Query psy17737
Match_columns 493
No_of_seqs 201 out of 671
Neff 7.4
Searched_HMMs 29240
Date Fri Aug 16 21:40:26 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17737.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/17737hhsearch_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 99.1 9.1E-12 3.1E-16 131.6 0.7 175 20-221 244-428 (455)
2 3hst_B Protein RV2228C/MT2287; 98.4 2.3E-07 7.8E-12 81.5 6.2 114 131-259 3-128 (141)
3 2ehg_A Ribonuclease HI; RNAse 98.4 4.2E-07 1.4E-11 80.9 6.8 117 132-261 2-131 (149)
4 3u3g_D Ribonuclease H, RNAse H 98.4 4.8E-07 1.7E-11 79.0 6.6 118 131-259 3-132 (140)
5 2zd1_A Reverse transcriptase/r 98.2 7.7E-06 2.6E-10 88.3 13.5 112 20-149 226-345 (557)
6 1mu2_A HIV-2 RT; HIV-2 reverse 98.1 7.1E-06 2.4E-10 88.6 10.9 113 19-149 223-343 (555)
7 3oym_A PFV integrase, P42IN; p 98.0 3.7E-06 1.3E-10 86.3 5.8 76 402-491 31-107 (395)
8 2kq2_A Ribonuclease H-related 97.8 1.4E-05 4.9E-10 71.0 4.9 116 130-260 5-133 (147)
9 2zd1_B P51 RT; P51/P66, hetero 97.8 2.6E-05 8.8E-10 81.5 7.6 170 20-219 224-403 (428)
10 2qkb_A Ribonuclease H1, HS-RNA 97.7 4.3E-05 1.5E-09 68.3 6.3 115 130-259 6-146 (154)
11 2e4l_A Ribonuclease HI, RNAse 97.6 9.6E-05 3.3E-09 66.4 7.6 112 131-261 6-142 (158)
12 3qio_A GAG-POL polyprotein; RN 97.6 1.4E-05 4.7E-10 71.4 1.5 107 130-260 11-143 (150)
13 1jl1_A Ribonuclease HI; RNAse 97.6 0.00013 4.3E-09 65.4 7.8 111 131-260 4-139 (155)
14 3h08_A RNH (ribonuclease H); R 97.6 9.3E-05 3.2E-09 65.4 6.7 111 130-259 3-139 (146)
15 3p1g_A Xenotropic murine leuke 97.5 0.00023 7.8E-09 64.5 8.4 99 130-251 22-133 (165)
16 1ril_A Ribonuclease H; hydrola 97.5 2.6E-05 9E-10 70.7 1.4 111 131-260 8-144 (166)
17 3nnq_A Integrase P46, N-termin 97.4 6.2E-05 2.1E-09 63.0 2.6 71 403-491 28-103 (114)
18 4htu_A Ribonuclease H, RNAse H 97.4 3.9E-05 1.3E-09 67.0 1.0 72 132-221 6-83 (134)
19 1zbf_A Ribonuclease H-related 97.0 0.0011 3.7E-08 58.5 6.2 73 131-221 11-89 (142)
20 2lsn_A Reverse transcriptase; 96.9 0.0028 9.4E-08 57.3 8.4 108 130-251 6-139 (165)
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=99.11 E-value=9.1e-12 Score=131.65 Aligned_cols=175 Identities=10% Similarity=0.048 Sum_probs=120.6
Q ss_pred CCCcceEeEEEecCCCeEEEecCC----ccCCCCccHhHHHHhHhcccccCCCCcceeecchhhhhhhhh-----ccCCC
Q psy17737 20 NKVQNVLGLTWDTDIDTLSIKHGE----LQCSGKLTKRLLLSVYGSIYDVLGLFTPVVLPLKILIQSVWQ-----RNLSW 90 (493)
Q Consensus 20 ~~~~k~LG~~W~~~~D~l~~~~~~----~~~~~~~TkR~ilS~ias~yDPLGl~~p~~l~~K~llq~l~~-----~~~~W 90 (493)
....+.||+.++.. .+...... ..-+.+.|++++.|+++. +|++..++-....+++-|++ ..+.|
T Consensus 244 ~~~~~fLG~~i~~~--gi~~~~~kv~~i~~~~~p~t~k~l~~flG~----~~y~r~fi~~~~~~~~pL~~llkk~~~~~W 317 (455)
T 1rw3_A 244 QKQVKYLGYLLKEG--QRWLTEARKETVMGQPTPKTPRQLREFLGT----AGFCRLWIPGFAEMAAPLYPLTKTGTLFNW 317 (455)
T ss_dssp BSSCEETTEEESSS--EECCCTTCCCCCCCCCTTTHHHHHHHTTTT----TCCCSSCCCCCGGGCCTTCC--------CC
T ss_pred ccceeEeeeeccCC--eeEEChhHhhhhccCCCCCCHHHhhhhccc----chHHHHHHhhhhhhcccHHHHhcCCCCcCc
Confidence 45679999999863 33332211 112456799999999864 45555555554444444433 25788
Q ss_pred CccCChhHHHHHHHHHHHHhcccceeceeEEeccCCCCceeEEeecccccccceeeEEEEEeeCCCcee-eeeecccccC
Q psy17737 91 DEELSTEDKITFMKLIEDIKLIHTVHIPRLIGNLIPGTQYELHGFSDASATSYSMVIYLKCITGNSVTS-NLVFAKARIA 169 (493)
Q Consensus 91 D~~i~~e~~~~w~~~~~~l~~~~~~~iPR~~~~~~~~~~~~L~vF~DAS~~a~gav~y~r~~~~~g~~~-~ll~aksrv~ 169 (493)
++. ..+.|+++.+.+.+.+.+..|+.- .++++|||||..|+|||++.. .+|... ....||+...
