Query psy3199
Match_columns 1144
No_of_seqs 296 out of 935
Neff 3.3
Searched_HMMs 29240
Date Fri Aug 16 18:49:51 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3199.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/3199hhsearch_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 99.9 7.6E-28 2.6E-32 267.5 -13.9 246 686-942 168-428 (455)
2 2zd1_A Reverse transcriptase/r 99.9 6.1E-23 2.1E-27 234.3 9.0 225 685-923 149-386 (557)
3 2zd1_B P51 RT; P51/P66, hetero 99.9 2E-22 7E-27 224.3 7.1 240 685-941 147-404 (428)
4 1mu2_A HIV-2 RT; HIV-2 reverse 99.8 1.3E-21 4.5E-26 223.3 7.5 277 686-987 148-553 (555)
5 3u3g_D Ribonuclease H, RNAse H 99.0 2.5E-10 8.5E-15 106.1 5.7 119 868-987 3-133 (140)
6 3hst_B Protein RV2228C/MT2287; 99.0 3.3E-10 1.1E-14 106.1 6.0 118 868-987 3-129 (141)
7 2ehg_A Ribonuclease HI; RNAse 98.9 7.2E-10 2.5E-14 106.1 3.4 116 869-987 2-130 (149)
8 3h08_A RNH (ribonuclease H); R 98.7 6.9E-09 2.4E-13 99.4 4.8 116 867-987 3-140 (146)
9 2e4l_A Ribonuclease HI, RNAse 98.7 1.3E-08 4.4E-13 99.7 5.6 116 867-987 5-141 (158)
10 2qkb_A Ribonuclease H1, HS-RNA 98.6 2.5E-08 8.6E-13 96.6 5.8 118 866-987 5-147 (154)
11 1jl1_A Ribonuclease HI; RNAse 98.6 2.2E-08 7.4E-13 97.7 5.4 115 868-987 4-139 (155)
12 3qio_A GAG-POL polyprotein; RN 98.6 3.8E-08 1.3E-12 96.4 6.1 114 866-988 10-144 (150)
13 3p1g_A Xenotropic murine leuke 98.6 4.6E-08 1.6E-12 97.6 6.3 117 866-987 21-152 (165)
14 1ril_A Ribonuclease H; hydrola 98.6 2.1E-08 7.1E-13 99.3 3.6 117 867-988 7-145 (166)
15 2lsn_A Reverse transcriptase; 98.4 1.8E-07 6E-12 93.6 5.8 121 866-987 5-159 (165)
16 2kq2_A Ribonuclease H-related 98.3 6.3E-08 2.2E-12 94.0 -1.8 117 865-987 3-133 (147)
17 1zbf_A Ribonuclease H-related 98.0 8.1E-06 2.8E-10 80.1 6.1 116 866-983 9-139 (142)
18 4htu_A Ribonuclease H, RNAse H 97.7 4.8E-05 1.6E-09 74.7 6.2 74 868-943 5-84 (134)
19 3fsi_A RT, reverse transcripta 96.6 0.00013 4.4E-09 75.8 -3.4 85 684-769 162-250 (255)
20 2zd1_A Reverse transcriptase/r 51.1 7 0.00024 45.2 2.8 109 867-987 438-556 (557)
21 1mu2_A HIV-2 RT; HIV-2 reverse 47.2 8.2 0.00028 44.6 2.6 20 866-885 434-459 (555)
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=99.91 E-value=7.6e-28 Score=267.47 Aligned_cols=246 Identities=12% Similarity=0.071 Sum_probs=189.8
Q ss_pred CCccccccchhhHhhhhHHHHHHHHh----cCCCccccchhhhhccccccccccccchhhhhccchhHHHHhhhhccCcc
Q psy3199 686 DGAFGILCHGLILQRLALADTINMVV----SKHPSVKSDLISALSSKESMFKKTSDNLLQYVCGKRAEAIASRRKLLEPA 761 (1144)
Q Consensus 686 ~~~fg~~~~~~ifqrl~l~d~~~e~~----~~~~~V~~Dli~~~s~~e~~~~~~~~n~L~~lc~~~~~~va~k~~ll~pT 761 (1144)
-=.||++|+|.+||| .+..++++.. +....||.|||.+.|+.+..|..+...++..+.........+||.+..++
T Consensus 168 ~mpfGl~naP~~fq~-~m~~~l~~~~~~~~~~~v~~YvDDili~s~~~~e~~~~l~~v~~~l~~~gl~l~~~K~~f~~~~ 246 (455)
T 1rw3_A 168 RLPQGFKNSPTLFDE-ALHRDLADFRIQHPDLILLQYVDDLLLAATSELDCQQGTRALLQTLGNLGYRASAKKAQICQKQ 246 (455)
T ss_dssp BCCSSCTTHHHHHHH-HHHHHHHHHHHTCTTCEEEEETTEEEEEESSHHHHHHHHHHHHHHHHHHTCCBCGGGCCCSBSS
T ss_pred ecCCCCCCcHHHHHH-HHHHHHHHhhhhCCCceEEEEcCCEEEecCCHHHHHHHHHHHHHHHHHcCCccCccchhhhccc
Confidence 336999999999999 8999999985 66788999999999999999998888888877666666678899998888
Q ss_pred cccCcccccCCCCCchhhcChHHHHHHHhhCCCCCHHHHHHHhcccchhhhcCChhHHHHHHHHHHHHhcccCCCccccC
Q psy3199 762 IRVPPRILKDIPPSEEYLFDPKSLAEAMRAQSSSSWKKAEVIMGFLSFASFVIPLGKLMFRHIQRLSLRLKKDPLKLCKI 841 (1144)
Q Consensus 762 VRLP~rI~krI~QiEefLaDpKkLLEa~rs~~~~SvKELQSFLGlLNhVS~VIP~GR~YyRrLyr~lskLrK~p~a~~rL 841 (1144)
+...+.++.. .+.-.++.++........+.|++++|+|+|.+|+++.+++......+.|++. ++| ...+.|
T Consensus 247 ~~fLG~~i~~----~gi~~~~~kv~~i~~~~~p~t~k~l~~flG~~~y~r~fi~~~~~~~~pL~~l---lkk--~~~~~W 317 (455)
T 1rw3_A 247 VKYLGYLLKE----GQRWLTEARKETVMGQPTPKTPRQLREFLGTAGFCRLWIPGFAEMAAPLYPL---TKT--GTLFNW 317 (455)
T ss_dssp CEETTEEESS----SEECCCTTCCCCCCCCCTTTHHHHHHHTTTTTCCCSSCCCCCGGGCCTTCC-------------CC
T ss_pred eeEeeeeccC----CeeEEChhHhhhhccCCCCCCHHHhhhhcccchHHHHHHhhhhhhcccHHHH---hcC--CCCcCc
Confidence 9988874421 1111111111111233456899999999999998888777644444433332 222 357899
Q ss_pred CHHHHHHHHHHHHHhCCCCccc--cCCccEEEEecCCCCceEEEEeec---------cccccccccccccccchhhHHHH
Q psy3199 842 PPMALSQMRWWIAALGTPSPIF--RRRTQVFVTSDASDSGWGARVDNR---------MIKGSWTECQKKWHINVKELFAV 910 (1144)
Q Consensus 842 SeEAreDLeWWKe~LsS~~pI~--pP~~dfiLyTDASdSGIGAVL~Qe---------~aSgtWSeaErnySIneRELLAV 910 (1144)
++++.++|+.+++.|.+...+. .+..++.|+||||+.|+||||.|. +.|++++.+|.+|++.++|++||
T Consensus 318 ~~~~~~af~~lK~~l~~~pvL~~p~~~~~~~l~~DAS~~~~gavL~q~~~~~~~~i~y~Sk~l~~~e~~ys~~ekEllAi 397 (455)
T 1rw3_A 318 GPDQQKAYQEIKQALLTAPALGLPDLTKPFELFVDEKQGYAKGVLTQKLGPWRRPVAYLSKKLDPVAAGWPPCLRMVAAI 397 (455)
T ss_dssp CCCCSSSCCHHHHHTCSSCCSCCSSSCCTTSCEEEEEECSSSBEECCBCTTTTCCCCCCCBCSCSSCSSSCCSSHHHHHH
T ss_pred hHHHHHHHHHHHHHhhcCcccccCCCCCcEEEEEeccCCcceeEEEEecCCcEEEEEEEcccCCccccccchHHHHHHHH
Confidence 9999999999999997643333 236789999999999999999885 35788999999999999999999
Q ss_pred HHHHHHhhcccCCcEEEEEeCChhHHHHHHhc
Q psy3199 911 QMSLEKNLAYVQNKVVLIQSDNLTVVCYIQKQ 942 (1144)
Q Consensus 911 VlALe~fr~yL~Gk~flVrTDNKTAVSyLnKq 942 (1144)
++|+++|++|+.|+.|+|+|||+ +++++++.
