Query psy10407
Match_columns 210
No_of_seqs 131 out of 1541
Neff 7.2
Searched_HMMs 29240
Date Fri Aug 16 17:07:23 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10407.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/10407hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1rw3_A POL polyprotein; RNA an 99.8 4.4E-22 1.5E-26 181.0 0.7 123 8-132 314-453 (455)
2 2zd1_B P51 RT; P51/P66, hetero 99.7 6.2E-17 2.1E-21 146.4 6.1 97 8-105 292-404 (428)
3 1mu2_A HIV-2 RT; HIV-2 reverse 99.6 1.6E-16 5.4E-21 147.8 4.8 131 7-146 291-444 (555)
4 2zd1_A Reverse transcriptase/r 99.5 1E-14 3.5E-19 135.7 7.6 98 8-105 294-406 (557)
5 2ehg_A Ribonuclease HI; RNAse 98.1 9.2E-07 3.2E-11 68.0 2.1 109 41-149 2-130 (149)
6 3hst_B Protein RV2228C/MT2287; 98.0 2.3E-06 7.8E-11 64.7 1.8 108 39-149 2-129 (141)
7 3u3g_D Ribonuclease H, RNAse H 97.7 1.1E-05 3.7E-10 60.6 2.1 107 40-149 3-133 (140)
8 3p1g_A Xenotropic murine leuke 97.6 9.2E-05 3.2E-09 58.3 5.9 114 34-149 17-152 (165)
9 1ril_A Ribonuclease H; hydrola 97.5 2E-05 6.9E-10 62.0 1.0 112 39-150 7-145 (166)
10 2e4l_A Ribonuclease HI, RNAse 97.5 4.3E-05 1.5E-09 59.5 2.9 111 39-149 5-141 (158)
11 1jl1_A Ribonuclease HI; RNAse 97.5 5.9E-05 2E-09 58.5 3.0 110 40-149 4-139 (155)
12 2qkb_A Ribonuclease H1, HS-RNA 97.4 4.6E-05 1.6E-09 58.9 2.2 112 38-149 5-147 (154)
13 3h08_A RNH (ribonuclease H); R 97.4 3.1E-05 1.1E-09 59.2 1.2 110 39-148 3-139 (146)
14 2kq2_A Ribonuclease H-related 97.2 7.8E-05 2.7E-09 57.4 0.8 108 38-149 4-133 (147)
15 3qio_A GAG-POL polyprotein; RN 97.1 0.00024 8.1E-09 55.0 2.9 111 39-151 11-145 (150)
16 2zd1_A Reverse transcriptase/r 96.1 0.0071 2.4E-07 55.8 6.1 106 39-149 438-556 (557)
17 2lsn_A Reverse transcriptase; 96.1 0.0046 1.6E-07 48.5 3.9 111 38-148 5-158 (165)
18 1mu2_A HIV-2 RT; HIV-2 reverse 93.6 0.044 1.5E-06 50.4 3.8 106 39-149 435-553 (555)
19 1zbf_A Ribonuclease H-related 80.9 0.42 1.4E-05 36.2 0.7 69 39-107 10-89 (142)
20 4htu_A Ribonuclease H, RNAse H 80.4 0.37 1.3E-05 36.4 0.2 66 41-106 6-82 (134)
21 1cmk_I CAMP-dependent protein 24.0 26 0.00087 18.7 0.8 15 134-148 10-24 (26)
No 1
>1rw3_A POL polyprotein; RNA and DNA dependent DNA polymerase, reverse transcriptase, transferase, replication; 3.00A {Moloney murine leukemia virus} SCOP: e.8.1.2
Probab=99.83 E-value=4.4e-22 Score=180.96 Aligned_cols=123 Identities=13% Similarity=0.024 Sum_probs=103.0
Q ss_pred cCCCChHHHHHHHHHHHhcCCCCcccccCCCCceEEEecCCCCceeEEEEeecc-----------ccccccCCCchhhHH
Q psy10407 8 AQNLLPGYNQLFVTMETHLLPDKVISGFTNYNFYRKDFLDGRISCGGVMLMIHK-----------KYFSQPVPGSPVEMG 76 (210)
Q Consensus 8 ~~~~~~~~~~aF~~lK~~l~~~pvl~~~~~~~~~~l~tDAS~~~~GavL~q~~~-----------~~~s~~~~y~~~eke 76 (210)
...|.+.+++||++||+.|+++|+|..|+++.+|.|+||||+.|+||||+|..+ .+.+.|.+|+++|+|
T Consensus 314 ~~~W~~~~~~af~~lK~~l~~~pvL~~p~~~~~~~l~~DAS~~~~gavL~q~~~~~~~~i~y~Sk~l~~~e~~ys~~ekE 393 (455)
T 1rw3_A 314 LFNWGPDQQKAYQEIKQALLTAPALGLPDLTKPFELFVDEKQGYAKGVLTQKLGPWRRPVAYLSKKLDPVAAGWPPCLRM 393 (455)
T ss_dssp --CCCCCCSSSCCHHHHHTCSSCCSCCSSSCCTTSCEEEEEECSSSBEECCBCTTTTCCCCCCCBCSCSSCSSSCCSSHH
T ss_pred CcCchHHHHHHHHHHHHHhhcCcccccCCCCCcEEEEEeccCCcceeEEEEecCCcEEEEEEEcccCCccccccchHHHH
Confidence 456778889999999999999999999999999999999999999999999853 444567899999999
Q ss_pred HHHHHhh---h-eeccc-eEEEeecchhhHhhhcccCcCCCccchhccchhhhhc-ccccee
Q psy10407 77 CCTNSLH---F-KYIHC-SLNEATDNKALVTLFGEDKAVPMLSSARLQRWSLILS-NFDYSI 132 (210)
Q Consensus 77 llaiv~~---~-~yl~g-~f~v~TDh~~L~~l~~~~~~~~~~~~~rl~rw~~~L~-~f~~~I 132 (210)
++|++++ | +|+.| +|+|+|||+ +.+++.++. ..-..++|++||+.+|+ .||+++
T Consensus 394 llAi~~a~~~~~~yl~g~~~~v~tDh~-~~~~l~~~~-~~~~~~~Rl~rW~~~L~e~~~i~~ 453 (455)
T 1rw3_A 394 VAAIAVLTKDAGKLTMGQPLVIKAPHA-VEALVKQPP-DRWLSNARMTHYQALLLDTDRVQF 453 (455)
T ss_dssp HHHHHHHHHHHHGGGCSSCEEEECSSC-TTTTSSSTT-TTTCCCCCCSCCCCCCCCCCSSSS
T ss_pred HHHHHHHHHHHHHHcCCCcEEEEecCh-HHHHhCCCc-cccccchHHHHHHHHhCcCCCeEe
Confidence 9999885 4 99999 999999998 555555443 12236899999999999 577654
No 2
>2zd1_B P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} SCOP: e.8.1.2 PDB: 2ykm_B* 2ykn_B* 2ze2_B* 3bgr_B* 3ig1_B* 3irx_B* 3is9_B* 3qo9_B* 3v4i_B* 3v6d_B* 3v81_B* 3klf_B* 3kk1_B* 3kjv_B* 3kk2_B* 3kk3_B* 2be2_B* 1n5y_B* 1bqm_B* 1n6q_B* ...
