 2 ~~~~~iytDGS~~~n~~~~G~g~v~~~~~~~~~~~~~~~~~tn~~aE~~a~~~aL~~a~~~~~~~i~~DS~~vi~~i~~~ 81 (146)
T 3h08_A 2 EKTITIYTDGAASGNPGKGGWGALLMYGSSRKEISGYDPATTNNRMELMAAIKGLEALKEPARVQLYSDSAYLVNAMNEG 81 (146)
T ss_dssp CCEEEEEEEEEESSTTEEEEEEEEEEETTEEEEEEEEEEEECHHHHHHHHHHHHHHTCSSCCEEEEEESCHHHHHHHHSS
T ss_pred CCCEEEEEECCCCCCCCCCEEEEEEEECCEEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEECCCHHEEEECHH
T ss_conf 97189998217999899738999999499789986564766518899988888775226776089994471113442114
Q ss_pred HHHHHH-HHHHCCCCCCCCCCHHHHHHHH-HCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 567765-4320035564211000234541-0222105589801788884558999999999998
Q gi|254780796|r 86 IKKWQQ-NGWKTSDKKTVKNIDLWMKFVE-ASAQHKVDLYWIKGHAGNQENEKVDRIARNAAVS 147 (152)
Q Consensus 86 ~~~W~~-n~wk~~~~~~v~N~dl~~~l~~-l~~~~~v~~~~V~gH~g~~~N~~AD~lA~~aa~~ 147 (152)
.+.|.. ++|+++.+.++.+ .+++++.. +.....|+|.|||||+|++||++||+|||+|+..
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~v~~~wv~~H~g~~gNe~AD~LAk~aa~~ 144 (146)
T 3h08_A 82 WLKRWVKNGWKTAAKKPVEN-IDLWQEILKLTTLHRVTFHKVKGHSDNPYNSRADELARLAIKE 144 (146)
T ss_dssp HHHHHHHTTCC----CCCTT-HHHHHHHHHHHHHSEEEEEECCC-CCSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCCHHH-HHHHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHHHHHHHHHH
T ss_conf 56777742255412772221-5788888887751764079905889973079999999999985
No 6
>>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} (A:)
Probab=100.00 E-value=1.3e-34 Score=214.54 Aligned_cols=148 Identities=51% Similarity=0.802 Sum_probs=125.7
Q ss_pred CCCCCCCEEEEEECCCCCCCCCCCEEEEEEECCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHCCC
Q ss_conf 97777888999966475799982189999961881278602227663027899999986411345403788406455032
Q gi|254780796|r 1 MDSKHLREVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPCKVLLYTDSSYVHK 80 (152)
Q Consensus 1 ~~~~~~~~i~IytDGS~~~n~~~aG~g~v~~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~~~~~~i~I~tDS~yvv~ 80 (152)
|++.+...++|||||||.+||+++|||+|+...+............|||+|||.|++.||+++.....+.|+|||+||++
T Consensus 1 ~~p~~~~~~~iytDGs~~~~~~~~g~g~v~~~~~~~~~~~~~~~~~tn~~aEl~Ai~~al~~~~~~~~~~i~~Ds~~v~~ 80 (166)
T 1ril_A 1 MNPSPRKRVALFTDGACLGNPGPGGWAALLRFHAHEKLLSGGEACTTNNRMELKAAIEGLKALKEPCEVDLYTDSHYLKK 80 (166)
T ss_dssp -----CCCCCEEEEEEESSTTEEEEEEEEECBTTBCCEECCEEEEECHHHHHHHHHHHHHHSCCSCCEEEEECCCHHHHH
T ss_pred CCCCCCCCEEEEECCCCCCCCCCCEEEEEEEECCEEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHH
T ss_conf 99887885899976788899996389999997991389851115540789999999999876137764676314355532
Q ss_pred CCCCHHHHHHHHHHH-CCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf 565225677654320-03556421100023454102221055898017888845589999999999988
Q gi|254780796|r 81 GFSQWIKKWQQNGWK-TSDKKTVKNIDLWMKFVEASAQHKVDLYWIKGHAGNQENEKVDRIARNAAVSF 148 (152)
Q Consensus 81 ~i~~~~~~W~~n~wk-~~~~~~v~N~dl~~~l~~l~~~~~v~~~~V~gH~g~~~N~~AD~lA~~aa~~~ 148 (152)
+|+.+...|..+.|. ++.+.++.+..++..+..+.+..+|.|.|||||+|++||+.||+||++|+...