T Consensus 398 ~~a~~~~~~yl~g~~~~v~tDh~-~~~~l~~~ 428 (455)
T 1rw3_A 398 AVLTKDAGKLTMGQPLVIKAPHA-VEALVKQP 428 (455)
T ss_dssp HHHHHHHHGGGCSSCEEEECSSC-TTTTSSST
T ss_pred HHHHHHHHHHcCCCcEEEEecCh-HHHHhCCC
Confidence 99999999999999999999998 77887753
No 2
>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=99.87 E-value=6.1e-23 Score=234.31 Aligned_cols=225 Identities=13% Similarity=0.095 Sum_probs=161.1
Q ss_pred CCCccccccchhhHhhhhHHHHHHHHhcCC----Cccccchhhhhcc-ccccccccccchhhhhccchhHHHHhhhhccC
Q psy3199 685 NDGAFGILCHGLILQRLALADTINMVVSKH----PSVKSDLISALSS-KESMFKKTSDNLLQYVCGKRAEAIASRRKLLE 759 (1144)
Q Consensus 685 ~~~~fg~~~~~~ifqrl~l~d~~~e~~~~~----~~V~~Dli~~~s~-~e~~~~~~~~n~L~~lc~~~~~~va~k~~ll~ 759 (1144)
+-=.|||+|+|.+||| .+.++++++.+++ ..||.|||.+.|+ ....|..+...++..+.........+||.+ .
T Consensus 149 ~~mPfGl~nap~~fq~-~m~~il~~~~~~~~~~~v~~Y~DDIli~s~~~~~eh~~~l~~v~~~l~~~gl~l~~~Kc~f-~ 226 (557)
T 2zd1_A 149 NVLPQGWKGSPAIFQS-SMTKILEPFAAQNPDIVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPDKKHQK-E 226 (557)
T ss_dssp SBCCTTCTTHHHHHHH-HHHHHHHHHHHTCTTEEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHTTTCCCCCSCCSC-C
T ss_pred EeeCCCCCCHHHHHHH-HHHHHHHHhhhcCCCceEEEEecCEEEecCchHHHHHHHHHHHHHHHHHcCCccChhhcCC-C
Confidence 3447999999999999 8999999999986 7899999999988 467777777777777766665556667776 6
Q ss_pred cccccCcccccCCCCCchhhcChHHHHHHHhhCCCCCHHHHHHHhcccchhhhcCChhHHHHHHHHHHHHhcccCCCccc
Q psy3199 760 PAIRVPPRILKDIPPSEEYLFDPKSLAEAMRAQSSSSWKKAEVIMGFLSFASFVIPLGKLMFRHIQRLSLRLKKDPLKLC 839 (1144)
Q Consensus 760 pTVRLP~rI~krI~QiEefLaDpKkLLEa~rs~~~~SvKELQSFLGlLNhVS~VIP~GR~YyRrLyr~lskLrK~p~a~~ 839 (1144)
+++.+++.++..- .++ . ++.+ +......|++++|+|||++|+++.+++... .+.|+..+.... .....+
T Consensus 227 ~~~~fLG~~i~~~-gi~--~-~~~k----~~~~~~~t~k~lr~flG~~~~yrrfi~~~~--~~pl~~ll~~~~-~~~~~~ 295 (557)
T 2zd1_A 227 PPFLWMGYELHPD-KWT--V-QPIV----LPEKDSWTVNDIQKLVGKLNWASQIYPGIK--VRQLSKLLRGTK-ALTEVI 295 (557)
T ss_dssp SSEEETTEEECSS-CEE--E-SCCC----CCCCSCEEHHHHHHHHHHHHHHTTTSTTCC--CHHHHGGGTTCC-CTTCEE
T ss_pred CceEEeeEEEccC-cEE--E-ccee----cccccCCCHHHHHHHhhHHHhhhhhccchh--HHHHHHHhcccC-CCCCce
Confidence 6788787743211 111 0 1100 111122399999999999997777776432 233333222211 235689
Q ss_pred cCCHHHHHHHHHHHHHhCCCCccc--cCCccEEEEecCCCCc-eEEEEeeccc----cccccccccccccchhhHHH-HH
Q psy3199 840 KIPPMALSQMRWWIAALGTPSPIF--RRRTQVFVTSDASDSG-WGARVDNRMI----KGSWTECQKKWHINVKELFA-VQ 911 (1144)
Q Consensus 840 rLSeEAreDLeWWKe~LsS~~pI~--pP~~dfiLyTDASdSG-IGAVL~Qe~a----SgtWSeaErnySIneRELLA-VV 911 (1144)
.|+++++++|+.+|+.|.+...+. .+..++.++||||+.| ||++|.|+.. .+.+. .+.+|+++++|++| ++
T Consensus 296 ~Wt~~~~~af~~lK~~L~~~p~L~~pd~~~~~~l~~das~~g~~g~vl~q~~~~~~~~~~~~-~~~~y~~~e~e~la~vv 374 (557)
T 2zd1_A 296 PLTEEAELELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYA-RMRGAHTNDVKQLTEAV 374 (557)
T ss_dssp CCCHHHHHHHHHHHHHTSSCCCBCCCCTTSCCEEEEEEEETTEEEEEEEEETTEEEEEEEEE-CCSCSEECHHHHHHHHH
T ss_pred ecCHHHHHHHHHHHHHHhCccceeecCCCCCEEEEEecCCCCcEEEEEecCCCceeeeeecc-cccccCCChHHHHHHHH
Confidence 999999999999999997643333 3478999999999986 6999998532 33344 58889999999999 88
Q ss_pred HHHHHhhcccCC
Q psy3199 912 MSLEKNLAYVQN 923 (1144)
Q Consensus 912 lALe~fr~yL~G 923 (1144)
.++++|++||.|
T Consensus 375 ~~l~~~~~~l~g 386 (557)
T 2zd1_A 375 QKITTESIVIWG 386 (557)
T ss_dssp HHHHHHHHHHHS
T ss_pred HHhhhhheEEeC
Confidence 888887665543
No 3
>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=99.86 E-value=2e-22 Score=224.34 Aligned_cols=240 Identities=13% Similarity=0.094 Sum_probs=172.6
Q ss_pred CCCccccccchhhHhhhhHHHHHHHHhcCC----Cccccchhhhhccc-cccccccccchhhhhccchhHHHHhhhhccC
Q psy3199 685 NDGAFGILCHGLILQRLALADTINMVVSKH----PSVKSDLISALSSK-ESMFKKTSDNLLQYVCGKRAEAIASRRKLLE 759 (1144)
Q Consensus 685 ~~~~fg~~~~~~ifqrl~l~d~~~e~~~~~----~~V~~Dli~~~s~~-e~~~~~~~~n~L~~lc~~~~~~va~k~~ll~ 759 (1144)
+-=.||++|+|.+||| .+.++++++.+++ ..||.|||.+.|+. ...|..+...++..+.........+||.+ .
T Consensus 147 ~vmPfGl~nsPa~fq~-~m~~il~~~~~~~~~~~v~vY~DDIlI~s~~~~~eh~~~l~~v~~~l~~~gL~l~~~Kc~~-~ 224 (428)
T 2zd1_B 147 NVLPQGWKGSPAIFQS-SMTKILEPFKKQNPDIVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPDKKHQK-E 224 (428)
T ss_dssp SBCCTTCTHHHHHHHH-HHHHHHHHHHHHCTTCEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHHHHC-----------
T ss_pred EeeCCCCcchHHHHHH-HHHHHHHHHhhcCCCceEEEEecceEEecCCcHHHHHHHHHHHHHHHHHhCCccChhHccc-c
Confidence 3346999999999999 9999999999876 77899999999885 47777777777777766666666777775 5
Q ss_pred cccccCcccccCCCCCchhhcChHHHHHHHhhCCCCCHHHHHHHhcccchhhhcCChhHHHHHHHHHHHHhcccC--CCc
Q psy3199 760 PAIRVPPRILKDIPPSEEYLFDPKSLAEAMRAQSSSSWKKAEVIMGFLSFASFVIPLGKLMFRHIQRLSLRLKKD--PLK 837 (1144)
Q Consensus 760 pTVRLP~rI~krI~QiEefLaDpKkLLEa~rs~~~~SvKELQSFLGlLNhVS~VIP~GR~YyRrLyr~lskLrK~--p~a 837 (1144)
.++..++.++.. .+.-.++.+ +......|++++|+|||++|+++.+++... .+.|+. .++|. ...
T Consensus 225 ~~~~fLG~~i~~----~~i~~~~~k----i~~~~~~t~k~lr~flG~~~yyrrFi~~~s--~~pL~~---llkk~~~~~~ 291 (428)
T 2zd1_B 225 PPFLWMGYELHP----DKWTVQPIV----LPEKDSWTVNDIQKLVGKLNWASQIYPGIK--VRQLSK---LLRGTKALTE 291 (428)
T ss_dssp --CTTCCEEECG----GGCCCCCCC----CCCCSSEEHHHHHHHHHHHHHHTTTCTTCC--CHHHHH---TTCSCCCTTC
T ss_pred ceEEEeccEecC----CceEecccc----cccccccCHHHHHHHhhhHHHHHHhcCCcc--HHHHHH---HHccCCCCCC
Confidence 667777774321 110001100 111224499999999999998777776543 344433 33332 136
Q ss_pred cccCCHHHHHHHHHHHHHhCCCCccc--cCCccEEEEecCCCC-ceEEEEeec----cccccccccccccccchhhHHH-
Q psy3199 838 LCKIPPMALSQMRWWIAALGTPSPIF--RRRTQVFVTSDASDS-GWGARVDNR----MIKGSWTECQKKWHINVKELFA- 909 (1144)
Q Consensus 838 ~~rLSeEAreDLeWWKe~LsS~~pI~--pP~~dfiLyTDASdS-GIGAVL~Qe----~aSgtWSeaErnySIneRELLA- 909 (1144)
.+.|+++++.+|+..|+.|.+...+. .+..++.++||||+. +||+++.|+ +.+++++ +++||+++++|++|
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 79999999999999999997643333 347899999999996 679999986 4578888 89999999999999
Q ss_pred HHHHHHHhhcccCCc---EEEEEeCChhHHHHHHh
Q psy3199 910 VQMSLEKNLAYVQNK---VVLIQSDNLTVVCYIQK 941 (1144)
Q Consensus 910 VVlALe~fr~yL~Gk---~flVrTDNKTAVSyLnK 941 (1144)
|+.||++|++||.|+ .++++|||+. +.|+..