Probab=99.66 E-value=6.2e-17 Score=146.36 Aligned_cols=97 Identities=6% Similarity=-0.221 Sum_probs=85.7
Q ss_pred cCCCChHHHHHHHHHHHhcCCCCcccccCCCCceEEEecCCCC-ceeEEEEeecc------ccccccCCCchhhHHHHH-
Q psy10407 8 AQNLLPGYNQLFVTMETHLLPDKVISGFTNYNFYRKDFLDGRI-SCGGVMLMIHK------KYFSQPVPGSPVEMGCCT- 79 (210)
Q Consensus 8 ~~~~~~~~~~aF~~lK~~l~~~pvl~~~~~~~~~~l~tDAS~~-~~GavL~q~~~------~~~s~~~~y~~~ekella- 79 (210)
+..|.+.+++||++||++|+++|+|.+||+++||.++||||+. ++|+||.|... .|. ++.||.++|+|+||
T Consensus 292 ~~~Wt~~~~~af~~lK~~L~~~p~l~~pd~~~~~~l~~das~~g~~g~vl~q~~~~~~~s~~~~-~~~~y~~~~~e~la~ 370 (428)
T 2zd1_B 292 VIPLTEEAELELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYA-RMRGAHTNDVKQLTE 370 (428)
T ss_dssp EECCCHHHHHHHHHHHHHTTSCCTTCCCCTTSCCEEEEEEEETTEEEEEEESSTTCEEEEEEEE-CCSSCTTCHHHHHHH
T ss_pred eecCCHHHHHHHHHHHHHHhcchhccccCCCCCEEEEEecCCCCcEEEEEecCCCceeeecccc-hhhhcccchHHHHHH
Confidence 4789999999999999999999999999999999999999996 55999999753 444 78999999999999
Q ss_pred HHhh---h-eeccc----eEEEeecchhhHhhhc
Q psy10407 80 NSLH---F-KYIHC----SLNEATDNKALVTLFG 105 (210)
Q Consensus 80 iv~~---~-~yl~g----~f~v~TDh~~L~~l~~ 105 (210)
++++ | +||.| .|+++|||+.+.++..
T Consensus 371 vv~al~~~r~yl~G~~~~~~i~~td~~~~~~~~~ 404 (428)
T 2zd1_B 371 AVQKITTESIVIWGKTPKFKLPIQKETWETWWTE 404 (428)
T ss_dssp HHHHHHHHHHHHHSSCCEEEESSCHHHHHHHHHH
T ss_pred HHHHhhccceEEECCCCcEECCccHHHHHHHHHh
Confidence 8874 5 99988 3678899999999854
No 3
>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=99.62 E-value=1.6e-16 Score=147.81 Aligned_cols=131 Identities=8% Similarity=-0.089 Sum_probs=104.0
Q ss_pred ccCCCChHHHHHHHHHHHhcCCCCcccccCCCCceEEEecCCCCc-eeEEEEeecc----ccccccCCCchhhHHHHH-H
Q psy10407 7 KAQNLLPGYNQLFVTMETHLLPDKVISGFTNYNFYRKDFLDGRIS-CGGVMLMIHK----KYFSQPVPGSPVEMGCCT-N 80 (210)
Q Consensus 7 ~~~~~~~~~~~aF~~lK~~l~~~pvl~~~~~~~~~~l~tDAS~~~-~GavL~q~~~----~~~s~~~~y~~~ekella-i 80 (210)
.+..|.+.+++||++||++|+++|+|.+|++++||.++||||+.| +||||.|..+ +|++++++|...|+|+|| +
T Consensus 291 ~~~~wt~~~~~af~~lK~~L~~~p~L~~p~~~~~~~l~~das~~ga~g~vl~Q~~~~~~~~~~s~~~~~~~~~~~~la~~ 370 (555)
T 1mu2_A 291 EEVQWTELAEAELEENRIILSQEQEGHYYQEEKELEATVQKDQDNQWTYKIHQEEKILKVGKYAKVKNTHTNGIRLLAQV 370 (555)
T ss_dssp CBCCCCHHHHHHHHHHHHHHSCCEEEECBCTTSCCEEEEEECSSSCEEEEEEETTEEEEEEEECCC--CEECHHHHHHHH
T ss_pred CcccCCHHHHHHHHHHHHHHhhCccccccCCCCCEEEEEecCCCCcEEEEEeeCCcceeeeeccccccccCCHHHHHHHH
Confidence 467899999999999999999999999999999999999999996 9999999766 688999999999999988 6
Q ss_pred Hhh---h-eeccc-e--EEEe----------ecchhhHhhhcccCcCCCccchhccchhhhhccccceeeeecCCCCCCc
Q psy10407 81 SLH---F-KYIHC-S--LNEA----------TDNKALVTLFGEDKAVPMLSSARLQRWSLILSNFDYSIKYKKGTQIPVA 143 (210)
Q Consensus 81 v~~---~-~yl~g-~--f~v~----------TDh~~L~~l~~~~~~~~~~~~~rl~rw~~~L~~f~~~I~y~~Gk~n~~a 143 (210)
+++ | +|+.| . |.+. |||.++.++..... ..+.++.||. |++...+.+|......
T Consensus 371 v~~l~~~~~~l~g~~~~~~v~~~~~~w~~~~td~~~l~~~p~~~~----~~~~~~~~~~-----~~~~~~p~~~~~~iyt 441 (555)
T 1mu2_A 371 VQKIGKEALVIWGRIPKFHLPVEREIWEQWWDNYWQVTWIPDWDF----VSTPPLVRLA-----FNLVGDPIPGAETFYT 441 (555)
T ss_dssp HHHHHHHHHHHHSSCCEEEESBCHHHHHHHHHHCSSBCCCCSEEE----CCCSSCBCCC-----CCEESSCCTTCEEEEE
T ss_pred HHHhchhheeeeCCCeeEECCccHHHHHHhhhccchhhcCCcHHh----ccCCcccccc-----cccCCCCCCCceEEEE
Confidence 663 4 99999 4 8888 99999988765332 2467888886 5555545554444444
Q ss_pred ccc
Q psy10407 144 DAL 146 (210)
Q Consensus 144 D~L 146 (210)
|.=
T Consensus 442 DGs 444 (555)
T 1mu2_A 442 DGS 444 (555)
T ss_dssp EEE
T ss_pred ccc
Confidence 443
No 4
>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=99.53 E-value=1e-14 Score=135.66 Aligned_cols=98 Identities=4% Similarity=-0.209 Sum_probs=86.7
Q ss_pred cCCCChHHHHHHHHHHHhcCCCCcccccCCCCceEEEecCCCCc-eeEEEEeecc-----ccccccCCCchhhHHHHH-H
Q psy10407 8 AQNLLPGYNQLFVTMETHLLPDKVISGFTNYNFYRKDFLDGRIS-CGGVMLMIHK-----KYFSQPVPGSPVEMGCCT-N 80 (210)
Q Consensus 8 ~~~~~~~~~~aF~~lK~~l~~~pvl~~~~~~~~~~l~tDAS~~~-~GavL~q~~~-----~~~s~~~~y~~~ekella-i 80 (210)
+..|.+.+++||++||++|+++|+|.+|++++||.|+||||+.| +|+||.|... ..+.++.+|.++|+|++| +
T Consensus 294 ~~~Wt~~~~~af~~lK~~L~~~p~L~~pd~~~~~~l~~das~~g~~g~vl~q~~~~~~~~~~~~~~~~y~~~e~e~la~v 373 (557)
T 2zd1_A 294 VIPLTEEAELELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRGAHTNDVKQLTEA 373 (557)
T ss_dssp EECCCHHHHHHHHHHHHHTSSCCCBCCCCTTSCCEEEEEEEETTEEEEEEEEETTEEEEEEEEECCSCSEECHHHHHHHH
T ss_pred ceecCHHHHHHHHHHHHHHhCccceeecCCCCCEEEEEecCCCCcEEEEEecCCCceeeeeecccccccCCChHHHHHHH
Confidence 57899999999999999999999999999999999999999987 5999999765 334479999999999999 8
Q ss_pred Hhh---h-eeccc---eEEE-eecchhhHhhhc
Q psy10407 81 SLH---F-KYIHC---SLNE-ATDNKALVTLFG 105 (210)
Q Consensus 81 v~~---~-~yl~g---~f~v-~TDh~~L~~l~~ 105 (210)
+++ | +|+.| .|.+ +|||+.+.++..