T Consensus 318 ~~~----~~~af~~lK~~l~~~pvL~~p~~~--------~~~~l~~DAS~~~~gavL~q~---~~~~~~~i~y~Sk~l~~ 382 (455)
T 1rw3_A 318 GPD----QQKAYQEIKQALLTAPALGLPDLT--------KPFELFVDEKQGYAKGVLTQK---LGPWRRPVAYLSKKLDP 382 (455)
T ss_dssp CCC----CSSSCCHHHHHTCSSCCSCCSSSC--------CTTSCEEEEEECSSSBEECCB---CTTTTCCCCCCCBCSCS
T ss_pred hHH----HHHHHHHHHHHhhcCcccccCCCC--------CcEEEEEeccCCcceeEEEEe---cCCcEEEEEEEcccCCc
Confidence 874 566788899999887555555532 578999999999999988764 244444 4455666445
Q ss_pred CCCCCccchhhhhHHHHHhhhhHHHhhhhcccceeEEEecchhhhHHHHhcC
Q psy17737 170 PLSRPTLPRLELLGALIAYRGLKFVGESLKVKDIKYYLWIDSQIVIHWILGN 221 (493)
Q Consensus 170 P~k~~tIpRlEL~a~~~~~~l~~~~~~~l~~~~~~~~~~tDS~i~l~~l~~~ 221 (493)
+.++++++.+||+|++.|++.+...... ..++++||+. +++|+.+.
T Consensus 383 ~e~~ys~~ekEllAi~~a~~~~~~yl~g-----~~~~v~tDh~-~~~~l~~~ 428 (455)
T 1rw3_A 383 VAAGWPPCLRMVAAIAVLTKDAGKLTMG-----QPLVIKAPHA-VEALVKQP 428 (455)
T ss_dssp SCSSSCCSSHHHHHHHHHHHHHHGGGCS-----SCEEEECSSC-TTTTSSST
T ss_pred cccccchHHHHHHHHHHHHHHHHHHcCC-----CcEEEEecCh-HHHHhCCC
Confidence 5569999999999999999988754333 4789999998 88888876
No 2
>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=98.43 E-value=2.3e-07 Score=81.48 Aligned_cols=114 Identities=17% Similarity=0.199 Sum_probs=77.2
Q ss_pred eEEeecccccc------cceeeEEEEEeeCC-CceeeeeecccccCCCCCCccchhhhhHHHHHhhhhHHHhhhhcccce
Q psy17737 131 ELHGFSDASAT------SYSMVIYLKCITGN-SVTSNLVFAKARIAPLSRPTLPRLELLGALIAYRGLKFVGESLKVKDI 203 (493)
Q Consensus 131 ~L~vF~DAS~~------a~gav~y~r~~~~~-g~~~~ll~aksrv~P~k~~tIpRlEL~a~~~~~~l~~~~~~~l~~~~~ 203 (493)
.+.+|+|||-. |||++++. .+ |....-+ +. +....|-.+.||.|++.|++++..+ .+.