T Consensus 81 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~wv~~H~~~~gNe~AD~LA~~a~~~~ 149 (166)
T 1ril_A 81 AFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFVKGHTGHPENERVDREARRQAQSQ 149 (166)
T ss_dssp HHHSSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHHTTSEEECCCCCGGGSCTHHHHHHHHHHHHHTSS
T ss_pred HHHCCCCHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHHHHC
T ss_conf 221124125554432343344321057899999997504431799056489766999999999999844
No 7
>>1zbf_A Ribonuclease H-related protein; RNAse H, RNA/DNA hybrid, DDE motif, hydrolase; 1.50A {Bacillus halodurans c-125} (A:)
Probab=99.97 E-value=2.3e-33 Score=207.50 Aligned_cols=136 Identities=19% Similarity=0.133 Sum_probs=119.8
Q ss_pred CCCCCEEEEEECCCCCCCCCCCEEEEEEECCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCC-CCCEEEEECCHHHCCCC
Q ss_conf 77788899996647579998218999996188127860222766302789999998641134-54037884064550325
Q gi|254780796|r 3 SKHLREVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALK-YPCKVLLYTDSSYVHKG 81 (152)
Q Consensus 3 ~~~~~~i~IytDGS~~~n~~~aG~g~v~~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~~-~~~~i~I~tDS~yvv~~ 81 (152)
+.++..++|||||||.+|++++|+|+|+..++...........+|||+|||+|++.||+++. ...++.|+|||+||++
T Consensus 6 ~~~~~~~~iytDGS~~~~~~~~g~g~v~~~~~~~~~~~~~~~~~tn~~AEl~Ai~~al~~a~~~~~~v~i~tDS~~vi~- 84 (142)
T 1zbf_A 6 KEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSNSQTAIK- 84 (142)
T ss_dssp --CCCSSSEEEEEEECSSSEEEEEEEEETTTCCEEEECCCEEEECHHHHHHHHHHHHHHHHHHTTCCCCEEESCHHHHH-
T ss_pred CCCCCCEEEEEEECCCCCCCCEEEEEEEECCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEECHHHHHH-
T ss_conf 3442303899860469999545799999839979999668677660899999999999998615976999964178998-
Q ss_pred CCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf 6522567765432003556421100023454102221055898017888845589999999
Q gi|254780796|r 82 FSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWIKGHAGNQENEKVDRIAR 142 (152)
Q Consensus 82 i~~~~~~W~~n~wk~~~~~~v~N~dl~~~l~~l~~~~~v~~~~V~gH~g~~~N~~AD~lA~ 142 (152)
++.+|..+.|.......+.+.++++++..+...++|+|.|||||+|+++|++||+|||
T Consensus 85 ---~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~wV~~H~~~~~N~~AD~lAK 142 (142)
T 1zbf_A 85 ---WVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYGRK 142 (142)
T ss_dssp ---HHHHTCCCCCCCCSTTTHHHHHHHHHHHHHHHHCCCCCCEEECCHHHHCSCTTCC---
T ss_pred ---HHHCCEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEECCCCCCCCCCCCCCCC
T ss_conf ---9860807224567864499999999999999868446515850251136555565889
No 8
>>2hb5_A Reverse transcriptase/ribonuclease H; RNAse H, hydrolase; 1.59A {Moloney murine leukemia virus} (A:)
Probab=99.97 E-value=7.9e-31 Score=193.19 Aligned_cols=133 Identities=22% Similarity=0.196 Sum_probs=108.2
Q ss_pred CCCCEEEEEECCCCCCCCCCCEEEEEEECCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHCCCCCC
Q ss_conf 77888999966475799982189999961881278602227663027899999986411345403788406455032565
Q gi|254780796|r 4 KHLREVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPCKVLLYTDSSYVHKGFS 83 (152)
Q Consensus 4 ~~~~~i~IytDGS~~~n~~~aG~g~v~~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~~~~~~i~I~tDS~yvv~~i~ 83 (152)
-...+++|||||||++|++.+|+++++...............+|||+|||+|++.+++.. ....+.|||||+||+++++
T Consensus 18 ~~~~~~~iytDGS~~~n~~~~g~~~~~~~~~~~~~~~~~~~~~tn~~aEl~A~~~~~~~~-~~~~i~i~tDS~~vi~~~~ 96 (164)
T 2hb5_A 18 LPDADHTWYTDGSSLLQEGQRKAGAAVTTETEVIWAKALPAGTSAQRAELIALTQALKXA-EGKKLNVYTDSRYAFATAH 96 (164)