T Consensus 374 v~~l~~~~~~l~g~~p~~~vp~~~~~~~~~~~~ 406 (557)
T 2zd1_A 374 VQKITTESIVIWGKTPKFKLPIQKETWETWWTE 406 (557)
T ss_dssp HHHHHHHHHHHHSSCCEEEESBCHHHHHHHHHH
T ss_pred HHHhhhhheEEeCCCCCEECCCcHHHHHHHhhh
Confidence 774 5 99999 5777 899999888754
No 5
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=98.10 E-value=9.2e-07 Score=67.99 Aligned_cols=109 Identities=11% Similarity=0.027 Sum_probs=72.6
Q ss_pred eEEEecCCCC-------ce-eEEEEeecccc--cccc-----CCCchhhHHHHHHHhhheec--cc--eEEEeecchhhH
Q psy10407 41 YRKDFLDGRI-------SC-GGVMLMIHKKY--FSQP-----VPGSPVEMGCCTNSLHFKYI--HC--SLNEATDNKALV 101 (210)
Q Consensus 41 ~~l~tDAS~~-------~~-GavL~q~~~~~--~s~~-----~~y~~~ekellaiv~~~~yl--~g--~f~v~TDh~~L~ 101 (210)
+.++||.|.. |+ |+++...++.+ .+.. ...+..+-|+.|++.++..+ .| +++|+||++.+.
T Consensus 2 ~~iy~DGs~~~~n~g~~G~~G~vi~~~g~~~~~~~~~~~~~~~~~tnn~aEl~A~~~aL~~a~~~g~~~v~i~tDS~~vi 81 (149)
T 2ehg_A 2 IIGYFDGLCEPKNPGGIATFGFVIYLDNRKIEGYGLAEKPFSINSTNNVAEYSGLICLMETMLRLGISSPIIKGDSQLVI 81 (149)
T ss_dssp CEEEEEEEEESSSSSSEEEEEEEEECSSCEEEEEEECSCTTCTTCCHHHHHHHHHHHHHHHHHHHTCCSCEEEESCHHHH
T ss_pred EEEEEeeccCCCCCChheEEEEEEEECCEEEEEeccccCCCCCCccHHHHHHHHHHHHHHHHHHcCCCEEEEEeChHHHH
Confidence 4689996654 54 87887633321 1111 13457779999999876222 34 899999999999
Q ss_pred hhhcccCcCCC-ccchhccchhhhhccccceeeeecCCCCCCccccCCC
Q psy10407 102 TLFGEDKAVPM-LSSARLQRWSLILSNFDYSIKYKKGTQIPVADALSRL 149 (210)
Q Consensus 102 ~l~~~~~~~~~-~~~~rl~rw~~~L~~f~~~I~y~~Gk~n~~aD~LSR~ 149 (210)
..++..-..+. ....-+.+....+..|++.+.|++|..|..||.|.|.
T Consensus 82 ~~i~~~w~~~~~~~~~l~~~i~~l~~~~~v~~~~V~~~~N~~AD~LA~~ 130 (149)
T 2ehg_A 82 KQMNGEYKVKAKRIIPLYEKAIELKKKLNATLIWVPREENKEADRLSRV 130 (149)
T ss_dssp HHHTTSSCCCCTTHHHHHHHHHHHHHHHTCEEEECCGGGCHHHHHHHHH
T ss_pred HHHhCccccCCHHHHHHHHHHHHHHhcCCEEEEEcCCcccHHHHHHHHH
Confidence 98876421111 1112234445556778899999999999999999874
No 6
>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=97.95 E-value=2.3e-06 Score=64.68 Aligned_cols=108 Identities=12% Similarity=-0.010 Sum_probs=71.4
Q ss_pred CceEEEecCCCC------ceeEEEEeecc-----ccccccCCCchhhHHHHHHHhhheec--cc--eEEEeecchhhHhh
Q psy10407 39 NFYRKDFLDGRI------SCGGVMLMIHK-----KYFSQPVPGSPVEMGCCTNSLHFKYI--HC--SLNEATDNKALVTL 103 (210)
Q Consensus 39 ~~~~l~tDAS~~------~~GavL~q~~~-----~~~s~~~~y~~~ekellaiv~~~~yl--~g--~f~v~TDh~~L~~l 103 (210)
.++.|+||.|.. |+|+++..... .+......-+..+-|+.|++.++.++ .| +++|+||.+.+...
T Consensus 2 ~~~~iy~DGs~~~~~g~~g~G~v~~~~~~~~~~~~~~~~~~~~tn~~aEl~A~~~aL~~a~~~~~~~v~i~tDS~~vv~~ 81 (141)
T 3hst_B 2 VKVVIEADGGSRGNPGPAGYGAVVWTADHSTVLAESKQAIGRATNNVAEYRGLIAGLDDAVKLGATEAAVLMDSKLVVEQ 81 (141)
T ss_dssp CEEEEEEEEEESSSSEEEEEEEEEEETTSCSEEEEEEEEEEEECHHHHHHHHHHHHHHHHHHHTCSEEEEEESCHHHHHH
T ss_pred cEEEEEEecCCCCCCCCcEEEEEEEeCCCCcEEEeeeccCCCCchHHHHHHHHHHHHHHHHHCCCceEEEEeChHHHHHH
Confidence 468999997754 77777765431 11111112346678999998876222 34 89999999999998
Q ss_pred hcccCcCCCccchhccchh----hhhccc-cceeeeecCCCCCCccccCCC
Q psy10407 104 FGEDKAVPMLSSARLQRWS----LILSNF-DYSIKYKKGTQIPVADALSRL 149 (210)
Q Consensus 104 ~~~~~~~~~~~~~rl~rw~----~~L~~f-~~~I~y~~Gk~n~~aD~LSR~ 149 (210)
++..-.. .+..+.++. ..+..| .+++.|+++..|..||.|.|.
T Consensus 82 i~~~~~~---~~~~l~~~~~~i~~l~~~~~~v~~~~V~~~~N~~AD~LA~~ 129 (141)
T 3hst_B 82 MSGRWKV---KHPDLLKLYVQAQALASQFRRINYEWVPRARNTYADRLAND 129 (141)
T ss_dssp HTTSSCC---CSHHHHHHHHHHHHHHTTSSEEEEEECCGGGCHHHHHHHHH
T ss_pred HhCCccc---CCHHHHHHHHHHHHHHhcCCeEEEEEcCCcccHHHHHHHHH
Confidence 8863211 233333332 333444 688999999999999999764
No 7
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=97.72 E-value=1.1e-05 Score=60.57 Aligned_cols=107 Identities=10% Similarity=-0.055 Sum_probs=69.2
Q ss_pred ceEEEecCCC------CceeEEEEeecc----ccccccCCCchhhHHHHHHHhhheec--c-----c-eEEEeecchhhH
Q psy10407 40 FYRKDFLDGR------ISCGGVMLMIHK----KYFSQPVPGSPVEMGCCTNSLHFKYI--H-----C-SLNEATDNKALV 101 (210)
Q Consensus 40 ~~~l~tDAS~------~~~GavL~q~~~----~~~s~~~~y~~~ekellaiv~~~~yl--~-----g-~f~v~TDh~~L~ 101 (210)
.+.++||.|. .|+|+++..... .+......-+..+-|+.|++.++.++ . + +++|+||.+.+.