T Consensus 3 ~~~iy~DGs~~~~~g~~g~G~v~~~----~~~~~~~~~~-~~----~~~~~tn~~aEl~A~~~aL~~a~~~------~~~ 67 (141)
T 3hst_B 3 KVVIEADGGSRGNPGPAGYGAVVWT----ADHSTVLAES-KQ----AIGRATNNVAEYRGLIAGLDDAVKL------GAT 67 (141)
T ss_dssp EEEEEEEEEESSSSEEEEEEEEEEE----TTSCSEEEEE-EE----EEEEECHHHHHHHHHHHHHHHHHHH------TCS
T ss_pred EEEEEEecCCCCCCCCcEEEEEEEe----CCCCcEEEee-ec----cCCCCchHHHHHHHHHHHHHHHHHC------CCc
Confidence 68899999965 66665442 22 3221111 11 1125688999999999999988642 347
Q ss_pred eEEEecchhhhHHHHhcC-CccChhhhHHHHHHHHhc---cccceEEecCCCCC-Cccccc
Q psy17737 204 KYYLWIDSQIVIHWILGN-KVLPTFINNRVKEIKNRS---FKLDVHYVPTDMNP-ADIACR 259 (493)
Q Consensus 204 ~~~~~tDS~i~l~~l~~~-~~~~~fv~nRv~~I~~~~---~~~~~~hv~~~~Np-AD~~SR 259 (493)
++.++|||+.++.++.+. +.-..-....+.+|+++. ..+.|.|||...|- ||.+.+
T Consensus 68 ~v~i~tDS~~vv~~i~~~~~~~~~~l~~~~~~i~~l~~~~~~v~~~~V~~~~N~~AD~LA~ 128 (141)
T 3hst_B 68 EAAVLMDSKLVVEQMSGRWKVKHPDLLKLYVQAQALASQFRRINYEWVPRARNTYADRLAN 128 (141)
T ss_dssp EEEEEESCHHHHHHHTTSSCCCSHHHHHHHHHHHHHHTTSSEEEEEECCGGGCHHHHHHHH
T ss_pred eEEEEeChHHHHHHHhCCcccCCHHHHHHHHHHHHHHhcCCeEEEEEcCCcccHHHHHHHH
Confidence 899999999999999975 222222334445555544 46899999999994 997765
No 3
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=98.39 E-value=4.2e-07 Score=80.93 Aligned_cols=117 Identities=21% Similarity=0.209 Sum_probs=77.1
Q ss_pred EEeecccccc-------c-ceeeEEEEEeeCCCceeeeeecccccCCC-CCCccchhhhhHHHHHhhhhHHHhhhhcccc
Q psy17737 132 LHGFSDASAT-------S-YSMVIYLKCITGNSVTSNLVFAKARIAPL-SRPTLPRLELLGALIAYRGLKFVGESLKVKD 202 (493)
Q Consensus 132 L~vF~DAS~~-------a-~gav~y~r~~~~~g~~~~ll~aksrv~P~-k~~tIpRlEL~a~~~~~~l~~~~~~~l~~~~ 202 (493)
+.+|+|||-. | ||++++. +|.... -+++ .+.|. ...|-.+.||.|++.|++++..+ .+
T Consensus 2 ~~iy~DGs~~~~n~g~~G~~G~vi~~-----~g~~~~-~~~~-~~~~~~~~~tnn~aEl~A~~~aL~~a~~~------g~ 68 (149)
T 2ehg_A 2 IIGYFDGLCEPKNPGGIATFGFVIYL-----DNRKIE-GYGL-AEKPFSINSTNNVAEYSGLICLMETMLRL------GI 68 (149)
T ss_dssp CEEEEEEEEESSSSSSEEEEEEEEEC-----SSCEEE-EEEE-CSCTTCTTCCHHHHHHHHHHHHHHHHHHH------TC
T ss_pred EEEEEeeccCCCCCChheEEEEEEEE-----CCEEEE-Eecc-ccCCCCCCccHHHHHHHHHHHHHHHHHHc------CC
Confidence 4689999876 3 5766542 343211 1111 13343 26789999999999999988643 34
Q ss_pred eeEEEecchhhhHHHHhcC-CccChhhhHHHHHHHHhcc--ccceEEecCCCC-CCccccccc
Q psy17737 203 IKYYLWIDSQIVIHWILGN-KVLPTFINNRVKEIKNRSF--KLDVHYVPTDMN-PADIACRGE 261 (493)
Q Consensus 203 ~~~~~~tDS~i~l~~l~~~-~~~~~fv~nRv~~I~~~~~--~~~~~hv~~~~N-pAD~~SRg~ 261 (493)
.++.++|||+.++.++.+. +.-..-...-+.+|+++.. .+.|.|||+..| .||.+.|-.
T Consensus 69 ~~v~i~tDS~~vi~~i~~~w~~~~~~~~~l~~~i~~l~~~~~v~~~~V~~~~N~~AD~LA~~a 131 (149)
T 2ehg_A 69 SSPIIKGDSQLVIKQMNGEYKVKAKRIIPLYEKAIELKKKLNATLIWVPREENKEADRLSRVA 131 (149)
T ss_dssp CSCEEEESCHHHHHHHTTSSCCCCTTHHHHHHHHHHHHHHHTCEEEECCGGGCHHHHHHHHHH
T ss_pred CEEEEEeChHHHHHHHhCccccCCHHHHHHHHHHHHHHhcCCEEEEEcCCcccHHHHHHHHHH
Confidence 6899999999999999986 2111112233344443322 589999999999 499887643
No 4
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=98.36 E-value=4.8e-07 Score=79.04 Aligned_cols=118 Identities=21% Similarity=0.257 Sum_probs=74.8
Q ss_pred eEEeecccccc------cceeeEEEEEeeCCCceeeeeecccccCCCCCCccchhhhhHHHHHhhhhHHHhhhhccccee
Q psy17737 131 ELHGFSDASAT------SYSMVIYLKCITGNSVTSNLVFAKARIAPLSRPTLPRLELLGALIAYRGLKFVGESLKVKDIK 204 (493)
Q Consensus 131 ~L~vF~DAS~~------a~gav~y~r~~~~~g~~~~ll~aksrv~P~k~~tIpRlEL~a~~~~~~l~~~~~~~l~~~~~~ 204 (493)
.+.+|+|||-. |||++++ +.+|....-+ +. .+ ...|..+.||.|++.|++++...- .......