T Consensus 371 vv~al~~~r~yl~G~~~~~~i~~td~~~-~~~~~~ 404 (428)
T 2zd1_B 371 AVQKITTESIVIWGKTPKFKLPIQKETW-ETWWTE 404 (428)
T ss_dssp HHHHHHHHHHHHHSSCCEEEESSCHHHH-HHHHHH
T ss_pred HHHHhhccceEEECCCCcEECCccHHHH-HHHHHh
Confidence 999999999999775 5788999996 666654
No 4
>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=99.84 E-value=1.3e-21 Score=223.28 Aligned_cols=277 Identities=14% Similarity=0.089 Sum_probs=192.2
Q ss_pred CCccccccchhhHhhhhHHHHHHHHhcCC----Cccccchhhhhcc-ccccccccccchhhhhccchhHHHHhhhhccCc
Q psy3199 686 DGAFGILCHGLILQRLALADTINMVVSKH----PSVKSDLISALSS-KESMFKKTSDNLLQYVCGKRAEAIASRRKLLEP 760 (1144)
Q Consensus 686 ~~~fg~~~~~~ifqrl~l~d~~~e~~~~~----~~V~~Dli~~~s~-~e~~~~~~~~n~L~~lc~~~~~~va~k~~ll~p 760 (1144)
-=.|||+|+|.+||| .+.++++++.+++ ..||.|||.+.|+ ....|..+...+|..+.........+|| ++.+
T Consensus 148 ~mPfGl~napa~fq~-~m~~il~~~~~~~~~~~v~~Y~DDIli~s~~~~~eh~~~l~~v~~~l~~~gl~l~~~K~-~~~~ 225 (555)
T 1mu2_A 148 VLPQGWKGSPAIFQH-TMRQVLEPFRKANKDVIIIQYMDDILIASDRTDLEHDRVVLQLKELLNGLGFSTPDEKF-QKDP 225 (555)
T ss_dssp BCCTTCTTHHHHHHH-HHHHHHHHHHHHCTTSEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHHTTCBCCSTTE-ECSS
T ss_pred EeCCCCCCcHHHHHH-HHHHHHHHHHhhCCCcEEEEEecceEEecCCCHHHHHHHHHHHHHHHHHcCCccCHHHh-ccCC
Confidence 346999999999999 8999999999887 8999999999998 5778888877777776655555556676 4677
Q ss_pred ccccCcccccCCCCCchhhcChHHHHHHHhhCCCCCHHHHHHHhcccchhhhcCChhHHHHHHHHHHHHhcccC--CCcc
Q psy3199 761 AIRVPPRILKDIPPSEEYLFDPKSLAEAMRAQSSSSWKKAEVIMGFLSFASFVIPLGKLMFRHIQRLSLRLKKD--PLKL 838 (1144)
Q Consensus 761 TVRLP~rI~krI~QiEefLaDpKkLLEa~rs~~~~SvKELQSFLGlLNhVS~VIP~GR~YyRrLyr~lskLrK~--p~a~ 838 (1144)
++..++.++.. .+.-.++.+ +..-.+.|++++|+|||++|+++.+++... .+.|+ ..+++. ....
T Consensus 226 ~~~fLG~~i~~----~gi~~~~~k----i~~i~~~t~k~lr~flG~~~~~rrfi~~~~--~~pL~---~llk~~~~~~~~ 292 (555)
T 1mu2_A 226 PYHWMGYELWP----TKWKLQKIQ----LPQKEIWTVNDIQKLVGVLNWAAQLYPGIK--TKHLC---RLISGKMTLTEE 292 (555)
T ss_dssp SEEETTEEECS----SEEEECCCC----CCCCSSCBHHHHHHHHHHHHHHHHHSTTCC--CHHHH---TTSCSSSCTTCB
T ss_pred ceeEEeEEEeC----Cceeccccc----cCcCCCCCHHHHHhHhhhhhhhhhccCccc--hHHHH---HHhccCCCCCCc
Confidence 88888874421 111111111 111135699999999999995554444321 12222 223332 2368
Q ss_pred ccCCHHHHHHHHHHHHHhCCCCccc--cCCccEEEEecCCCCc-eEEEEeeccc---ccccccccc--------------
Q psy3199 839 CKIPPMALSQMRWWIAALGTPSPIF--RRRTQVFVTSDASDSG-WGARVDNRMI---KGSWTECQK-------------- 898 (1144)
Q Consensus 839 ~rLSeEAreDLeWWKe~LsS~~pI~--pP~~dfiLyTDASdSG-IGAVL~Qe~a---SgtWSeaEr-------------- 898 (1144)
+.|+++++++|+.+|+.|.+...+. .+..++.++||||+.| ||++|.|+.- .+.++ .+.
T Consensus 293 ~~wt~~~~~af~~lK~~L~~~p~L~~p~~~~~~~l~~das~~ga~g~vl~Q~~~~~~~~~~s-~~~~~~~~~~~~la~~v 371 (555)
T 1mu2_A 293 VQWTELAEAELEENRIILSQEQEGHYYQEEKELEATVQKDQDNQWTYKIHQEEKILKVGKYA-KVKNTHTNGIRLLAQVV 371 (555)
T ss_dssp CCCCHHHHHHHHHHHHHHSCCEEEECBCTTSCCEEEEEECSSSCEEEEEEETTEEEEEEEEC-CC--CEECHHHHHHHHH
T ss_pred ccCCHHHHHHHHHHHHHHhhCccccccCCCCCEEEEEecCCCCcEEEEEeeCCcceeeeecc-ccccccCCHHHHHHHHH
Confidence 9999999999999999998653332 3478999999999997 9999987410 00000 000
Q ss_pred --------------------------------------------------------------------------------
Q psy3199 899 -------------------------------------------------------------------------------- 898 (1144)
Q Consensus 899 -------------------------------------------------------------------------------- 898 (1144)
T Consensus 372 ~~l~~~~~~l~g~~~~~~v~~~~~~w~~~~td~~~l~~~p~~~~~~~~~~~~~~~~~~~~p~~~~~~iytDGs~~~n~g~ 451 (555)
T 1mu2_A 372 QKIGKEALVIWGRIPKFHLPVEREIWEQWWDNYWQVTWIPDWDFVSTPPLVRLAFNLVGDPIPGAETFYTDGSCNRQSKE 451 (555)
T ss_dssp HHHHHHHHHHHSSCCEEEESBCHHHHHHHHHHCSSBCCCCSEEECCCSSCBCCCCCEESSCCTTCEEEEEEEEECTTTCC
T ss_pred HHhchhheeeeCCCeeEECCccHHHHHHhhhccchhhcCCcHHhccCCcccccccccCCCCCCCceEEEEcccccCCCCC
Confidence
Q ss_pred ------------------ccccchhhHHHHHHHHHHhhcccCCcEEEEEeCChhHHHHHHhcCCCCChhhhhHHHHHHHH
Q psy3199 899 ------------------KWHINVKELFAVQMSLEKNLAYVQNKVVLIQSDNLTVVCYIQKQGGTKSINLLRGVEEIFRI 960 (1144)
Q Consensus 899 ------------------nySIneRELLAVVlALe~fr~yL~Gk~flVrTDNKTAVSyLnKqgSkrSp~LnrLARrI~~w 960 (1144)
..+.|..|+.|++.||+. .++++.|+||++.++..+++.... ....+++++...
T Consensus 452 ~g~G~v~~~~~~~~~~~~~~TNn~aEl~A~i~aL~~-----~~~~v~I~tDS~~v~~~i~~~~~~---~~~~l~~~~~~~ 523 (555)
T 1mu2_A 452 GKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMALTD-----SGPKVNIIVDSQYVMGIVASQPTE---SESKIVNQIIEE 523 (555)
T ss_dssp EEEEEEETTSCEEEEEESSCCHHHHHHHHHHHHHHT-----SCSEEEEEESCHHHHHHHHTCCSE---ESCHHHHHHHHH
T ss_pred ceEEEEEEeCCEeeccCCCCCHHHHHHHHHHHHHHc-----CCCeEEEEEehHHHHHHHhccccc---ccHHHHHHHHHH
Confidence 124667888888888886 457899999999999999864322 223455566555
Q ss_pred HHhcceeEEEEEecC----CcccCCCcCCCC
Q psy3199 961 ATVHNITVQAQYIPG----MYNNIADSLSRS 987 (1144)
Q Consensus 961 Lee~nIdftaeHIPG----keNvVADALSR~ 987 (1144)
+... ..+.+.|||| ..|..||.|++.