T Consensus 3 ~~~iy~DGs~~~n~g~~G~G~v~~~~~g~~~~~~~~~~~~~tn~~aEl~A~~~aL~~a~~~~~~~~~~~v~i~tDS~~vi 82 (140)
T 3u3g_D 3 KIIIYTDGGARGNPGPAGIGVVITDEKGNTLHESSAYIGETTNNVAEYEALIRALEDLQMFGDKLVDMEVEVRMDSELIV 82 (140)
T ss_dssp EEEEEEEEEESSTTEEEEEEEEEECTTSCEEEEEEEEEEEECHHHHHHHHHHHHHHHHGGGGGGGTTCEEEEEESCHHHH
T ss_pred eEEEEEecCCCCCCCCcEEEEEEEeCCCCEEEEEEeeCCCCchHHHHHHHHHHHHHHHHHcCCCCCCceEEEEeChHHHH
Confidence 5789999775 477887765322 11111112246678999998865211 1 2 799999999999
Q ss_pred hhhcccCcCCCccchhcc----chhhh-hccc-cceeeeecCCCCCCccccCCC
Q psy10407 102 TLFGEDKAVPMLSSARLQ----RWSLI-LSNF-DYSIKYKKGTQIPVADALSRL 149 (210)
Q Consensus 102 ~l~~~~~~~~~~~~~rl~----rw~~~-L~~f-~~~I~y~~Gk~n~~aD~LSR~ 149 (210)
..++..-.. .+..+. +.... +..| .+++.|+++..|..||.|.+.
T Consensus 83 ~~i~~~~~~---~~~~l~~~~~~i~~l~~~~~~~v~~~~V~~~~N~~AD~LA~~ 133 (140)
T 3u3g_D 83 RQMQGVYKV---KEPTLKEKFAKIAHIKMERVPNLVFVHIPREKNARADELVNE 133 (140)
T ss_dssp HHHTTSSCC---CCGGGHHHHHHHHHHHHHHCTTCEEEECCGGGGHHHHHHHHH
T ss_pred HHhCCCccc---CCHHHHHHHHHHHHHhhcCCCcEEEEEcCchhhHHHHHHHHH
Confidence 988863211 222222 22233 4565 799999999999999998763
No 8
>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=97.60 E-value=9.2e-05 Score=58.33 Aligned_cols=114 Identities=15% Similarity=-0.009 Sum_probs=70.5
Q ss_pred ccCCCCceEEEecCCCC------ceeEEEEeecccc--ccccCCCchhhHHHHHHHhhheeccc-eEEEeecchhhHhhh
Q psy10407 34 GFTNYNFYRKDFLDGRI------SCGGVMLMIHKKY--FSQPVPGSPVEMGCCTNSLHFKYIHC-SLNEATDNKALVTLF 104 (210)
Q Consensus 34 ~~~~~~~~~l~tDAS~~------~~GavL~q~~~~~--~s~~~~y~~~ekellaiv~~~~yl~g-~f~v~TDh~~L~~l~ 104 (210)
.|.++..+.++||.|.. |+|+++......+ ......-+...-|+.|++.++.++.+ +++|+||.+-+...+
T Consensus 17 ~P~~~~~i~iytDGs~~~npG~~g~G~vi~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~~~~~v~I~tDS~~vi~~i 96 (165)
T 3p1g_A 17 QPIPDADYTWYTDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMAEGKKLNVYTDSRYAFATA 96 (165)
T ss_dssp SCCTTCSEEEEEEEEEEEETTEEEEEEEEECSSCEEEEEEECTTCCHHHHHHHHHHHHHHHTBTSEEEEEECCHHHHHHH
T ss_pred CCCCCCCEEEEEEcccCCCCCceEEEEEEEECCEEEEEecCCCCCcHHHHHHHHHHHHHHHccCceEEEEEchHHHHhhh
Confidence 45555579999997764 4677776644321 11112224567899999998855556 999999998777655
Q ss_pred cccCcCCCccchhccchhhh---h-ccccceeeeecCCC---------CCCccccCCC
Q psy10407 105 GEDKAVPMLSSARLQRWSLI---L-SNFDYSIKYKKGTQ---------IPVADALSRL 149 (210)
Q Consensus 105 ~~~~~~~~~~~~rl~rw~~~---L-~~f~~~I~y~~Gk~---------n~~aD~LSR~ 149 (210)
-.....+...+.. -|... + ...++.+.+++|.. |-.||.|.|.
T Consensus 97 w~~~~g~~v~n~d--l~~~l~~~l~~~~~v~~~wVkgH~g~~~~~~~gNe~AD~LA~~ 152 (165)
T 3p1g_A 97 HVHSEGREIKNKN--EILALLKALFLPKRLSIIHCPGHQKGNSAEARGNRMADQAARE 152 (165)
T ss_dssp HSCCCSCCCSSHH--HHHHHHHHTTSBSEEEEEECCSSCCSCSHHHHHHHHHHHHHHH
T ss_pred hcccCCCcccCHH--HHHHHHHHHhcCCceEEEEecCCCCCCcCcchHHHHHHHHHHH
Confidence 2111111112222 14333 2 44578899999976 6778887653
No 9
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=97.51 E-value=2e-05 Score=61.98 Aligned_cols=112 Identities=12% Similarity=0.018 Sum_probs=68.3
Q ss_pred CceEEEecCCCC------ceeEEEEeecc--ccccccCCCchhhHHHHHHHhhheec-cc-eEEEeecchhhHhhhccc-
Q psy10407 39 NFYRKDFLDGRI------SCGGVMLMIHK--KYFSQPVPGSPVEMGCCTNSLHFKYI-HC-SLNEATDNKALVTLFGED- 107 (210)
Q Consensus 39 ~~~~l~tDAS~~------~~GavL~q~~~--~~~s~~~~y~~~ekellaiv~~~~yl-~g-~f~v~TDh~~L~~l~~~~- 107 (210)
..+.++||.|.. |+|+++..... .+......-+..+-|+.|++.++.++ .. +++|+||.+.+...++..
T Consensus 7 ~~i~iytDGs~~~n~g~~G~G~v~~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~~~~~~v~I~tDS~~vi~~i~~~w 86 (166)
T 1ril_A 7 KRVALFTDGACLGNPGPGGWAALLRFHAHEKLLSGGEACTTNNRMELKAAIEGLKALKEPCEVDLYTDSHYLKKAFTEGW 86 (166)
T ss_dssp CCCCEEEEEEESSTTEEEEEEEEECBTTBCCEECCEEEEECHHHHHHHHHHHHHHSCCSCCEEEEECCCHHHHHHHHSSH
T ss_pred ccEEEEECccccCCCCCEEEEEEEEECCEEEEEecCCCCCcHHHHHHHHHHHHHHHhccCCeEEEEeChHHHHHHHhhhH
Confidence 468899997764 56677654322 11111112235678999999988444 34 999999999887666551
Q ss_pred ----------CcC-CCccchh-ccchhhhhccccceeeeecCC----CCCCccccCCCC
Q psy10407 108 ----------KAV-PMLSSAR-LQRWSLILSNFDYSIKYKKGT----QIPVADALSRLP 150 (210)
Q Consensus 108 ----------~~~-~~~~~~r-l~rw~~~L~~f~~~I~y~~Gk----~n~~aD~LSR~p 150 (210)
... ....+.. ..+....+..+++.+.+++|. .|..||.|.|.-
T Consensus 87 ~~~W~~~~w~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~g~~~Ne~AD~LAk~a 145 (166)
T 1ril_A 87 LEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFVKGHTGHPENERVDREARRQ 145 (166)
T ss_dssp HHHHHHTTSBCTTSSBCTTHHHHHHHHHHHTTSEEECCCCCGGGSCTHHHHHHHHHHHH
T ss_pred HHHHHhcccccccCCccCcHHHHHHHHHHHhcCeEEEEEeeCCCCchhHHHHHHHHHHH
Confidence 000 0011222 222233456678899999964 788899988644
No 10
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=97.51 E-value=4.3e-05 Score=59.52 Aligned_cols=111 Identities=11% Similarity=0.025 Sum_probs=68.3
Q ss_pred CceEEEecCCCC------ceeEEEEeecc--ccccccCCCchhhHHHHHHHhhheec-cc-eEEEeecchhhHhhhcc--
Q psy10407 39 NFYRKDFLDGRI------SCGGVMLMIHK--KYFSQPVPGSPVEMGCCTNSLHFKYI-HC-SLNEATDNKALVTLFGE-- 106 (210)
Q Consensus 39 ~~~~l~tDAS~~------~~GavL~q~~~--~~~s~~~~y~~~ekellaiv~~~~yl-~g-~f~v~TDh~~L~~l~~~-- 106 (210)
..+.++||.|.. |+|+++..... .+......-+..+-|+.|++.++.++ .+ +++|+||.+.+...++.