T Consensus 3 ~~~iy~DGs~~~n~g~~G~G~v~~----~~~g~~~~~~-~~-~~---~~~tn~~aEl~A~~~aL~~a~~~~--~~~~~~~ 71 (140)
T 3u3g_D 3 KIIIYTDGGARGNPGPAGIGVVIT----DEKGNTLHES-SA-YI---GETTNNVAEYEALIRALEDLQMFG--DKLVDME 71 (140)
T ss_dssp EEEEEEEEEESSTTEEEEEEEEEE----CTTSCEEEEE-EE-EE---EEECHHHHHHHHHHHHHHHHGGGG--GGGTTCE
T ss_pred eEEEEEecCCCCCCCCcEEEEEEE----eCCCCEEEEE-Ee-eC---CCCchHHHHHHHHHHHHHHHHHcC--CCCCCce
Confidence 58899999973 5665443 2345332111 11 11 135889999999999999876431 0001238
Q ss_pred EEEecchhhhHHHHhcC-CccChhhh---HHHHHH-HHhccccceEEecCCCCC-Cccccc
Q psy17737 205 YYLWIDSQIVIHWILGN-KVLPTFIN---NRVKEI-KNRSFKLDVHYVPTDMNP-ADIACR 259 (493)
Q Consensus 205 ~~~~tDS~i~l~~l~~~-~~~~~fv~---nRv~~I-~~~~~~~~~~hv~~~~Np-AD~~SR 259 (493)
+.++|||+.++.++.+. +.-..-.. .++.++ .+....+.|.|||...|- ||.+.+
T Consensus 72 v~i~tDS~~vi~~i~~~~~~~~~~l~~~~~~i~~l~~~~~~~v~~~~V~~~~N~~AD~LA~ 132 (140)
T 3u3g_D 72 VEVRMDSELIVRQMQGVYKVKEPTLKEKFAKIAHIKMERVPNLVFVHIPREKNARADELVN 132 (140)
T ss_dssp EEEEESCHHHHHHHTTSSCCCCGGGHHHHHHHHHHHHHHCTTCEEEECCGGGGHHHHHHHH
T ss_pred EEEEeChHHHHHHhCCCcccCCHHHHHHHHHHHHHhhcCCCcEEEEEcCchhhHHHHHHHH
Confidence 99999999999999986 21111122 333333 344457999999999994 887654
No 5
>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} PDB: 3is9_A* 3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A 1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A* 2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ...
Probab=98.23 E-value=7.7e-06 Score=88.34 Aligned_cols=112 Identities=12% Similarity=0.070 Sum_probs=69.2
Q ss_pred CCCcceEeEEEecCCCeEEEecCCccCCCCccHhHHHHhHhc--ccccCCCCcceeecchhhhhhhhh-----ccCCCCc
Q psy17737 20 NKVQNVLGLTWDTDIDTLSIKHGELQCSGKLTKRLLLSVYGS--IYDVLGLFTPVVLPLKILIQSVWQ-----RNLSWDE 92 (493)
Q Consensus 20 ~~~~k~LG~~W~~~~D~l~~~~~~~~~~~~~TkR~ilS~ias--~yDPLGl~~p~~l~~K~llq~l~~-----~~~~WD~ 92 (493)
....+.||+.... +.+.+....++....+|++++-++++. +|-. ++..+. ++-|.+.|-. ..+.|++
T Consensus 226 ~~~~~fLG~~i~~--~gi~~~~~k~~~~~~~t~k~lr~flG~~~~yrr--fi~~~~--~~pl~~ll~~~~~~~~~~~Wt~ 299 (557)
T 2zd1_A 226 EPPFLWMGYELHP--DKWTVQPIVLPEKDSWTVNDIQKLVGKLNWASQ--IYPGIK--VRQLSKLLRGTKALTEVIPLTE 299 (557)
T ss_dssp CSSEEETTEEECS--SCEEESCCCCCCCSCEEHHHHHHHHHHHHHHTT--TSTTCC--CHHHHGGGTTCCCTTCEECCCH
T ss_pred CCceEEeeEEEcc--CcEEEcceecccccCCCHHHHHHHhhHHHhhhh--hccchh--HHHHHHHhcccCCCCCceecCH
Confidence 4456789999765 555554434455566799999998762 1111 111111 1222222222 2477877
Q ss_pred cCChhHHHHHHHHHHHHhcccceeceeEEeccCCCCceeEEeeccccccc-ceeeEEE
Q psy17737 93 ELSTEDKITFMKLIEDIKLIHTVHIPRLIGNLIPGTQYELHGFSDASATS-YSMVIYL 149 (493)
Q Consensus 93 ~i~~e~~~~w~~~~~~l~~~~~~~iPR~~~~~~~~~~~~L~vF~DAS~~a-~gav~y~ 149 (493)
+..+.++++++.|.+.+.+..|.. +..+.++||||..| +|+|++.