T Consensus 524 ~~~~-~~v~~~wV~~H~g~~~Ne~AD~LA~~ 553 (555)
T 1mu2_A 524 MIKK-EAIYVAWVPAHKGIGGNQEVDHLVSQ 553 (555)
T ss_dssp HHHC-SEEEEEECCSSSCCTTHHHHHHHHHT
T ss_pred hccC-CcEEEEEEECCCCChhHHHHHHHHHh
Confidence 4443 4578899999 569999998764
No 5
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=99.01 E-value=2.5e-10 Score=106.09 Aligned_cols=119 Identities=19% Similarity=0.132 Sum_probs=87.3
Q ss_pred cEEEEecCCC------CceEEEEeecccc--ccccccccccccchhhHHHHHHHHHHhhcc-c--CCcEEEEEeCChhHH
Q psy3199 868 QVFVTSDASD------SGWGARVDNRMIK--GSWTECQKKWHINVKELFAVQMSLEKNLAY-V--QNKVVLIQSDNLTVV 936 (1144)
Q Consensus 868 dfiLyTDASd------SGIGAVL~Qe~aS--gtWSeaErnySIneRELLAVVlALe~fr~y-L--~Gk~flVrTDNKTAV 936 (1144)
.+.||||+|. .|+|+++...... ..+.......+.+..|+.|++.||+..... . .+.++.|+||++.++
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 5789999996 3899998653211 112222234578899999999999975331 1 133999999999999
Q ss_pred HHHHhcCCCCChhhhhHHHHHHHH-HHhcceeEEEEEecCCcccCCCcCCCC
Q psy3199 937 CYIQKQGGTKSINLLRGVEEIFRI-ATVHNITVQAQYIPGMYNNIADSLSRS 987 (1144)
Q Consensus 937 SyLnKqgSkrSp~LnrLARrI~~w-Lee~nIdftaeHIPGkeNvVADALSR~ 987 (1144)
..+++....+++.+..++..+..+ +..+. .+++.|||+..|..||.|.+.
T Consensus 83 ~~i~~~~~~~~~~l~~~~~~i~~l~~~~~~-~v~~~~V~~~~N~~AD~LA~~ 133 (140)
T 3u3g_D 83 RQMQGVYKVKEPTLKEKFAKIAHIKMERVP-NLVFVHIPREKNARADELVNE 133 (140)
T ss_dssp HHHTTSSCCCCGGGHHHHHHHHHHHHHHCT-TCEEEECCGGGGHHHHHHHHH
T ss_pred HHhCCCcccCCHHHHHHHHHHHHHhhcCCC-cEEEEEcCchhhHHHHHHHHH
Confidence 999976544566676777777776 66643 578899999999999999864
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=98.99 E-value=3.3e-10 Score=106.09 Aligned_cols=118 Identities=19% Similarity=0.203 Sum_probs=86.7
Q ss_pred cEEEEecCCCC------ceEEEEeecccc---ccccccccccccchhhHHHHHHHHHHhhcccCCcEEEEEeCChhHHHH
Q psy3199 868 QVFVTSDASDS------GWGARVDNRMIK---GSWTECQKKWHINVKELFAVQMSLEKNLAYVQNKVVLIQSDNLTVVCY 938 (1144)
Q Consensus 868 dfiLyTDASdS------GIGAVL~Qe~aS---gtWSeaErnySIneRELLAVVlALe~fr~yL~Gk~flVrTDNKTAVSy 938 (1144)
.+.||||+|.. |+|+++...... ..+.......+.+..|+.|++.||+.... +.-+++.|+||++.++..
T Consensus 3 ~~~iy~DGs~~~~~g~~g~G~v~~~~~~~~~~~~~~~~~~~~tn~~aEl~A~~~aL~~a~~-~~~~~v~i~tDS~~vv~~ 81 (141)
T 3hst_B 3 KVVIEADGGSRGNPGPAGYGAVVWTADHSTVLAESKQAIGRATNNVAEYRGLIAGLDDAVK-LGATEAAVLMDSKLVVEQ 81 (141)
T ss_dssp EEEEEEEEEESSSSEEEEEEEEEEETTSCSEEEEEEEEEEEECHHHHHHHHHHHHHHHHHH-HTCSEEEEEESCHHHHHH
T ss_pred EEEEEEecCCCCCCCCcEEEEEEEeCCCCcEEEeeeccCCCCchHHHHHHHHHHHHHHHHH-CCCceEEEEeChHHHHHH
Confidence 57899999853 899998753211 12222233567789999999999997533 334789999999999999
Q ss_pred HHhcCCCCChhhhhHHHHHHHHHHhcceeEEEEEecCCcccCCCcCCCC
Q psy3199 939 IQKQGGTKSINLLRGVEEIFRIATVHNITVQAQYIPGMYNNIADSLSRS 987 (1144)
Q Consensus 939 LnKqgSkrSp~LnrLARrI~~wLee~nIdftaeHIPGkeNvVADALSR~ 987 (1144)
+++....+++.+..+..++..++..+ ..+++.|||+..|..||.|.|.
T Consensus 82 i~~~~~~~~~~l~~~~~~i~~l~~~~-~~v~~~~V~~~~N~~AD~LA~~ 129 (141)
T 3hst_B 82 MSGRWKVKHPDLLKLYVQAQALASQF-RRINYEWVPRARNTYADRLAND 129 (141)
T ss_dssp HTTSSCCCSHHHHHHHHHHHHHHTTS-SEEEEEECCGGGCHHHHHHHHH
T ss_pred HhCCcccCCHHHHHHHHHHHHHHhcC-CeEEEEEcCCcccHHHHHHHHH
Confidence 98753344566656666666655543 4688999999999999999875
No 7
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=98.87 E-value=7.2e-10 Score=106.08 Aligned_cols=116 Identities=18% Similarity=0.116 Sum_probs=85.4
Q ss_pred EEEEecCCCC-------ce-EEEEeecccc-cccc----ccccccccchhhHHHHHHHHHHhhcccCCcEEEEEeCChhH
Q psy3199 869 VFVTSDASDS-------GW-GARVDNRMIK-GSWT----ECQKKWHINVKELFAVQMSLEKNLAYVQNKVVLIQSDNLTV 935 (1144)
Q Consensus 869 fiLyTDASdS-------GI-GAVL~Qe~aS-gtWS----eaErnySIneRELLAVVlALe~fr~yL~Gk~flVrTDNKTA 935 (1144)
+.||||+|.. |+ |+++...... .... ..+...+.+..|+.|++.||+.... +..+++.|+||++.+
T Consensus 2 ~~iy~DGs~~~~n~g~~G~~G~vi~~~g~~~~~~~~~~~~~~~~~tnn~aEl~A~~~aL~~a~~-~g~~~v~i~tDS~~v 80 (149)
T 2ehg_A 2 IIGYFDGLCEPKNPGGIATFGFVIYLDNRKIEGYGLAEKPFSINSTNNVAEYSGLICLMETMLR-LGISSPIIKGDSQLV 80 (149)
T ss_dssp CEEEEEEEEESSSSSSEEEEEEEEECSSCEEEEEEECSCTTCTTCCHHHHHHHHHHHHHHHHHH-HTCCSCEEEESCHHH
T ss_pred EEEEEeeccCCCCCChheEEEEEEEECCEEEEEeccccCCCCCCccHHHHHHHHHHHHHHHHHH-cCCCEEEEEeChHHH
Confidence 5799999854 64 9888652111 0011 1123567889999999999997643 233689999999999
Q ss_pred HHHHHhcCCCCChhhhhHHHHHHHHHHhcceeEEEEEecCCcccCCCcCCCC
Q psy3199 936 VCYIQKQGGTKSINLLRGVEEIFRIATVHNITVQAQYIPGMYNNIADSLSRS 987 (1144)
Q Consensus 936 VSyLnKqgSkrSp~LnrLARrI~~wLee~nIdftaeHIPGkeNvVADALSR~ 987 (1144)
+..+++.-..+++.+..++..+..++..++ +.+.||||..|..||.|+|.