T Consensus 5 ~~i~iytDGs~~~n~g~~G~G~v~~~~~~~~~~~~~~~~~tn~~aEl~A~~~AL~~~~~~~~v~I~tDS~~vi~~i~~w~ 84 (158)
T 2e4l_A 5 KLIHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGFSLTTNNRMELLAPIVALEALKEPCKIILTSDSQYMRQGIMTWI 84 (158)
T ss_dssp CEEEEEEEEEESSSSEEEEEEEEEEETTEEEEEEEEEEEECHHHHHHHHHHHHHHTCSSCCEEEEEECCHHHHHHHHTHH
T ss_pred CeEEEEEcccccCCCCcEEEEEEEEECCEEEEEecCcCCCccHHHHHHHHHHHHHHhccCCeEEEEeCHHHHHHHHHHHH
Confidence 468899997764 67777764322 11111112235678999999987333 34 99999999888776654
Q ss_pred ------c--CcC-CCccchhc-cchhhhhccccceeeeecCC----CCCCccccCCC
Q psy10407 107 ------D--KAV-PMLSSARL-QRWSLILSNFDYSIKYKKGT----QIPVADALSRL 149 (210)
Q Consensus 107 ------~--~~~-~~~~~~rl-~rw~~~L~~f~~~I~y~~Gk----~n~~aD~LSR~ 149 (210)
. ... ....+..+ .+-...+..+++.+.+++|. .|..||.|.|.
T Consensus 85 ~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~g~~~Ne~AD~LAk~ 141 (158)
T 2e4l_A 85 HGWKKKGWMTSNRTPVKNVDLWKRLDKAAQLHQIDWRWVKGHAGHAENERCDQLARA 141 (158)
T ss_dssp HHHHHTTTBCTTSSBCTTHHHHHHHHHHHTTSEEEEEECCTTCCCHHHHHHHHHHHH
T ss_pred HHHHHccccccCCCcccCHHHHHHHHHHHccCcEEEEEccCCCCchhHHHHHHHHHH
Confidence 1 000 00122222 22234456678999999975 67788888764
No 11
>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=97.46 E-value=5.9e-05 Score=58.47 Aligned_cols=110 Identities=14% Similarity=0.120 Sum_probs=67.7
Q ss_pred ceEEEecCCCC------ceeEEEEeecc--ccccccCCCchhhHHHHHHHhhheec-cc-eEEEeecchhhHhhhcc---
Q psy10407 40 FYRKDFLDGRI------SCGGVMLMIHK--KYFSQPVPGSPVEMGCCTNSLHFKYI-HC-SLNEATDNKALVTLFGE--- 106 (210)
Q Consensus 40 ~~~l~tDAS~~------~~GavL~q~~~--~~~s~~~~y~~~ekellaiv~~~~yl-~g-~f~v~TDh~~L~~l~~~--- 106 (210)
.+.++||.|.. |+|+++..... .+......-+..+-|+.|++.++.++ .. +++|+||.+.+...++.
T Consensus 4 ~~~iytDGs~~~n~~~~G~G~v~~~~~~~~~~~~~~~~~tn~~aEl~A~~~aL~~~~~~~~v~I~tDS~~vi~~i~~w~~ 83 (155)
T 1jl1_A 4 QVEIFTAGSALGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKEHAEVILSTDSQYVRQGITQWIH 83 (155)
T ss_dssp CEEEEEEEEESSTTEEEEEEEEEEETTEEEEEEEEEEEECHHHHHHHHHHHHHHTCCSCCEEEEEECCHHHHHHHHTTHH
T ss_pred eEEEEEccccCCCCCceEEEEEEEECCeEEEEecCCCCCcHHHHHHHHHHHHHHHhCcCCcEEEEeCHHHHHHHHHHHHH
Confidence 57899997664 56777765332 11111112235678999999988443 34 99999999988877764
Q ss_pred -----c--Cc-CCCccchhc-cchhhhhccccceeeeecCC----CCCCccccCCC
Q psy10407 107 -----D--KA-VPMLSSARL-QRWSLILSNFDYSIKYKKGT----QIPVADALSRL 149 (210)
Q Consensus 107 -----~--~~-~~~~~~~rl-~rw~~~L~~f~~~I~y~~Gk----~n~~aD~LSR~ 149 (210)
. .. .....+..+ .+....+..+++.+.|++|. .|..||.|.|.
T Consensus 84 ~W~~n~~~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~g~~~Ne~AD~LA~~ 139 (155)
T 1jl1_A 84 NWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHAGHPENERADELARA 139 (155)
T ss_dssp HHHHTTTBCTTSCBCTTHHHHHHHHHHTTTCEEEEEECCSSTTCHHHHHHHHHHHH
T ss_pred HHhhcccccccCCccCCHHHHHHHHHHHccCceEEEEcCCCCCCHHHHHHHHHHHH
Confidence 1 00 000112222 22233455678899999975 68889988764
No 12
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=97.44 E-value=4.6e-05 Score=58.88 Aligned_cols=112 Identities=10% Similarity=-0.071 Sum_probs=66.9
Q ss_pred CCceEEEecCCCC---------ceeEEEEeeccccccccC--CCchhhHHHHHHHhhheec--cc--eEEEeecchhhHh
Q psy10407 38 YNFYRKDFLDGRI---------SCGGVMLMIHKKYFSQPV--PGSPVEMGCCTNSLHFKYI--HC--SLNEATDNKALVT 102 (210)
Q Consensus 38 ~~~~~l~tDAS~~---------~~GavL~q~~~~~~s~~~--~y~~~ekellaiv~~~~yl--~g--~f~v~TDh~~L~~ 102 (210)
...+.++||.|.. |+|.++......-.+..+ .-+..+-|+.|++.++.++ .| +++|+||.+.+..
T Consensus 5 ~~~~~iytDGs~~~n~~~~~~aG~Gvv~~~~~~~~~~~~l~~~~tn~~aEl~A~~~aL~~~~~~~~~~v~i~tDS~~vi~ 84 (154)
T 2qkb_A 5 GDFVVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQAKTQNINKLVLYTNSMFTIN 84 (154)
T ss_dssp TTEEEEEEEEEEETTTSSSCEEEEEEECSTTCTTCEEEECCSSCCHHHHHHHHHHHHHHHHHHTTCCEEEEEESCHHHHH
T ss_pred CCeEEEEEccCcCCCCCCCCcEEEEEEEECCCceeEEeecCCCCchHHHHHHHHHHHHHHHHhCCCceEEEEECcHHHHh
Confidence 3568899997643 455555422111112222 2346678999999987333 34 8999999988876
Q ss_pred hhcc----------cCcCC-Cccchh-ccchhhhhccccceeeeecCCC----CCCccccCCC
Q psy10407 103 LFGE----------DKAVP-MLSSAR-LQRWSLILSNFDYSIKYKKGTQ----IPVADALSRL 149 (210)
Q Consensus 103 l~~~----------~~~~~-~~~~~r-l~rw~~~L~~f~~~I~y~~Gk~----n~~aD~LSR~ 149 (210)
.++. +.... ...+.. +.+-...+..+++.+.+++|.. |..||.|.|.