T Consensus 300 ----~~~~af~~lK~~L~~~p~L~~pd~--------~~~~~l~~das~~g~~g~vl~q 345 (557)
T 2zd1_A 300 ----EAELELAENREILKEPVHGVYYDP--------SKDLIAEIQKQGQGQWTYQIYQ 345 (557)
T ss_dssp ----HHHHHHHHHHHHTSSCCCBCCCCT--------TSCCEEEEEEEETTEEEEEEEE
T ss_pred ----HHHHHHHHHHHHHhCccceeecCC--------CCCEEEEEecCCCCcEEEEEec
Confidence 889999999999987644433332 25789999999975 5887655
No 6
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug design, transferase; 2.35A {Human immunodeficiency virus 2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B
Probab=98.14 E-value=7.1e-06 Score=88.60 Aligned_cols=113 Identities=12% Similarity=0.078 Sum_probs=69.8
Q ss_pred CCCCcceEeEEEecCCCeEEEecCCccCCCCccHhHHHHhHhcc--cccCCCCcceeecchhhhhhhhh-----ccCCCC
Q psy17737 19 CNKVQNVLGLTWDTDIDTLSIKHGELQCSGKLTKRLLLSVYGSI--YDVLGLFTPVVLPLKILIQSVWQ-----RNLSWD 91 (493)
Q Consensus 19 ~~~~~k~LG~~W~~~~D~l~~~~~~~~~~~~~TkR~ilS~ias~--yDPLGl~~p~~l~~K~llq~l~~-----~~~~WD 91 (493)
.....+.||+.... +.+.+....++...+.|++++-++++.+ |-. ++..+. ++-|...+-. ..+.|+
T Consensus 223 ~~~~~~fLG~~i~~--~gi~~~~~ki~~i~~~t~k~lr~flG~~~~~rr--fi~~~~--~~pL~~llk~~~~~~~~~~wt 296 (555)
T 1mu2_A 223 KDPPYHWMGYELWP--TKWKLQKIQLPQKEIWTVNDIQKLVGVLNWAAQ--LYPGIK--TKHLCRLISGKMTLTEEVQWT 296 (555)
T ss_dssp CSSSEEETTEEECS--SEEEECCCCCCCCSSCBHHHHHHHHHHHHHHHH--HSTTCC--CHHHHTTSCSSSCTTCBCCCC
T ss_pred cCCceeEEeEEEeC--CceeccccccCcCCCCCHHHHHhHhhhhhhhhh--ccCccc--hHHHHHHhccCCCCCCcccCC
Confidence 34567899998765 6666554344444677999988887531 110 011111 2222211111 357787
Q ss_pred ccCChhHHHHHHHHHHHHhcccceeceeEEeccCCCCceeEEeeccccccc-ceeeEEE
Q psy17737 92 EELSTEDKITFMKLIEDIKLIHTVHIPRLIGNLIPGTQYELHGFSDASATS-YSMVIYL 149 (493)
Q Consensus 92 ~~i~~e~~~~w~~~~~~l~~~~~~~iPR~~~~~~~~~~~~L~vF~DAS~~a-~gav~y~ 149 (493)
+ +..+.++++++.|.+.+.+..|.. +..+.++||||..| +|||++.
T Consensus 297 ~----~~~~af~~lK~~L~~~p~L~~p~~--------~~~~~l~~das~~ga~g~vl~Q 343 (555)
T 1mu2_A 297 E----LAEAELEENRIILSQEQEGHYYQE--------EKELEATVQKDQDNQWTYKIHQ 343 (555)
T ss_dssp H----HHHHHHHHHHHHHSCCEEEECBCT--------TSCCEEEEEECSSSCEEEEEEE
T ss_pred H----HHHHHHHHHHHHHhhCccccccCC--------CCCEEEEEecCCCCcEEEEEee
Confidence 6 889999999999987633333332 25899999999995 9988654
No 7
>3oym_A PFV integrase, P42IN; protein-DNA complex; HET: DNA; 2.02A {Human spumaretrovirus} PDB: 3oyn_A* 3s3o_A* 4be2_A* 3l2q_A 3l2s_A 3l2r_A* 3l2u_A* 3l2v_A* 3l2w_A* 3l2t_A* 3os1_A* 3os2_A* 3os0_A* 3oya_A* 3oy9_A* 3oyc_A* 3oyd_A* 3oye_A* 3oyb_A* 3oyg_A* ...