T Consensus 81 i~~i~~~w~~~~~~~~~l~~~i~~l~~~~~--v~~~~V~~~~N~~AD~LA~~ 130 (149)
T 2ehg_A 81 IKQMNGEYKVKAKRIIPLYEKAIELKKKLN--ATLIWVPREENKEADRLSRV 130 (149)
T ss_dssp HHHHTTSSCCCCTTHHHHHHHHHHHHHHHT--CEEEECCGGGCHHHHHHHHH
T ss_pred HHHHhCccccCCHHHHHHHHHHHHHHhcCC--EEEEEcCCcccHHHHHHHHH
Confidence 999987644444566678888888877775 78899999999999999885
No 8
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=98.72 E-value=6.9e-09 Score=99.37 Aligned_cols=116 Identities=23% Similarity=0.286 Sum_probs=80.7
Q ss_pred ccEEEEecCCC------CceEEEEeeccccccccccccccccchhhHHHHHHHHHHhhcccCCcEEEEEeCChhHHHHHH
Q psy3199 867 TQVFVTSDASD------SGWGARVDNRMIKGSWTECQKKWHINVKELFAVQMSLEKNLAYVQNKVVLIQSDNLTVVCYIQ 940 (1144)
Q Consensus 867 ~dfiLyTDASd------SGIGAVL~Qe~aSgtWSeaErnySIneRELLAVVlALe~fr~yL~Gk~flVrTDNKTAVSyLn 940 (1144)
..+.||||+|. .|+|+++.........+......+.+..||.|++.||+.... .+++.|+||++.++..++
T Consensus 3 ~~i~iytDGs~~~n~g~~g~G~v~~~~~~~~~~~~~~~~~Tnn~aEl~A~~~AL~~~~~---~~~v~I~tDS~~vi~~i~ 79 (146)
T 3h08_A 3 KTITIYTDGAASGNPGKGGWGALLMYGSSRKEISGYDPATTNNRMELMAAIKGLEALKE---PARVQLYSDSAYLVNAMN 79 (146)
T ss_dssp CEEEEEEEEEESSTTEEEEEEEEEEETTEEEEEEEEEEEECHHHHHHHHHHHHHHTCSS---CCEEEEEESCHHHHHHHH
T ss_pred ceEEEEEecCCCCCCCceEEEEEEEECCeeEEeecCCCCCcHHHHHHHHHHHHHHhcCc---cCcEEEEeChHHHHHHHH
Confidence 46899999993 389999865321112222233457788999999999997543 579999999999998877
Q ss_pred hc-------C-----CCCChhhhhHHHHHHHHHHhcceeEEEEEec----CCcccCCCcCCCC
Q psy3199 941 KQ-------G-----GTKSINLLRGVEEIFRIATVHNITVQAQYIP----GMYNNIADSLSRS 987 (1144)
Q Consensus 941 Kq-------g-----SkrSp~LnrLARrI~~wLee~nIdftaeHIP----GkeNvVADALSR~ 987 (1144)
+. . .........+++++..++..+ .+.+.||| ...|..||.|.|.
T Consensus 80 ~~w~~~W~~~~w~~~~~~~v~n~~l~~~~~~~~~~~--~v~~~~V~gH~g~~~N~~AD~LA~~ 140 (146)
T 3h08_A 80 EGWLKRWVKNGWKTAAKKPVENIDLWQEILKLTTLH--RVTFHKVKGHSDNPYNSRADELARL 140 (146)
T ss_dssp SSHHHHHHHTTCC----CCCTTHHHHHHHHHHHHHS--EEEEEECCC-CCSHHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCccCCCCCcCCHHHHHHHHHHHhhC--ceEEEEcCCcCCcHhHHHHHHHHHH
Confidence 51 0 011112234777777776655 46789999 6789999998764
No 9
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=98.68 E-value=1.3e-08 Score=99.69 Aligned_cols=116 Identities=17% Similarity=0.136 Sum_probs=79.4
Q ss_pred ccEEEEecCCCC------ceEEEEeeccccccccccccccccchhhHHHHHHHHHHhhcccCCcEEEEEeCChhHHHHHH
Q psy3199 867 TQVFVTSDASDS------GWGARVDNRMIKGSWTECQKKWHINVKELFAVQMSLEKNLAYVQNKVVLIQSDNLTVVCYIQ 940 (1144)
Q Consensus 867 ~dfiLyTDASdS------GIGAVL~Qe~aSgtWSeaErnySIneRELLAVVlALe~fr~yL~Gk~flVrTDNKTAVSyLn 940 (1144)
..+.||||+|.. |+|+++.........+......+.+..||.|++.||+... .++++.|+||++.++..++
T Consensus 5 ~~i~iytDGs~~~n~g~~G~G~v~~~~~~~~~~~~~~~~~tn~~aEl~A~~~AL~~~~---~~~~v~I~tDS~~vi~~i~ 81 (158)
T 2e4l_A 5 KLIHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGFSLTTNNRMELLAPIVALEALK---EPCKIILTSDSQYMRQGIM 81 (158)
T ss_dssp CEEEEEEEEEESSSSEEEEEEEEEEETTEEEEEEEEEEEECHHHHHHHHHHHHHHTCS---SCCEEEEEECCHHHHHHHH
T ss_pred CeEEEEEcccccCCCCcEEEEEEEEECCEEEEEecCcCCCccHHHHHHHHHHHHHHhc---cCCeEEEEeCHHHHHHHHH
Confidence 368899999863 8999986422111122222345778899999999999753 2379999999999998887
Q ss_pred h--------cCCC--CChh-hhhHHHHHHHHHHhcceeEEEEEecCC----cccCCCcCCCC
Q psy3199 941 K--------QGGT--KSIN-LLRGVEEIFRIATVHNITVQAQYIPGM----YNNIADSLSRS 987 (1144)
Q Consensus 941 K--------qgSk--rSp~-LnrLARrI~~wLee~nIdftaeHIPGk----eNvVADALSR~ 987 (1144)
+ .-.+ ..+. ...++..+..++.. +.+.+.||||. .|..||.|+|.
T Consensus 82 ~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~~--~~v~~~wV~gH~g~~~Ne~AD~LAk~ 141 (158)
T 2e4l_A 82 TWIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQL--HQIDWRWVKGHAGHAENERCDQLARA 141 (158)
T ss_dssp THHHHHHHTTTBCTTSSBCTTHHHHHHHHHHHTT--SEEEEEECCTTCCCHHHHHHHHHHHH
T ss_pred HHHHHHHHccccccCCCcccCHHHHHHHHHHHcc--CcEEEEEccCCCCchhHHHHHHHHHH
Confidence 6 2111 0111 12456667666654 46788999965 79999999875
No 10
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=98.63 E-value=2.5e-08 Score=96.63 Aligned_cols=118 Identities=15% Similarity=0.113 Sum_probs=79.8
Q ss_pred CccEEEEecCCC---------CceEEEEeecccccccccc-ccccccchhhHHHHHHHHHHhhcccCCcEEEEEeCChhH
Q psy3199 866 RTQVFVTSDASD---------SGWGARVDNRMIKGSWTEC-QKKWHINVKELFAVQMSLEKNLAYVQNKVVLIQSDNLTV 935 (1144)
Q Consensus 866 ~~dfiLyTDASd---------SGIGAVL~Qe~aSgtWSea-ErnySIneRELLAVVlALe~fr~yL~Gk~flVrTDNKTA 935 (1144)
...+.||||+|. .|+|+++.... ...++.. ....+.+..||.|++.||+.... ...+++.|+||++.+
T Consensus 5 ~~~~~iytDGs~~~n~~~~~~aG~Gvv~~~~~-~~~~~~~l~~~~tn~~aEl~A~~~aL~~~~~-~~~~~v~i~tDS~~v 82 (154)
T 2qkb_A 5 GDFVVVYTDGCCSSNGRRRPRAGIGVYWGPGH-PLNVGIRLPGRQTNQRAEIHAACKAIEQAKT-QNINKLVLYTNSMFT 82 (154)
T ss_dssp TTEEEEEEEEEEETTTSSSCEEEEEEECSTTC-TTCEEEECCSSCCHHHHHHHHHHHHHHHHHH-TTCCEEEEEESCHHH
T ss_pred CCeEEEEEccCcCCCCCCCCcEEEEEEEECCC-ceeEEeecCCCCchHHHHHHHHHHHHHHHHh-CCCceEEEEECcHHH
Confidence 456889999985 37888876321 1111111 11357789999999999998643 344789999999999
Q ss_pred HHHHHhc----------CCCC-ChhhhhHHHHHHHHHHhcceeEEEEEecCCc----ccCCCcCCCC
Q psy3199 936 VCYIQKQ----------GGTK-SINLLRGVEEIFRIATVHNITVQAQYIPGMY----NNIADSLSRS 987 (1144)
Q Consensus 936 VSyLnKq----------gSkr-Sp~LnrLARrI~~wLee~nIdftaeHIPGke----NvVADALSR~ 987 (1144)
+..+++. .+.. ......++++|..++.. +.+.+.||||.. |..||.|+|.
T Consensus 83 i~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~~--~~v~~~~V~~H~g~~~N~~AD~LA~~ 147 (154)
T 2qkb_A 83 INGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQG--MDIQWMHVPGHSGFIGNEEADRLARE 147 (154)
T ss_dssp HHHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHTT--CEEEEEECCTTSSCHHHHHHHHHHHH
T ss_pred HhhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHcC--CceEEEEccCCCCCHhHHHHHHHHHH
Confidence 8888752 0111 11223467777766654 457889999954 9999999874
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=98.63 E-value=2.2e-08 Score=97.68 Aligned_cols=115 Identities=22% Similarity=0.173 Sum_probs=79.2
Q ss_pred cEEEEecCCCC------ceEEEEeeccccccccccccccccchhhHHHHHHHHHHhhcccCCcEEEEEeCChhHHHHHHh
Q psy3199 868 QVFVTSDASDS------GWGARVDNRMIKGSWTECQKKWHINVKELFAVQMSLEKNLAYVQNKVVLIQSDNLTVVCYIQK 941 (1144)
Q Consensus 868 dfiLyTDASdS------GIGAVL~Qe~aSgtWSeaErnySIneRELLAVVlALe~fr~yL~Gk~flVrTDNKTAVSyLnK 941 (1144)
.+.||||+|.. |+|+++.........+......+.+..||.|++.||+.... .+++.|+||++.++..+++
T Consensus 4 ~~~iytDGs~~~n~~~~G~G~v~~~~~~~~~~~~~~~~~tn~~aEl~A~~~aL~~~~~---~~~v~I~tDS~~vi~~i~~ 80 (155)
T 1jl1_A 4 QVEIFTAGSALGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKE---HAEVILSTDSQYVRQGITQ 80 (155)
T ss_dssp CEEEEEEEEESSTTEEEEEEEEEEETTEEEEEEEEEEEECHHHHHHHHHHHHHHTCCS---CCEEEEEECCHHHHHHHHT
T ss_pred eEEEEEccccCCCCCceEEEEEEEECCeEEEEecCCCCCcHHHHHHHHHHHHHHHhCc---CCcEEEEeCHHHHHHHHHH
Confidence 57899999863 78999874321112222223456789999999999997543 3799999999999988885
Q ss_pred --------cCCC--CChh-hhhHHHHHHHHHHhcceeEEEEEecCC----cccCCCcCCCC
Q psy3199 942 --------QGGT--KSIN-LLRGVEEIFRIATVHNITVQAQYIPGM----YNNIADSLSRS 987 (1144)
Q Consensus 942 --------qgSk--rSp~-LnrLARrI~~wLee~nIdftaeHIPGk----eNvVADALSR~ 987 (1144)
+-.+ ..+. ...++..+..++.. +.+.+.||||. .|..||.|+|.