T Consensus 85 ~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~~~~v~~~~V~~H~g~~~N~~AD~LA~~ 147 (154)
T 2qkb_A 85 GITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQGMDIQWMHVPGHSGFIGNEEADRLARE 147 (154)
T ss_dssp HHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHTTCEEEEEECCTTSSCHHHHHHHHHHHH
T ss_pred hhhhhHHHHHhccccccCCCccccHHHHHHHHHHHcCCceEEEEccCCCCCHhHHHHHHHHHH
Confidence 6653 11000 011222 1222333567889999999965 8889988763
No 13
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=97.44 E-value=3.1e-05 Score=59.24 Aligned_cols=110 Identities=14% Similarity=0.042 Sum_probs=65.9
Q ss_pred CceEEEecCCC------CceeEEEEeecc--ccccccCCCchhhHHHHHHHhhheecc-c-eEEEeecchhhHhhhccc-
Q psy10407 39 NFYRKDFLDGR------ISCGGVMLMIHK--KYFSQPVPGSPVEMGCCTNSLHFKYIH-C-SLNEATDNKALVTLFGED- 107 (210)
Q Consensus 39 ~~~~l~tDAS~------~~~GavL~q~~~--~~~s~~~~y~~~ekellaiv~~~~yl~-g-~f~v~TDh~~L~~l~~~~- 107 (210)
..+.++||.|. .|+|+++..... .+......-+..+-|+.|++.++.++. . +++|+||.+.+...++..
T Consensus 3 ~~i~iytDGs~~~n~g~~g~G~v~~~~~~~~~~~~~~~~~Tnn~aEl~A~~~AL~~~~~~~~v~I~tDS~~vi~~i~~~w 82 (146)
T 3h08_A 3 KTITIYTDGAASGNPGKGGWGALLMYGSSRKEISGYDPATTNNRMELMAAIKGLEALKEPARVQLYSDSAYLVNAMNEGW 82 (146)
T ss_dssp CEEEEEEEEEESSTTEEEEEEEEEEETTEEEEEEEEEEEECHHHHHHHHHHHHHHTCSSCCEEEEEESCHHHHHHHHSSH
T ss_pred ceEEEEEecCCCCCCCceEEEEEEEECCeeEEeecCCCCCcHHHHHHHHHHHHHHhcCccCcEEEEeChHHHHHHHHHHH
Confidence 56899999773 356676654322 111111122355689999999884333 5 999999999887766641
Q ss_pred -----------CcCCCccchhc-cchhhhhccccceeeeecCC----CCCCccccCC
Q psy10407 108 -----------KAVPMLSSARL-QRWSLILSNFDYSIKYKKGT----QIPVADALSR 148 (210)
Q Consensus 108 -----------~~~~~~~~~rl-~rw~~~L~~f~~~I~y~~Gk----~n~~aD~LSR 148 (210)
.......+..+ .+-...+..+++.+.+++|. .|..||.|.|
T Consensus 83 ~~~W~~~~w~~~~~~~v~n~~l~~~~~~~~~~~~v~~~~V~gH~g~~~N~~AD~LA~ 139 (146)
T 3h08_A 83 LKRWVKNGWKTAAKKPVENIDLWQEILKLTTLHRVTFHKVKGHSDNPYNSRADELAR 139 (146)
T ss_dssp HHHHHHTTCC----CCCTTHHHHHHHHHHHHHSEEEEEECCC-CCSHHHHHHHHHHH
T ss_pred HHHHHHCCCccCCCCCcCCHHHHHHHHHHHhhCceEEEEcCCcCCcHhHHHHHHHHH
Confidence 00000112222 22233456678889999964 5777888765
No 14
>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=97.17 E-value=7.8e-05 Score=57.37 Aligned_cols=108 Identities=9% Similarity=-0.112 Sum_probs=66.3
Q ss_pred CCceEEEecCCC----CceeEEEEeecc--cccc-cc--C---CCchhhHHHHHHHhhheec--cc-eEEEeecchhhHh
Q psy10407 38 YNFYRKDFLDGR----ISCGGVMLMIHK--KYFS-QP--V---PGSPVEMGCCTNSLHFKYI--HC-SLNEATDNKALVT 102 (210)
Q Consensus 38 ~~~~~l~tDAS~----~~~GavL~q~~~--~~~s-~~--~---~y~~~ekellaiv~~~~yl--~g-~f~v~TDh~~L~~ 102 (210)
...+.++||.|. .|+|+++.+... .+.. .. . .-...+-|+.|++.++.+. .| +++|+||.+.+..
T Consensus 4 ~~~i~iytDGs~~~g~~G~G~vi~~~g~~~~~~~~~~~~~~~~~~tNn~aEl~A~~~AL~~a~~~~~~v~I~tDS~~i~~ 83 (147)
T 2kq2_A 4 RTEYDVYTDGSYVNGQYAWAYAFVKDGKVHYEDADVGKNPAAATMRNVAGEIAAALYAVKKASQLGVKIRILHDYAGIAF 83 (147)
T ss_dssp TSCCEEECCCCCBTTBCEEEEEEEETTEEEEEEEEECCCGGGGGTCTTHHHHHHHHHHHHHHHHHTCCCCBSSCCSTHHH
T ss_pred CCeEEEEECCCCCCCCcEEEEEEEECCEEEEEEeccccccccccccHHHHHHHHHHHHHHHHHHCCCeEEEEECcHHHHH
Confidence 356889999875 688888876433 1111 11 0 1245678999999877332 36 8999999998876
Q ss_pred hhcccCcCCCccchhccchhh---hhccccceeeeecCC----CCCCccccCCC
Q psy10407 103 LFGEDKAVPMLSSARLQRWSL---ILSNFDYSIKYKKGT----QIPVADALSRL 149 (210)
Q Consensus 103 l~~~~~~~~~~~~~rl~rw~~---~L~~f~~~I~y~~Gk----~n~~aD~LSR~ 149 (210)
.+...-.. .++....+.. .|.. ++.+.++||. .|..||.|.|.