Probab=98.03 E-value=3.7e-06 Score=86.30 Aligned_cols=76 Identities=16% Similarity=0.028 Sum_probs=61.6
Q ss_pred ceeeccCCcEEeccccccccCCCCCCCceEecCCCcchhHHHHHHHHhCCCCChhhhhHHHHHHhhhc-cccchHHHHHh
Q psy17737 402 GLVLDENDILRCKGRFVELKVDGKSCFPMLLPRGNHISKIIVNDIHTSGYHTGDKESKKLSNVARGYY-LDGNHLERRVL 480 (493)
Q Consensus 402 ~pflD~~GllRv~gRl~~s~l~~~~k~Pillp~~~~lt~Lii~~~H~~~~H~G~~~t~~l~~lr~~yW-~~~r~~vr~vi 480 (493)
..|..+||+|++.+. ++..++|++ .+...|+..+|+ .+|.|...| ...|++.|| +++++.+++++
T Consensus 31 ~~y~~~~g~ly~~~~----------~g~~~~~~~-~~~~~il~~~H~-~gH~g~~~~--~~~l~~~~~~~~~~~~v~~~~ 96 (395)
T 3oym_A 31 YTYFLEDGKVKVSRP----------EGVKIIPPQ-SDRQKIVLQAHN-LAHTGREAT--LLKIANLYWWPNMRKDVVKQL 96 (395)
T ss_dssp SCEEEETTEEEEEET----------TEEEECCCH-HHHHHHHHHHHH-TTTCCHHHH--HHHHHTTBCCTTHHHHHHHHH
T ss_pred CcEEEECCEEEEEcC----------CCcEEECCH-HHHHHHHHHHHh-cCCCCHHHH--HHHHhCCeECCCHHHHHHHhC
Confidence 346666898887541 122445543 468889999999 899999999 999999999 99999999999
Q ss_pred cCCcccccccc
Q psy17737 481 LGSRLLSGWVR 491 (493)
Q Consensus 481 ~~C~~C~r~~~ 491 (493)
+.|..||+.|.
T Consensus 97 ~~C~~C~~~k~ 107 (395)
T 3oym_A 97 GRCQQCLITNA 107 (395)
T ss_dssp TTCHHHHHHSC
T ss_pred ccChhhcccCC
Confidence 99999998764
No 8
>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=97.82 E-value=1.4e-05 Score=71.02 Aligned_cols=116 Identities=15% Similarity=0.085 Sum_probs=72.8
Q ss_pred eeEEeeccccc----ccceeeEEEEEeeCCCceeeeeecc-cccCCC-CCCccchhhhhHHHHHhhhhHHHhhhhcccce
Q psy17737 130 YELHGFSDASA----TSYSMVIYLKCITGNSVTSNLVFAK-ARIAPL-SRPTLPRLELLGALIAYRGLKFVGESLKVKDI 203 (493)
Q Consensus 130 ~~L~vF~DAS~----~a~gav~y~r~~~~~g~~~~ll~ak-srv~P~-k~~tIpRlEL~a~~~~~~l~~~~~~~l~~~~~ 203 (493)
..+.+|+|+|- .|||++++. +|.... + +. ....|. ...|-.|.||.|+..|++++... ..