T ss_dssp CTTCSEEEEEEEEEEEETTEEEEEEEEECSSCEEEEEEECTTCCHHHHHHHHHHHHHHHT-BTSEEEEEECCHHHHHHTT
T ss_pred CCCCCEEEEEECCCCCCCCCEEEEEEEEECCCCEEEECCCCCCCHHHHHHHHHHHHHHHH-CCCCCEEEEEHHHHHHCCC
T ss_conf 899998999867885799954679999969902697225774658899999999999743-1356379960299984131
Q ss_pred CHHHHHHHHHHHCCCCCCCCCCHHHHHHHHH-CCCCCEEEEEECCCCCC-----HHHHHHHHHHHHHHHHH
Q ss_conf 2256776543200355642110002345410-22210558980178888-----45589999999999988
Q gi|254780796|r 84 QWIKKWQQNGWKTSDKKTVKNIDLWMKFVEA-SAQHKVDLYWIKGHAGN-----QENEKVDRIARNAAVSF 148 (152)
Q Consensus 84 ~~~~~W~~n~wk~~~~~~v~N~dl~~~l~~l-~~~~~v~~~~V~gH~g~-----~~N~~AD~lA~~aa~~~ 148 (152)
.|...|..+.| ..+..+..+ .+...|+|.|||||+|. +||++||+||++|+..-
T Consensus 97 ~~~~~~~~~~~-----------~~~~~~~~~~~~~~~v~~~wVpgHs~~~~~~~~gNe~AD~LA~~aa~~~ 156 (164)
T 2hb5_A 97 LTSEGKEIKNK-----------DEILALLKALFLPKRLSIIHCPGHQKGHSAEARGNRXADQAARKAAITE 156 (164)
T ss_dssp CCCCCSSCTTH-----------HHHHHHHHHTTSBSEEEEEEC-----CCSHHHHHHHHHHHHHHHHHHHS
T ss_pred CCCCCCCCHHH-----------HHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHCC
T ss_conf 11357750048-----------9999999998556837999974666788875278999999999998557
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: 2ze2_A* 3bgr_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* 1tvr_A* 2hmi_A* 2vg5_A* 2vg6_A* 2vg7_A* ... (A:430-557)
Probab=99.97 E-value=1.3e-31 Score=197.67 Aligned_cols=123 Identities=24% Similarity=0.225 Sum_probs=101.5
Q ss_pred CCCCEEEEEECCCCCCCCCCCEEEEEEECCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHCCCCCC
Q ss_conf 77888999966475799982189999961881278602227663027899999986411345403788406455032565
Q gi|254780796|r 4 KHLREVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPCKVLLYTDSSYVHKGFS 83 (152)
Q Consensus 4 ~~~~~i~IytDGS~~~n~~~aG~g~v~~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~~~~~~i~I~tDS~yvv~~i~ 83 (152)
+.+..++|||||||++|++.+|+++++..... .......+||++|||.|++.||+... .++.|+|||+|++++++
T Consensus 6 p~~~~~~iytDGS~~~~~~~~g~~~~~~~~~~---~~~~~~~~t~~~aEl~a~~~al~~~~--~~i~i~sDS~~v~~~i~ 80 (128)
T 2zd1_A 6 PIVGAETFYVDGAANRETKLGKAGYVTNKGRQ---KVVPLTNTTNQKTELQAIYLALQDSG--LEVNIVTDSQYALGIIQ 80 (128)
T ss_dssp CCTTSCEEEEEEEECTTTCCEEEEEEETTSCE---EEEEECSCCHHHHHHHHHHHHHHHSC--SEEEEEECCHHHHHHHT
T ss_pred CCCCCEEEECCCCCCCCCCCCEEEEEECCCCE---EEEECCCCCHHHHHHHHHHHHHHHCC--CEEEEEEHHHHHHHHHH
T ss_conf 65566056646645679987389998179817---88508988689999999999998289--84999876799999985
Q ss_pred CHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHH
Q ss_conf 2256776543200355642110002345410222105589801788884558999999999
Q gi|254780796|r 84 QWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWIKGHAGNQENEKVDRIARNA 144 (152)
Q Consensus 84 ~~~~~W~~n~wk~~~~~~v~N~dl~~~l~~l~~~~~v~~~~V~gH~g~~~N~~AD~lA~~a 144 (152)
.|.+.|+.+.|. +.+..+.+..+|.|.|||||+|++||++||+|||+|
T Consensus 81 ~~~~~~~~~~~~-------------~~~~~~~~~~~v~~~~v~~H~g~~gNe~AD~LAk~a 128 (128)
T 2zd1_A 81 AQPDKSESELVN-------------QIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAG 128 (128)
T ss_dssp TCCSEESSHHHH-------------HHHHHHHHCSEEEEEECCSSSCCTTCCGGGGCC---
T ss_pred HCCCCCCHHHHH-------------HHHHHHHCCCCEEEEEECCCCCCCCHHHHHHHHHCC
T ss_conf 299766579999-------------999998588977999926999993458999997478
No 10
>>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug design, transferase; 2.35A {Human immunodeficiency virus 2} (A:427-555)
Probab=99.96 E-value=6e-30 Score=188.24 Aligned_cols=124 Identities=23% Similarity=0.234 Sum_probs=99.1