T Consensus 84 w~~~~w~~---~~~~~~~~~~l~~~l~~-~v~~~wV~gH~g~~~Ne~AD~LA~~ 133 (147)
T 2kq2_A 84 WATGEWKA---KNEFTQAYAKLMNQYRG-IYSFEKVKAHSGNEFNDYVDMKAKS 133 (147)
T ss_dssp HTTSSSSC---CHHHHHHHHCGGGGGST-TCCBCCCCCCCCCHHHHHHHHHHHH
T ss_pred HHhCCCcc---CCcchHHHHHHHHHhcC-CeeEEEecCcCCCcchHHHHHHHHH
Confidence 55431100 1222222222 2333 6888888985 48889988764
No 15
>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=97.10 E-value=0.00024 Score=54.95 Aligned_cols=111 Identities=10% Similarity=-0.066 Sum_probs=65.8
Q ss_pred CceEEEecCCC------CceeEEEEeeccccccccCCCchhhHHHHHHHhhheeccc-eEEEeecchhhHhhhccc----
Q psy10407 39 NFYRKDFLDGR------ISCGGVMLMIHKKYFSQPVPGSPVEMGCCTNSLHFKYIHC-SLNEATDNKALVTLFGED---- 107 (210)
Q Consensus 39 ~~~~l~tDAS~------~~~GavL~q~~~~~~s~~~~y~~~ekellaiv~~~~yl~g-~f~v~TDh~~L~~l~~~~---- 107 (210)
..+.++||.|. .|+|+++........+ ...-+...-|+.|++.++..+ + +++|+||.+.+...++.-
T Consensus 11 ~~~~iytDGs~~~n~g~~g~G~v~~~~~~~~~~-~~~~Tnn~aEl~A~i~AL~~~-~~~v~i~tDS~~v~~~i~~w~~~W 88 (150)
T 3qio_A 11 GAETFYVDGAANRETKLGKAGYVTNRGRQKVVT-LTDTTNQKTELQAIYLALQDS-GLEVNIVTDSQYALGIITQWIHNW 88 (150)
T ss_dssp TCEEEEEEEEECTTTCCEEEEEEETTSCEEEEE-ESSCCHHHHHHHHHHHHHHHS-CSEEEEEESCHHHHHHHHHHHHHH
T ss_pred CCEEEEEccCCCCCCCCeEEEEEEEcCCEEEEe-CCCCCHHHHHHHHHHHHHHhC-CCcEEEEeCcHHHHHHHHHHHHHH
Confidence 35889999774 3566666432221111 122345568999999988443 7 999999988777655431
Q ss_pred -------CcCCCccchhccch-hhhh-ccccceeeeecCCC----CCCccccCCCCC
Q psy10407 108 -------KAVPMLSSARLQRW-SLIL-SNFDYSIKYKKGTQ----IPVADALSRLPL 151 (210)
Q Consensus 108 -------~~~~~~~~~rl~rw-~~~L-~~f~~~I~y~~Gk~----n~~aD~LSR~p~ 151 (210)
...+...+..+.+- ...+ ...++.+.+++|.. |..||.|.|.-.
T Consensus 89 ~~~gw~~~~g~~v~n~~l~~~l~~~l~~~~~v~~~wV~gH~g~~~Ne~AD~LA~~a~ 145 (150)
T 3qio_A 89 KKRGWKTADKKPVKNVDLVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGI 145 (150)
T ss_dssp CC------------CHHHHHHHHHHHTTCSEEEEEECCTTSCCHHHHHHHHHHHTTT
T ss_pred hhcCcCcCcCcccccHHHHHHHHHHHhhcCceEEEEccCcCCChhHHHHHHHHHHHH
Confidence 00000112222111 1123 34568899999987 999999987543
No 16
>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=96.14 E-value=0.0071 Score=55.81 Aligned_cols=106 Identities=10% Similarity=-0.039 Sum_probs=66.0
Q ss_pred CceEEEecCCC------CceeEEEEeeccccccccCCCchhhHHHHHHHhhheeccc-eEEEeecchhhHhhhcccCcCC
Q psy10407 39 NFYRKDFLDGR------ISCGGVMLMIHKKYFSQPVPGSPVEMGCCTNSLHFKYIHC-SLNEATDNKALVTLFGEDKAVP 111 (210)
Q Consensus 39 ~~~~l~tDAS~------~~~GavL~q~~~~~~s~~~~y~~~ekellaiv~~~~yl~g-~f~v~TDh~~L~~l~~~~~~~~ 111 (210)
..+.++||.|. .|+|+++........ ....-+..+-|+.|++.++..+ + ++.|+||.+.+...++....
T Consensus 438 ~~~~iytDGs~~~n~g~~g~g~v~~~~~~~~~-~~~~~TNn~aEl~Ai~~aL~~~-~~~v~I~tDS~~vi~~i~~~~~-- 513 (557)
T 2zd1_A 438 GAETFYVDGAANRETKLGKAGYVTNKGRQKVV-PLTNTTNQKTELQAIYLALQDS-GLEVNIVTDSQYALGIIQAQPD-- 513 (557)
T ss_dssp TSCEEEEEEEECTTTCCEEEEEEETTSCEEEE-EECSCCHHHHHHHHHHHHHHHS-CSEEEEEECCHHHHHHHTTCCS--
T ss_pred CCEEEEEccCCCCCCCceEEEEEEECCcEEEe-cCCCCCHHHHHHHHHHHHHHhC-CCcEEEEeChHHHHHHHhcCCc--
Confidence 35899999764 345555542111111 1223346678999999988444 7 99999999988888775331
Q ss_pred Cccchhcc-chh-hhhccccceeeeecCC----CCCCccccCCC
Q psy10407 112 MLSSARLQ-RWS-LILSNFDYSIKYKKGT----QIPVADALSRL 149 (210)
Q Consensus 112 ~~~~~rl~-rw~-~~L~~f~~~I~y~~Gk----~n~~aD~LSR~ 149 (210)
..+..+. +.. ......++.+.|++|. .|..||.|.+.
T Consensus 514 -~~~~~l~~~~~~~l~~~~~v~~~wV~~H~g~~~Ne~AD~LA~~ 556 (557)
T 2zd1_A 514 -KSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSA 556 (557)
T ss_dssp -EESSHHHHHHHHHHHHCSEEEEEECCSSSCCTTCCGGGGCC--
T ss_pred -cCCHHHHHHHHHHHhcCCCEEEEEcCCCCCChhHHHHHHHHhc
Confidence 1122222 222 2233457889999995 59999999874
No 17
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=96.08 E-value=0.0046 Score=48.52 Aligned_cols=111 Identities=14% Similarity=-0.077 Sum_probs=57.7
Q ss_pred CCceEEEecCCC-----------CceeEEEEeecc------ccccccCCCchhhHHHHHHHhhh--eeccc-eEEEeecc
Q psy10407 38 YNFYRKDFLDGR-----------ISCGGVMLMIHK------KYFSQPVPGSPVEMGCCTNSLHF--KYIHC-SLNEATDN 97 (210)
Q Consensus 38 ~~~~~l~tDAS~-----------~~~GavL~q~~~------~~~s~~~~y~~~ekellaiv~~~--~yl~g-~f~v~TDh 97 (210)
..+.++|||-|. .|+|.++..... .+...+-+-....-|+.|+.... ..-.+ +++|+||.
T Consensus 5 ~~evviYTDGsc~gNpgp~~~~~aG~Gv~~~~~~~~~~~~~~~~~~tnn~te~~Aei~Al~~al~~al~~~~~v~I~TDS 84 (165)
T 2lsn_A 5 QYEGVFYTDGSAIKSPDPTKSNNAGMGIVHATYKPEYQVLNQWSIPLGNHTAQMAEIAAVEFACKKALKIPGPVLVITDS 84 (165)
T ss_dssp CCSEEEEEEEEEEECSSCTTCEEEEEEEEEECCSSSCCEEEEEEEEESSCCHHHHHHHHHHHHHHHHHHSSSCEEEEESC
T ss_pred CceEEEEEcCCCCCCCCCCCCCcEEEEEEEEECCCccEEeccccCCchHHHHHHHHHHHHHHHHHHHhcCCCeEEEEeCh
Confidence 356899999663 467777754332 11111111112223444554443 12245 89999999
Q ss_pred hhhHhhhcc----------cCc-CCCccchhcc-chhhhhccc-cceeeeecCCC----------CCCccccCC
Q psy10407 98 KALVTLFGE----------DKA-VPMLSSARLQ-RWSLILSNF-DYSIKYKKGTQ----------IPVADALSR 148 (210)
Q Consensus 98 ~~L~~l~~~----------~~~-~~~~~~~rl~-rw~~~L~~f-~~~I~y~~Gk~----------n~~aD~LSR 148 (210)
+-+...++. ++. .+-..+.-+- +-...+..+ ++++.|++|.. |..||.|.|
T Consensus 85 ~Yvi~~it~w~~~Wk~ngw~~~~~~pVkN~dL~~~l~~~~~~~~~v~~~~VkgH~g~~~~~~~~gNe~AD~LA~ 158 (165)
T 2lsn_A 85 FYVAESANKELPYWKSNGFVNNKKKPLKHISKWKSIAECLSMKPDITIQHEKGHQPTNTSIHTEGNALADKLAT 158 (165)
T ss_dssp HHHHHHHHTHHHHHHHTTSCSCSSSCCSSHHHHHHHHHHHHHCTTCEEEECCSSSCSSSCHHHHHHHHHHHHHH
T ss_pred HHHHhhhhhhhhhheeccccccCCCcccCHHHHHHHHHHHhCCCCEEEEEEeCCCCccCCCCChHHHHHHHHHH
Confidence 887765542 110 0111222221 112234433 68899999864 667887755
No 18
>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=93.64 E-value=0.044 Score=50.41 Aligned_cols=106 Identities=8% Similarity=-0.075 Sum_probs=64.7
Q ss_pred CceEEEecCCC------CceeEEEEeeccccccccCCCchhhHHHHHHHhhheeccc-eEEEeecchhhHhhhcccCcCC
Q psy10407 39 NFYRKDFLDGR------ISCGGVMLMIHKKYFSQPVPGSPVEMGCCTNSLHFKYIHC-SLNEATDNKALVTLFGEDKAVP 111 (210)
Q Consensus 39 ~~~~l~tDAS~------~~~GavL~q~~~~~~s~~~~y~~~ekellaiv~~~~yl~g-~f~v~TDh~~L~~l~~~~~~~~ 111 (210)
....++||.|. .|+|+++...... ......-+..+-|+.|++.++.. .+ ++.|+||.+-+...++.-..