T Consensus 81 w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~~--~~v~~~wV~gH~g~~~Ne~AD~LA~~ 139 (155)
T 1jl1_A 81 WIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQ--HQIKWEWVKGHAGHPENERADELARA 139 (155)
T ss_dssp THHHHHHTTTBCTTSCBCTTHHHHHHHHHHTTT--CEEEEEECCSSTTCHHHHHHHHHHHH
T ss_pred HHHHHhhcccccccCCccCCHHHHHHHHHHHcc--CceEEEEcCCCCCCHHHHHHHHHHHH
Confidence 1111 0111 12466666665554 46788999964 89999999875
No 12
>3qio_A GAG-POL polyprotein; RNAse H, inhibitor, nuclease, transferase, hydrolase- complex; HET: QID; 1.40A {Hiv-1 M} SCOP: c.55.3.1 PDB: 3qin_A* 3hyf_A* 1o1w_A 3lp3_A* 1hrh_A 3k2p_A* 1rdh_A
Probab=98.60 E-value=3.8e-08 Score=96.37 Aligned_cols=114 Identities=16% Similarity=0.096 Sum_probs=78.4
Q ss_pred CccEEEEecCCC------CceEEEEeeccccccccccccccccchhhHHHHHHHHHHhhcccCCcEEEEEeCChhHHHHH
Q psy3199 866 RTQVFVTSDASD------SGWGARVDNRMIKGSWTECQKKWHINVKELFAVQMSLEKNLAYVQNKVVLIQSDNLTVVCYI 939 (1144)
Q Consensus 866 ~~dfiLyTDASd------SGIGAVL~Qe~aSgtWSeaErnySIneRELLAVVlALe~fr~yL~Gk~flVrTDNKTAVSyL 939 (1144)
.-.+.||||+|. .|+|+++..... ... .....+.+..|+.|++.||+.. ++++.|+||++.++..+
T Consensus 10 ~~~~~iytDGs~~~n~g~~g~G~v~~~~~~-~~~--~~~~~Tnn~aEl~A~i~AL~~~-----~~~v~i~tDS~~v~~~i 81 (150)
T 3qio_A 10 VGAETFYVDGAANRETKLGKAGYVTNRGRQ-KVV--TLTDTTNQKTELQAIYLALQDS-----GLEVNIVTDSQYALGII 81 (150)
T ss_dssp TTCEEEEEEEEECTTTCCEEEEEEETTSCE-EEE--EESSCCHHHHHHHHHHHHHHHS-----CSEEEEEESCHHHHHHH
T ss_pred CCCEEEEEccCCCCCCCCeEEEEEEEcCCE-EEE--eCCCCCHHHHHHHHHHHHHHhC-----CCcEEEEeCcHHHHHHH
Confidence 457899999995 488888753211 111 1345677899999999999972 58999999999999888
Q ss_pred Hhc-----------CCCCChhhhhHHHHHHHHHHhcceeEEEEEecCCc----ccCCCcCCCCC
Q psy3199 940 QKQ-----------GGTKSINLLRGVEEIFRIATVHNITVQAQYIPGMY----NNIADSLSRSQ 988 (1144)
Q Consensus 940 nKq-----------gSkrSp~LnrLARrI~~wLee~nIdftaeHIPGke----NvVADALSR~~ 988 (1144)
++. ...+......++.++...+.+ ...+.+.||||.. |..||.|.|..
T Consensus 82 ~~w~~~W~~~gw~~~~g~~v~n~~l~~~l~~~l~~-~~~v~~~wV~gH~g~~~Ne~AD~LA~~a 144 (150)
T 3qio_A 82 TQWIHNWKKRGWKTADKKPVKNVDLVNQIIEQLIK-KEKVYLAWVPAHKGIGGNEQVDKLVSAG 144 (150)
T ss_dssp HHHHHHHCC------------CHHHHHHHHHHHTT-CSEEEEEECCTTSCCHHHHHHHHHHHTT
T ss_pred HHHHHHHhhcCcCcCcCcccccHHHHHHHHHHHhh-cCceEEEEccCcCCChhHHHHHHHHHHH
Confidence 763 111011122355555543333 3468899999998 99999998864
No 13
>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=98.58 E-value=4.6e-08 Score=97.64 Aligned_cols=117 Identities=15% Similarity=0.085 Sum_probs=78.1
Q ss_pred CccEEEEecCCCC------ceEEEEeeccccccccccccccccchhhHHHHHHHHHHhhcccCCcEEEEEeCChhHHHHH
Q psy3199 866 RTQVFVTSDASDS------GWGARVDNRMIKGSWTECQKKWHINVKELFAVQMSLEKNLAYVQNKVVLIQSDNLTVVCYI 939 (1144)
Q Consensus 866 ~~dfiLyTDASdS------GIGAVL~Qe~aSgtWSeaErnySIneRELLAVVlALe~fr~yL~Gk~flVrTDNKTAVSyL 939 (1144)
..++.||||+|.. |+|+++................+.+..|+.|++.||+.. ..+.+.|+||++.++..+
T Consensus 21 ~~~i~iytDGs~~~npG~~g~G~vi~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~----~~~~v~I~tDS~~vi~~i 96 (165)
T 3p1g_A 21 DADYTWYTDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMA----EGKKLNVYTDSRYAFATA 96 (165)
T ss_dssp TCSEEEEEEEEEEEETTEEEEEEEEECSSCEEEEEEECTTCCHHHHHHHHHHHHHHHT----BTSEEEEEECCHHHHHHH
T ss_pred CCCEEEEEEcccCCCCCceEEEEEEEECCEEEEEecCCCCCcHHHHHHHHHHHHHHHc----cCceEEEEEchHHHHhhh
Confidence 3469999999974 688887642211111112234577899999999999986 368999999999988877
Q ss_pred HhcCCCCChhhhhHHHHHHHHHHhcceeEEEEEecCCc---------ccCCCcCCCC
Q psy3199 940 QKQGGTKSINLLRGVEEIFRIATVHNITVQAQYIPGMY---------NNIADSLSRS 987 (1144)
Q Consensus 940 nKqgSkrSp~LnrLARrI~~wLee~nIdftaeHIPGke---------NvVADALSR~ 987 (1144)
......+.-....+++++...+. ....+++.||||.. |..||.|.|.