Q ss_pred CCCCEEEEEECCCCCCCCCCCEEEEEEECCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHCCCCCC
Q ss_conf 77888999966475799982189999961881278602227663027899999986411345403788406455032565
Q gi|254780796|r 4 KHLREVHAYTDGACSGNPGPGGWGVLLRYKGKEKIISGGEKETTNNRMELMAAIKALTALKYPCKVLLYTDSSYVHKGFS 83 (152)
Q Consensus 4 ~~~~~i~IytDGS~~~n~~~aG~g~v~~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~~~~~~i~I~tDS~yvv~~i~ 83 (152)
+.+..++|||||||.+|++.+|+++++..... .......+|||.|||.|++.||++. ..++.|+|||+||+++++
T Consensus 6 p~~~~i~iytDGS~~~~~~~~g~~~~~~~~~~---~~~~~~~~t~~~AEl~a~~~al~~~--~~~i~i~tDS~~v~~~~~ 80 (129)
T 1mu2_A 6 PIPGAETFYTDGSCNRQSKEGKAGYVTDRGKD---KVKKLEQTTNQQAELEAFAMALTDS--GPKVNIIVDSQYVMGIVA 80 (129)
T ss_dssp CCTTCEEEEEEEEECTTTCCEEEEEEETTSCE---EEEEESSCCHHHHHHHHHHHHHHTS--CSEEEEEESCHHHHHHHH
T ss_pred CCCCCEEEEECCCCCCCCCCCEEEEEECCCCE---EEEECCCCCHHHHHHHHHHHHHHHC--CCCEEEEEHHHHHHHHHH
T ss_conf 98997289967634679987669999558845---5760899859999999999999958--996699855699988997
Q ss_pred CHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHH
Q ss_conf 22567765432003556421100023454102221055898017888845589999999999
Q gi|254780796|r 84 QWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWIKGHAGNQENEKVDRIARNAA 145 (152)
Q Consensus 84 ~~~~~W~~n~wk~~~~~~v~N~dl~~~l~~l~~~~~v~~~~V~gH~g~~~N~~AD~lA~~aa 145 (152)
.+...|..+.|+ ..+..+....+|+|.|||||+|++||++||+|||+|.
T Consensus 81 ~~~~~~~~~~~~-------------~~~~~~~~~~~v~~~wv~gH~g~~gNe~AD~LAk~ai 129 (129)
T 1mu2_A 81 SQPTESESKIVN-------------QIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQGI 129 (129)
T ss_dssp TCCSEESCHHHH-------------HHHHHHHHCSEEEEEECCSSSCCTTHHHHHHHHHTTC
T ss_pred HCCCCCCCHHHH-------------HHHHHHHCCCCEEEEEECCCCCCCCHHHHHHHHHHCC
T ss_conf 299776558899-------------9999985789769999588899914799999997109
No 11
>>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, double-stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii str} (A:)
Probab=99.86 E-value=7.3e-22 Score=142.80 Aligned_cols=128 Identities=23% Similarity=0.345 Sum_probs=93.5
Q ss_pred EEEEECCCCC-CCC-CCCEEEEEEECCCCEEEE-E----CCCCCCCHHHHHHHHHHHHHHCCCC--CCEEEEECCHHHCC
Q ss_conf 9999664757-999-821899999618812786-0----2227663027899999986411345--40378840645503
Q gi|254780796|r 9 VHAYTDGACS-GNP-GPGGWGVLLRYKGKEKII-S----GGEKETTNNRMELMAAIKALTALKY--PCKVLLYTDSSYVH 79 (152)
Q Consensus 9 i~IytDGS~~-~n~-~~aG~g~v~~~~~~~~~~-~----~~~~~~Tnn~aEl~Ai~~AL~~~~~--~~~i~I~tDS~yvv 79 (152)
|+|||||||. +++ +++|||+++...+..... . ......|||+|||.|++.||+.+.. ...+.|++||++++
T Consensus 2 i~iytDgs~~~~~~~~~~G~G~vl~~~~~~~~~~s~~~~~~~~~~tn~~aEl~Ai~~al~~~~~~~~~~~~i~~ds~~~~ 81 (149)
T 2ehg_A 2 IIGYFDGLCEPKNPGGIATFGFVIYLDNRKIEGYGLAEKPFSINSTNNVAEYSGLICLMETMLRLGISSPIIKGDSQLVI 81 (149)
T ss_dssp CEEEEEEEEESSSSSSEEEEEEEEECSSCEEEEEEECSCTTCTTCCHHHHHHHHHHHHHHHHHHHTCCSCEEEESCHHHH
T ss_pred EEEEEEECCCCCCCCCCEEEEEEEEECCCEEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEECCCEEEE
T ss_conf 99999516899998939899999998996799888751156777663799999999877610100122103760473998
Q ss_pred CCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHC
Q ss_conf 256522567765432003556421100023454102221055898017888845589999999999988731
Q gi|254780796|r 80 KGFSQWIKKWQQNGWKTSDKKTVKNIDLWMKFVEASAQHKVDLYWIKGHAGNQENEKVDRIARNAAVSFKNK 151 (152)
Q Consensus 80 ~~i~~~~~~W~~n~wk~~~~~~v~N~dl~~~l~~l~~~~~v~~~~V~gH~g~~~N~~AD~lA~~aa~~~k~~ 151 (152)
..+ .++|+.+......+.+ .+..+...++|+|.|||+ .+|+.||.||+.|+....+.