T Consensus 435 ~~~~iytDGs~~~n~g~~g~G~v~~~~~~~-~~~~~~~TNn~aEl~A~i~aL~~-~~~~v~I~tDS~~v~~~i~~~~~-- 510 (555)
T 1mu2_A 435 GAETFYTDGSCNRQSKEGKAGYVTDRGKDK-VKKLEQTTNQQAELEAFAMALTD-SGPKVNIIVDSQYVMGIVASQPT-- 510 (555)
T ss_dssp TCEEEEEEEEECTTTCCEEEEEEETTSCEE-EEEESSCCHHHHHHHHHHHHHHT-SCSEEEEEESCHHHHHHHHTCCS--
T ss_pred CceEEEEcccccCCCCCceEEEEEEeCCEe-eccCCCCCHHHHHHHHHHHHHHc-CCCeEEEEEehHHHHHHHhcccc--
Confidence 45899999763 2455555432211 11111233556899999998844 45 99999999988877764221
Q ss_pred Cccchhccch-hhh-hccccceeeeecCC----CCCCccccCCC
Q psy10407 112 MLSSARLQRW-SLI-LSNFDYSIKYKKGT----QIPVADALSRL 149 (210)
Q Consensus 112 ~~~~~rl~rw-~~~-L~~f~~~I~y~~Gk----~n~~aD~LSR~ 149 (210)
..+..+.+- ... ....++.+.|++|. .|..||.|.+.
T Consensus 511 -~~~~~l~~~~~~~~~~~~~v~~~wV~~H~g~~~Ne~AD~LA~~ 553 (555)
T 1mu2_A 511 -ESESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQ 553 (555)
T ss_dssp -EESCHHHHHHHHHHHHCSEEEEEECCSSSCCTTHHHHHHHHHT
T ss_pred -cccHHHHHHHHHHhccCCcEEEEEEECCCCChhHHHHHHHHHh
Confidence 122222221 122 23456889999994 58889988764
No 19
>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=80.91 E-value=0.42 Score=36.25 Aligned_cols=69 Identities=9% Similarity=0.032 Sum_probs=44.4
Q ss_pred CceEEEecCCCC------ceeEEEEeecccc-ccccC-CCchhhHHHHHHHhhheec--cc-eEEEeecchhhHhhhccc
Q psy10407 39 NFYRKDFLDGRI------SCGGVMLMIHKKY-FSQPV-PGSPVEMGCCTNSLHFKYI--HC-SLNEATDNKALVTLFGED 107 (210)
Q Consensus 39 ~~~~l~tDAS~~------~~GavL~q~~~~~-~s~~~-~y~~~ekellaiv~~~~yl--~g-~f~v~TDh~~L~~l~~~~ 107 (210)
..+.|+||.|.. |+|+++......+ .+... .-+..+.|+.|++.++.++ .| ++.|+||.+-+...++..
T Consensus 10 ~~~~iy~DGa~~gNpG~~G~G~vl~~~g~~~~~~~~~~~~TNN~aEl~A~i~aL~~~~~~~~~v~i~tDS~~vi~w~~~~ 89 (142)
T 1zbf_A 10 IWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSNSQTAIKWVKDK 89 (142)
T ss_dssp CSSSEEEEEEECSSSEEEEEEEEETTTCCEEEECCCEEEECHHHHHHHHHHHHHHHHHHTTCCCCEEESCHHHHHHHHHT
T ss_pred CeEEEEEeeccCCCCCCeEEEEEEEeCCEEEEEecccCCcCcHHHHHHHHHHHHHHHHhCCCeEEEEEehHHHHHHHHcC
Confidence 457899996543 6778876322211 11111 2246678999999877333 35 899999999888766644
No 20
>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=80.36 E-value=0.37 Score=36.38 Aligned_cols=66 Identities=8% Similarity=-0.049 Sum_probs=42.0
Q ss_pred eEEEecCCC------CceeEEEEeecc--ccccccCCCchhhHHHHHHHhhheec--cc-eEEEeecchhhHhhhcc
Q psy10407 41 YRKDFLDGR------ISCGGVMLMIHK--KYFSQPVPGSPVEMGCCTNSLHFKYI--HC-SLNEATDNKALVTLFGE 106 (210)
Q Consensus 41 ~~l~tDAS~------~~~GavL~q~~~--~~~s~~~~y~~~ekellaiv~~~~yl--~g-~f~v~TDh~~L~~l~~~ 106 (210)
..|+||.|. .|+|||+..... ......-.-.-.+.|++|++.++..+ .| .++|+||.+-+...+..
T Consensus 6 ~~iytDGac~GNPGp~G~ggV~~~~g~~~~~~g~~~~tTNN~aEl~A~i~aL~~l~~~~~~v~i~tDSqyVi~wi~~ 82 (134)
T 4htu_A 6 ESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSNSQTAIKWVKD 82 (134)
T ss_dssp SSEEEEEEEETTTEEEEEEEEETTTCCEEEEEEEEEEECHHHHHHHHHHHHHHHHHHTTCCCCEEESCHHHHHHHHH
T ss_pred eEEEEeeccCCCCCCeEEEEEEEECCEEEEEecCCCCCchHHHHHHHHHHHHHHHHhCCCCEEEEcchHHHHHHHHc
Confidence 468999654 356777755222 11111112235668999999987444 36 78999999988776653
No 21
>1cmk_I CAMP-dependent protein kinase inhibitor, alpha form; phosphotransferase; HET: TPO SEP MYR; 2.90A {Homo sapiens}
Probab=24.05 E-value=26 Score=18.65 Aligned_cols=15 Identities=20% Similarity=0.328 Sum_probs=11.8
Q ss_pred eecCCCCCCccccCC
Q psy10407 134 YKKGTQIPVADALSR 148 (210)
Q Consensus 134 y~~Gk~n~~aD~LSR 148 (210)
-|.|..|.++|.+..
T Consensus 10 ~RtGRRNAlpdi~~~ 24 (26)
T 1cmk_I 10 GRTGRRNAIHDILXX 24 (26)
T ss_pred Cccccccccchhhhc
Confidence 367899999998764
Done!