T Consensus 97 w~~~~g~~v~n~dl~~~l~~~l~-~~~~v~~~wVkgH~g~~~~~~~gNe~AD~LA~~ 152 (165)
T 3p1g_A 97 HVHSEGREIKNKNEILALLKALF-LPKRLSIIHCPGHQKGNSAEARGNRMADQAARE 152 (165)
T ss_dssp HSCCCSCCCSSHHHHHHHHHHTT-SBSEEEEEECCSSCCSCSHHHHHHHHHHHHHHH
T ss_pred hcccCCCcccCHHHHHHHHHHHh-cCCceEEEEecCCCCCCcCcchHHHHHHHHHHH
Confidence 43221111111234555533222 34568899999987 8899998875
No 14
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=98.57 E-value=2.1e-08 Score=99.28 Aligned_cols=117 Identities=16% Similarity=0.039 Sum_probs=80.2
Q ss_pred ccEEEEecCCCC------ceEEEEeeccccccccccccccccchhhHHHHHHHHHHhhcccCCcEEEEEeCChhHHHHHH
Q psy3199 867 TQVFVTSDASDS------GWGARVDNRMIKGSWTECQKKWHINVKELFAVQMSLEKNLAYVQNKVVLIQSDNLTVVCYIQ 940 (1144)
Q Consensus 867 ~dfiLyTDASdS------GIGAVL~Qe~aSgtWSeaErnySIneRELLAVVlALe~fr~yL~Gk~flVrTDNKTAVSyLn 940 (1144)
..+.||||+|.. |+|+++.........+......+.+..||.|++.||+.... .++|.|+||++.++..++
T Consensus 7 ~~i~iytDGs~~~n~g~~G~G~v~~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~~~---~~~v~I~tDS~~vi~~i~ 83 (166)
T 1ril_A 7 KRVALFTDGACLGNPGPGGWAALLRFHAHEKLLSGGEACTTNNRMELKAAIEGLKALKE---PCEVDLYTDSHYLKKAFT 83 (166)
T ss_dssp CCCCEEEEEEESSTTEEEEEEEEECBTTBCCEECCEEEEECHHHHHHHHHHHHHHSCCS---CCEEEEECCCHHHHHHHH
T ss_pred ccEEEEECccccCCCCCEEEEEEEEECCEEEEEecCCCCCcHHHHHHHHHHHHHHHhcc---CCeEEEEeChHHHHHHHh
Confidence 468899999863 78999864322122222234557889999999999996432 358999999999998887
Q ss_pred hc---------C--CCCChh-hhhHHHHHHHHHHhcceeEEEEEecC----CcccCCCcCCCCC
Q psy3199 941 KQ---------G--GTKSIN-LLRGVEEIFRIATVHNITVQAQYIPG----MYNNIADSLSRSQ 988 (1144)
Q Consensus 941 Kq---------g--SkrSp~-LnrLARrI~~wLee~nIdftaeHIPG----keNvVADALSR~~ 988 (1144)
++ - +...+. ...++..+..++.. +.+.+.|||| ..|..||.|++.-
T Consensus 84 ~~w~~~W~~~~w~~~~g~~v~n~~l~~~i~~l~~~--~~v~~~wV~gH~g~~~Ne~AD~LAk~a 145 (166)
T 1ril_A 84 EGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAP--HRVRFHFVKGHTGHPENERVDREARRQ 145 (166)
T ss_dssp SSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHHTT--SEEECCCCCGGGSCTHHHHHHHHHHHH
T ss_pred hhHHHHHHhcccccccCCccCcHHHHHHHHHHHhc--CeEEEEEeeCCCCchhHHHHHHHHHHH
Confidence 61 1 110111 12466777666654 4678899994 5899999998853
No 15
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=98.42 E-value=1.8e-07 Score=93.64 Aligned_cols=121 Identities=17% Similarity=0.061 Sum_probs=72.4
Q ss_pred CccEEEEecCCC-----------CceEEEEeeccccccccccccccccchhhHHHHHHHHHHhhc--ccCCcEEEEEeCC
Q psy3199 866 RTQVFVTSDASD-----------SGWGARVDNRMIKGSWTECQKKWHINVKELFAVQMSLEKNLA--YVQNKVVLIQSDN 932 (1144)
Q Consensus 866 ~~dfiLyTDASd-----------SGIGAVL~Qe~aSgtWSeaErnySIneRELLAVVlALe~fr~--yL~Gk~flVrTDN 932 (1144)
+.+++||||+|. .|||+++............+....-+.-|++|.+.||..... .-.++.|.|+||+
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 578899999993 489999864222222222222222334555565555543211 1245689999999
Q ss_pred hhHHHHHHhc----------CCCCCh-hhhhHHHHHHHHHHhcceeEEEEEecCCc----------ccCCCcCCCC
Q psy3199 933 LTVVCYIQKQ----------GGTKSI-NLLRGVEEIFRIATVHNITVQAQYIPGMY----------NNIADSLSRS 987 (1144)
Q Consensus 933 KTAVSyLnKq----------gSkrSp-~LnrLARrI~~wLee~nIdftaeHIPGke----------NvVADALSR~ 987 (1144)
+-++..+++. .+.+.+ ....+++++...+..+. .+++.||+|.. |..||.|.|.
T Consensus 85 ~Yvi~~it~w~~~Wk~ngw~~~~~~pVkN~dL~~~l~~~~~~~~-~v~~~~VkgH~g~~~~~~~~gNe~AD~LA~~ 159 (165)
T 2lsn_A 85 FYVAESANKELPYWKSNGFVNNKKKPLKHISKWKSIAECLSMKP-DITIQHEKGHQPTNTSIHTEGNALADKLATQ 159 (165)
T ss_dssp HHHHHHHHTHHHHHHHTTSCSCSSSCCSSHHHHHHHHHHHHHCT-TCEEEECCSSSCSSSCHHHHHHHHHHHHHHH
T ss_pred HHHHhhhhhhhhhheeccccccCCCcccCHHHHHHHHHHHhCCC-CEEEEEEeCCCCccCCCCChHHHHHHHHHHH
Confidence 9988877531 111112 12246777766555432 46789999864 8889988774
No 16
>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=98.26 E-value=6.3e-08 Score=93.98 Aligned_cols=117 Identities=13% Similarity=0.060 Sum_probs=73.7
Q ss_pred CCccEEEEecCCC----CceEEEEeecc----ccc-cccccc-cccccchhhHHHHHHHHHHhhcccCCcEEEEEeCChh
Q psy3199 865 RRTQVFVTSDASD----SGWGARVDNRM----IKG-SWTECQ-KKWHINVKELFAVQMSLEKNLAYVQNKVVLIQSDNLT 934 (1144)
Q Consensus 865 P~~dfiLyTDASd----SGIGAVL~Qe~----aSg-tWSeaE-rnySIneRELLAVVlALe~fr~yL~Gk~flVrTDNKT 934 (1144)
|+..+.||||+|. .|+|+++.... .++ .....+ ...+.+..|+.|++.||+..... |.+|.|+||++.
T Consensus 3 ~~~~i~iytDGs~~~g~~G~G~vi~~~g~~~~~~~~~~~~~~~~~~tNn~aEl~A~~~AL~~a~~~--~~~v~I~tDS~~ 80 (147)
T 2kq2_A 3 DRTEYDVYTDGSYVNGQYAWAYAFVKDGKVHYEDADVGKNPAAATMRNVAGEIAAALYAVKKASQL--GVKIRILHDYAG 80 (147)
T ss_dssp TTSCCEEECCCCCBTTBCEEEEEEEETTEEEEEEEEECCCGGGGGTCTTHHHHHHHHHHHHHHHHH--TCCCCBSSCCST
T ss_pred CCCeEEEEECCCCCCCCcEEEEEEEECCEEEEEEeccccccccccccHHHHHHHHHHHHHHHHHHC--CCeEEEEECcHH
Confidence 3456889999997 49999986421 112 111111 13478899999999999964321 338999999998
Q ss_pred HHHHHHhcCCCCChhhhhHHHHHHHHHHhcceeEEEEEecCC----cccCCCcCCCC
Q psy3199 935 VVCYIQKQGGTKSINLLRGVEEIFRIATVHNITVQAQYIPGM----YNNIADSLSRS 987 (1144)
Q Consensus 935 AVSyLnKqgSkrSp~LnrLARrI~~wLee~nIdftaeHIPGk----eNvVADALSR~ 987 (1144)
+..++++.-.++.... .....+..+..-.+++.||||. .|..||.|+|.
T Consensus 81 i~~w~~~~w~~~~~~~----~~~~~l~~~l~~~v~~~wV~gH~g~~~Ne~AD~LA~~ 133 (147)
T 2kq2_A 81 IAFWATGEWKAKNEFT----QAYAKLMNQYRGIYSFEKVKAHSGNEFNDYVDMKAKS 133 (147)
T ss_dssp HHHHTTSSSSCCHHHH----HHHHCGGGGGSTTCCBCCCCCCCCCHHHHHHHHHHHH
T ss_pred HHHHHhCCCccCCcch----HHHHHHHHHhcCCeeEEEecCcCCCcchHHHHHHHHH
Confidence 8887765322222111 1111112221115677999984 59999999885
No 17
>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=97.95 E-value=8.1e-06 Score=80.13 Aligned_cols=116 Identities=13% Similarity=-0.034 Sum_probs=71.2
Q ss_pred CccEEEEecCCCC------ceEEEEeeccccccccccccccccchhhHHHHHHHHHHhhcccCCcEEEEEeCChhHHHHH
Q psy3199 866 RTQVFVTSDASDS------GWGARVDNRMIKGSWTECQKKWHINVKELFAVQMSLEKNLAYVQNKVVLIQSDNLTVVCYI 939 (1144)
Q Consensus 866 ~~dfiLyTDASdS------GIGAVL~Qe~aSgtWSeaErnySIneRELLAVVlALe~fr~yL~Gk~flVrTDNKTAVSyL 939 (1144)
...+.||||+|.. |||+|+.........+......+.|..|++|++.||+..... |.++.|+||++.++.++
T Consensus 9 ~~~~~iy~DGa~~gNpG~~G~G~vl~~~g~~~~~~~~~~~~TNN~aEl~A~i~aL~~~~~~--~~~v~i~tDS~~vi~w~ 86 (142)
T 1zbf_A 9 IIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKER--NSRKPIYSNSQTAIKWV 86 (142)
T ss_dssp CCSSSEEEEEEECSSSEEEEEEEEETTTCCEEEECCCEEEECHHHHHHHHHHHHHHHHHHT--TCCCCEEESCHHHHHHH
T ss_pred CCeEEEEEeeccCCCCCCeEEEEEEEeCCEEEEEecccCCcCcHHHHHHHHHHHHHHHHhC--CCeEEEEEehHHHHHHH
Confidence 3457899999863 899998621111111122335678999999999999986432 11799999999999999
Q ss_pred HhcCCC-------CChhhhhHHHHHHHHHHhcceeEEEEEecCC--cccCCCc
Q psy3199 940 QKQGGT-------KSINLLRGVEEIFRIATVHNITVQAQYIPGM--YNNIADS 983 (1144)
Q Consensus 940 nKqgSk-------rSp~LnrLARrI~~wLee~nIdftaeHIPGk--eNvVADA 983 (1144)
++...+ ++..|-....+...|+..+.+...+..--.+ -|..||.