T Consensus 82 ~~~--------~~~~~~~~~~~~~~~~---~~~~l~~~~~v~~~~vpr----~~N~~AD~LAr~a~~~~~~~ 138 (149)
T 2ehg_A 82 KQM--------NGEYKVKAKRIIPLYE---KAIELKKKLNATLIWVPR----EENKEADRLSRVAYELVRRG 138 (149)
T ss_dssp HHH--------TTSSCCCCTTHHHHHH---HHHHHHHHHTCEEEECCG----GGCHHHHHHHHHHHHHHHTT
T ss_pred EEC--------CCCCCCCCHHHHHHHH---HHHHHHHCCCEEEEECCC----HHHHHHHHHHHHHHHHHCCC
T ss_conf 732--------3443546878999999---999997239569998784----44069999999996464289
No 12
>>1rw3_A POL polyprotein; RNA and DNA dependent DNA polymerase, reverse transcriptase, transferase, replication; 3.00A {Moloney murine leukemia virus} (A:303-455)
Probab=71.25 E-value=0.68 Score=24.97 Aligned_cols=66 Identities=8% Similarity=-0.128 Sum_probs=37.6
Q ss_pred EEEEEECCCCCCCCCCCEEEEEEECCCC--EEE---EE----CCCCCCCHHHHHHHHHHHHHHCCC---CCCEEEEECCH
Q ss_conf 8999966475799982189999961881--278---60----222766302789999998641134---54037884064
Q gi|254780796|r 8 EVHAYTDGACSGNPGPGGWGVLLRYKGK--EKI---IS----GGEKETTNNRMELMAAIKALTALK---YPCKVLLYTDS 75 (152)
Q Consensus 8 ~i~IytDGS~~~n~~~aG~g~v~~~~~~--~~~---~~----~~~~~~Tnn~aEl~Ai~~AL~~~~---~~~~i~I~tDS 75 (152)
...++||.|.. |+|+++...+. ... .+ ......+....|+.|++.+++... .+..+.|+||-
T Consensus 44 ~~~~~~daS~~------~~g~vl~q~~~~~~~~~~~~s~~~~~~~~~~~~~e~~~~a~~~~~~~~~~~~~g~~f~v~TDH 117 (153)
T 1rw3_A 44 PFELFVDEKQG------YAKGVLTQKLGPWRRPVAYLSKKLDPVAAGWPPCLRMVAAIAVLTKDAGKLTMGQPLVIKAPH 117 (153)
T ss_dssp TTSCEEEEEEC------SSSBEECCBCTTTTCCCCCCCBCSCSSCSSSCCSSHHHHHHHHHHHHHHGGGCSSCEEEECSS
T ss_pred CCEEEEEECCC------CCEEEEEEECCCCEEEEEEECCCCCHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECC
T ss_conf 81666430255------654899998189879999997868877878659999999999999999998589759999688
Q ss_pred HHCC
Q ss_conf 5503
Q gi|254780796|r 76 SYVH 79 (152)
Q Consensus 76 ~yvv 79 (152)
+...
T Consensus 118 ~~L~ 121 (153)
T 1rw3_A 118 AVEA 121 (153)
T ss_dssp CTTT
T ss_pred HHHH
T ss_conf 6899
Done!