T Consensus 5 ~~i~iytDGs~~~g~~G~G~vi~~-----~g~~~~-~-~~~~~~~~~~~~~tNn~aEl~A~~~AL~~a~~~------~~- 70 (147)
T 2kq2_A 5 TEYDVYTDGSYVNGQYAWAYAFVK-----DGKVHY-E-DADVGKNPAAATMRNVAGEIAAALYAVKKASQL------GV- 70 (147)
T ss_dssp SCCEEECCCCCBTTBCEEEEEEEE-----TTEEEE-E-EEEECCCGGGGGTCTTHHHHHHHHHHHHHHHHH------TC-
T ss_pred CeEEEEECCCCCCCCcEEEEEEEE-----CCEEEE-E-EeccccccccccccHHHHHHHHHHHHHHHHHHC------CC-
Confidence 36789999997 567765542 343211 1 11 111121 14689999999999999975432 23
Q ss_pred eEEEecchhhhHHHHhcC-Cc-cChhhhHHHHHHHHhccccceEEecCCC----C-CCcccccc
Q psy17737 204 KYYLWIDSQIVIHWILGN-KV-LPTFINNRVKEIKNRSFKLDVHYVPTDM----N-PADIACRG 260 (493)
Q Consensus 204 ~~~~~tDS~i~l~~l~~~-~~-~~~fv~nRv~~I~~~~~~~~~~hv~~~~----N-pAD~~SRg 260 (493)
.+.++|||+.+..|+.+. +. -+..+.++ ..++++...+.|.||||-. | -||.+.|-
T Consensus 71 ~v~I~tDS~~i~~w~~~~w~~~~~~~~~~~-~l~~~l~~~v~~~wV~gH~g~~~Ne~AD~LA~~ 133 (147)
T 2kq2_A 71 KIRILHDYAGIAFWATGEWKAKNEFTQAYA-KLMNQYRGIYSFEKVKAHSGNEFNDYVDMKAKS 133 (147)
T ss_dssp CCCBSSCCSTHHHHTTSSSSCCHHHHHHHH-CGGGGGSTTCCBCCCCCCCCCHHHHHHHHHHHH
T ss_pred eEEEEECcHHHHHHHhCCCccCCcchHHHH-HHHHHhcCCeeEEEecCcCCCcchHHHHHHHHH
Confidence 789999999999999875 21 11223222 2344444478999999854 4 48876653
No 9
>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=97.82 E-value=2.6e-05 Score=81.51 Aligned_cols=170 Identities=10% Similarity=0.009 Sum_probs=104.7
Q ss_pred CCCcceEeEEEecCCCeEEEecCCccCCCCccHhHHHHhHhc--ccccCCCCcceeecchhhhhhhhhc-----cCCCCc
Q psy17737 20 NKVQNVLGLTWDTDIDTLSIKHGELQCSGKLTKRLLLSVYGS--IYDVLGLFTPVVLPLKILIQSVWQR-----NLSWDE 92 (493)
Q Consensus 20 ~~~~k~LG~~W~~~~D~l~~~~~~~~~~~~~TkR~ilS~ias--~yDPLGl~~p~~l~~K~llq~l~~~-----~~~WD~ 92 (493)
....+.||+.... +.+.+....++...+.|++++-|+++. +|-. ++..+. ++-|.+.+-.. .+.|++
T Consensus 224 ~~~~~fLG~~i~~--~~i~~~~~ki~~~~~~t~k~lr~flG~~~yyrr--Fi~~~s--~~pL~~llkk~~~~~~~~~Wt~ 297 (428)
T 2zd1_B 224 EPPFLWMGYELHP--DKWTVQPIVLPEKDSWTVNDIQKLVGKLNWASQ--IYPGIK--VRQLSKLLRGTKALTEVIPLTE 297 (428)
T ss_dssp ---CTTCCEEECG--GGCCCCCCCCCCCSSEEHHHHHHHHHHHHHHTT--TCTTCC--CHHHHHTTCSCCCTTCEECCCH
T ss_pred cceEEEeccEecC--CceEecccccccccccCHHHHHHHhhhHHHHHH--hcCCcc--HHHHHHHHccCCCCCCeecCCH
Confidence 3446789999775 333332222334456799999888752 2211 111111 33333222222 367876
Q ss_pred cCChhHHHHHHHHHHHHhcccceeceeEEeccCCCCceeEEeecccccc-cceeeEEEEEeeCCCceeeeeecccccCCC
Q psy17737 93 ELSTEDKITFMKLIEDIKLIHTVHIPRLIGNLIPGTQYELHGFSDASAT-SYSMVIYLKCITGNSVTSNLVFAKARIAPL 171 (493)
Q Consensus 93 ~i~~e~~~~w~~~~~~l~~~~~~~iPR~~~~~~~~~~~~L~vF~DAS~~-a~gav~y~r~~~~~g~~~~ll~aksrv~P~ 171 (493)
+..++++++++.|.+.+.+..|. .+..+.+.||||.. ++|+|++. ++|. .+.+++ +.+.
T Consensus 298 ----~~~~af~~lK~~L~~~p~l~~pd--------~~~~~~l~~das~~g~~g~vl~q----~~~~---~~~s~~-~~~~ 357 (428)
T 2zd1_B 298 ----EAELELAENREILKEPVHGVYYD--------PSKDLIAEIQKQGQGQWTYQIYQ----EPFK---NLKTGK-YARM 357 (428)
T ss_dssp ----HHHHHHHHHHHHTTSCCTTCCCC--------TTSCCEEEEEEEETTEEEEEEES----STTC---EEEEEE-EECC
T ss_pred ----HHHHHHHHHHHHHhcchhccccC--------CCCCEEEEEecCCCCcEEEEEec----CCCc---eeeecc-cchh
Confidence 88999999999998753333332 22689999999995 66887764 2332 234443 4466
Q ss_pred CCCccchhhhhH-HHHHhhhhH-HHhhhhcccceeEEEecchhhhHHHHh
Q psy17737 172 SRPTLPRLELLG-ALIAYRGLK-FVGESLKVKDIKYYLWIDSQIVIHWIL 219 (493)
Q Consensus 172 k~~tIpRlEL~a-~~~~~~l~~-~~~~~l~~~~~~~~~~tDS~i~l~~l~ 219 (493)
+++++..+|++| ++.+++-.. ++. |...+.++++||++. +.|+.