T Consensus 87 ~~~~~k~~~~~~v~n~dLw~~l~~~~~w~~~~~~~~~~~kw~~~~~ge~pad~ 139 (142)
T 1zbf_A 87 KDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADY 139 (142)
T ss_dssp HHTCCCCCCCCSTTTHHHHHHHHHHHHHHHHCCCCCCEEECCHHHHCSCTTCC
T ss_pred HcCCccCCCCCCcccHHHHHHHHHHHHHHhhCCCceeEEEeccCccCcCcccc
Confidence 886522 1222223333445567776654333322222 4456664
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=97.66 E-value=4.8e-05 Score=74.69 Aligned_cols=74 Identities=14% Similarity=-0.010 Sum_probs=52.6
Q ss_pred cEEEEecCCC------CceEEEEeeccccccccccccccccchhhHHHHHHHHHHhhcccCCcEEEEEeCChhHHHHHHh
Q psy3199 868 QVFVTSDASD------SGWGARVDNRMIKGSWTECQKKWHINVKELFAVQMSLEKNLAYVQNKVVLIQSDNLTVVCYIQK 941 (1144)
Q Consensus 868 dfiLyTDASd------SGIGAVL~Qe~aSgtWSeaErnySIneRELLAVVlALe~fr~yL~Gk~flVrTDNKTAVSyLnK 941 (1144)
...||||+|. .|+|+|+................+.|..|++|++.||+.... .+.++.|+||++.++.++++
T Consensus 5 ~~~iytDGac~GNPGp~G~ggV~~~~g~~~~~~g~~~~tTNN~aEl~A~i~aL~~l~~--~~~~v~i~tDSqyVi~wi~~ 82 (134)
T 4htu_A 5 WESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKE--RNSRKPIYSNSQTAIKWVKD 82 (134)
T ss_dssp SSSEEEEEEEETTTEEEEEEEEETTTCCEEEEEEEEEEECHHHHHHHHHHHHHHHHHH--TTCCCCEEESCHHHHHHHHH
T ss_pred ceEEEEeeccCCCCCCeEEEEEEEECCEEEEEecCCCCCchHHHHHHHHHHHHHHHHh--CCCCEEEEcchHHHHHHHHc
Confidence 3469999996 378788754211111222234568899999999999998644 24358999999999999987
Q ss_pred cC
Q psy3199 942 QG 943 (1144)
Q Consensus 942 qg 943 (1144)
.+
T Consensus 83 ~~ 84 (134)
T 4htu_A 83 KK 84 (134)
T ss_dssp TC
T ss_pred CC
Confidence 53
No 19
>3fsi_A RT, reverse transcriptase domain; transferase/DNA MMLV RT, protein-DNA complex, drug-DNA complex; HET: OWL; 1.75A {Moloney murine leukemia virus} SCOP: e.8.1.2 PDB: 1d1u_A 1n4l_A* 1ztt_A 2fjv_A* 2fjw_A 2fjx_A* 2fvp_A 2fvq_A 2fvr_A 2fvs_A 2r2r_A* 2r2s_A* 2r2t_A* 2r2u_A* 1ztw_A* 1i6j_A 1qaj_A* 1d0e_A* 1nnd_A 1mml_A ...
Probab=96.55 E-value=0.00013 Score=75.81 Aligned_cols=85 Identities=13% Similarity=0.048 Sum_probs=72.9
Q ss_pred cCCCccccccchhhHhhhhHHHHHHHHhcC----CCccccchhhhhccccccccccccchhhhhccchhHHHHhhhhccC
Q psy3199 684 CNDGAFGILCHGLILQRLALADTINMVVSK----HPSVKSDLISALSSKESMFKKTSDNLLQYVCGKRAEAIASRRKLLE 759 (1144)
Q Consensus 684 ~~~~~fg~~~~~~ifqrl~l~d~~~e~~~~----~~~V~~Dli~~~s~~e~~~~~~~~n~L~~lc~~~~~~va~k~~ll~ 759 (1144)
.+--.||++|+|.+||+ .+..+++++.++ +..+|.|||.+.|..+..|..+...++..+.........+||.+..
T Consensus 162 ~~~mPfGl~~sP~~fq~-~m~~il~~~~~~~~~~~v~~Y~DDili~s~~~eeh~~~l~~v~~~L~~~gl~l~~~Kc~f~~ 240 (255)
T 3fsi_A 162 WTRLPQGFKNSPTLFDE-ALHRDLADFRIQHPDLILLQYVDDLLLAATSELDCQQGTRALLQTLGNLGYRASAKKAQICQ 240 (255)
T ss_dssp ESBCCTTCTTHHHHHHH-HHHHHTHHHHHHCTTCEEEEETTEEEEEESSHHHHHHHHHHHHHHHHHHTCCBCTTTCEEEE
T ss_pred EEEeCCCCCCcHHHHHH-HHHHHHHHHHHhCcCcEEEEEcCCeEEEeCCHHHHHHHHHHHHHHHHHCCeEECHHHhcccC
Confidence 34446999999999999 899999998764 6789999999999999999999888888887777777888999988
Q ss_pred cccccCcccc
Q psy3199 760 PAIRVPPRIL 769 (1144)
Q Consensus 760 pTVRLP~rI~ 769 (1144)
+++..++.++
T Consensus 241 ~~~~fLG~~i 250 (255)
T 3fsi_A 241 KQVKYLGYLL 250 (255)
T ss_dssp SEEEETTEEE
T ss_pred CceEEEEEEE
Confidence 8898888744
No 20
>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=51.13 E-value=7 Score=45.23 Aligned_cols=109 Identities=17% Similarity=0.091 Sum_probs=76.6
Q ss_pred ccEEEEecCCC------CceEEEEeeccccccccccccccccchhhHHHHHHHHHHhhcccCCcEEEEEeCChhHHHHHH
Q psy3199 867 TQVFVTSDASD------SGWGARVDNRMIKGSWTECQKKWHINVKELFAVQMSLEKNLAYVQNKVVLIQSDNLTVVCYIQ 940 (1144)
Q Consensus 867 ~dfiLyTDASd------SGIGAVL~Qe~aSgtWSeaErnySIneRELLAVVlALe~fr~yL~Gk~flVrTDNKTAVSyLn 940 (1144)
..+.+|||||. .|+|+++.... .... .....+.|..|+.|++.||+.. .+++.|+||++.++..++
T Consensus 438 ~~~~iytDGs~~~n~g~~g~g~v~~~~~-~~~~--~~~~~TNn~aEl~Ai~~aL~~~-----~~~v~I~tDS~~vi~~i~ 509 (557)
T 2zd1_A 438 GAETFYVDGAANRETKLGKAGYVTNKGR-QKVV--PLTNTTNQKTELQAIYLALQDS-----GLEVNIVTDSQYALGIIQ 509 (557)
T ss_dssp TSCEEEEEEEECTTTCCEEEEEEETTSC-EEEE--EECSCCHHHHHHHHHHHHHHHS-----CSEEEEEECCHHHHHHHT
T ss_pred CCEEEEEccCCCCCCCceEEEEEEECCc-EEEe--cCCCCCHHHHHHHHHHHHHHhC-----CCcEEEEeChHHHHHHHh
Confidence 45899999984 37888875211 1111 2334578899999999999975 679999999999999998
Q ss_pred hcCCCCChhhhhHHHHHHHHHHhcceeEEEEEecCC----cccCCCcCCCC
Q psy3199 941 KQGGTKSINLLRGVEEIFRIATVHNITVQAQYIPGM----YNNIADSLSRS 987 (1144)
Q Consensus 941 KqgSkrSp~LnrLARrI~~wLee~nIdftaeHIPGk----eNvVADALSR~ 987 (1144)
+...+ ....+++++...+.+. ..+.+.||||. .|..||.|++.
T Consensus 510 ~~~~~---~~~~l~~~~~~~l~~~-~~v~~~wV~~H~g~~~Ne~AD~LA~~ 556 (557)
T 2zd1_A 510 AQPDK---SESELVNQIIEQLIKK-EKVYLAWVPAHKGIGGNEQVDKLVSA 556 (557)
T ss_dssp TCCSE---ESSHHHHHHHHHHHHC-SEEEEEECCSSSCCTTCCGGGGCC--
T ss_pred cCCcc---CCHHHHHHHHHHHhcC-CCEEEEEcCCCCCChhHHHHHHHHhc
Confidence 74322 1234555555444443 36889999994 59999999874
No 21
>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=47.22 E-value=8.2 Score=44.62 Aligned_cols=20 Identities=20% Similarity=0.009 Sum_probs=15.2
Q ss_pred CccEEEEecCCC------CceEEEEe
Q psy3199 866 RTQVFVTSDASD------SGWGARVD 885 (1144)
Q Consensus 866 ~~dfiLyTDASd------SGIGAVL~ 885 (1144)
...+.+|||+|. .|+|+++.
T Consensus 434 ~~~~~iytDGs~~~n~g~~g~G~v~~ 459 (555)
T 1mu2_A 434 PGAETFYTDGSCNRQSKEGKAGYVTD 459 (555)
T ss_dssp TTCEEEEEEEEECTTTCCEEEEEEET
T ss_pred CCceEEEEcccccCCCCCceEEEEEE
Confidence 346899999984 37888875
Done!