T Consensus 358 ~~y~~~~~e~la~vv~al~~~r~yl~---G~~~~~~i~~td~~~-~~~~~ 403 (428)
T 2zd1_B 358 RGAHTNDVKQLTEAVQKITTESIVIW---GKTPKFKLPIQKETW-ETWWT 403 (428)
T ss_dssp SSCTTCHHHHHHHHHHHHHHHHHHHH---SSCCEEEESSCHHHH-HHHHH
T ss_pred hhcccchHHHHHHHHHHhhccceEEE---CCCCcEECCccHHHH-HHHHH
Confidence 799999999999 999988777 443 333456788999995 44444
No 10
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=97.71 E-value=4.3e-05 Score=68.28 Aligned_cols=115 Identities=21% Similarity=0.157 Sum_probs=71.3
Q ss_pred eeEEeeccccccc-------ceeeEEEEEeeCCCceeeeeecccccCCCCCCccchhhhhHHHHHhhhhHHHhhhhcccc
Q psy17737 130 YELHGFSDASATS-------YSMVIYLKCITGNSVTSNLVFAKARIAPLSRPTLPRLELLGALIAYRGLKFVGESLKVKD 202 (493)
Q Consensus 130 ~~L~vF~DAS~~a-------~gav~y~r~~~~~g~~~~ll~aksrv~P~k~~tIpRlEL~a~~~~~~l~~~~~~~l~~~~ 202 (493)
..+.+|+|+|-.+ .|+.++++ ++.... .++ ++.. ..|..+.||.|++.|++++.. ...
T Consensus 6 ~~~~iytDGs~~~n~~~~~~aG~Gvv~~----~~~~~~--~~~-~l~~--~~tn~~aEl~A~~~aL~~~~~------~~~ 70 (154)
T 2qkb_A 6 DFVVVYTDGCCSSNGRRRPRAGIGVYWG----PGHPLN--VGI-RLPG--RQTNQRAEIHAACKAIEQAKT------QNI 70 (154)
T ss_dssp TEEEEEEEEEEETTTSSSCEEEEEEECS----TTCTTC--EEE-ECCS--SCCHHHHHHHHHHHHHHHHHH------TTC
T ss_pred CeEEEEEccCcCCCCCCCCcEEEEEEEE----CCCcee--EEe-ecCC--CCchHHHHHHHHHHHHHHHHh------CCC
Confidence 3688999999642 23333433 221111 111 1211 578999999999999998863 245
Q ss_pred eeEEEecchhhhHHHHhcC------CccC----hhhhHH--HHHHHHhcc--ccceEEecCCC----C-CCccccc
Q psy17737 203 IKYYLWIDSQIVIHWILGN------KVLP----TFINNR--VKEIKNRSF--KLDVHYVPTDM----N-PADIACR 259 (493)
Q Consensus 203 ~~~~~~tDS~i~l~~l~~~------~~~~----~fv~nR--v~~I~~~~~--~~~~~hv~~~~----N-pAD~~SR 259 (493)
..+.++|||+.++.-|.+- +.|+ ..+.|+ +.+|.++.. .+.|.|||+-. | -||.+.+
T Consensus 71 ~~v~i~tDS~~vi~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~~~~v~~~~V~~H~g~~~N~~AD~LA~ 146 (154)
T 2qkb_A 71 NKLVLYTNSMFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQGMDIQWMHVPGHSGFIGNEEADRLAR 146 (154)
T ss_dssp CEEEEEESCHHHHHHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHTTCEEEEEECCTTSSCHHHHHHHHHHH
T ss_pred ceEEEEECcHHHHhhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHcCCceEEEEccCCCCCHhHHHHHHHHH
Confidence 7899999999888666542 1222 223332 556655543 48899999854 5 4786654
No 11
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=97.65 E-value=9.6e-05 Score=66.40 Aligned_cols=112 Identities=28% Similarity=0.294 Sum_probs=70.0
Q ss_pred eEEeecccccc------cceeeEEEEEeeCCCceeeeeecccccCCCCCCccchhhhhHHHHHhhhhHHHhhhhccccee
Q psy17737 131 ELHGFSDASAT------SYSMVIYLKCITGNSVTSNLVFAKARIAPLSRPTLPRLELLGALIAYRGLKFVGESLKVKDIK 204 (493)
Q Consensus 131 ~L~vF~DAS~~------a~gav~y~r~~~~~g~~~~ll~aksrv~P~k~~tIpRlEL~a~~~~~~l~~~~~~~l~~~~~~ 204 (493)
.+.+|+|+|-. |||++++. +|.... +.+. + ...|-.+.||.|++.|++++.. ...
T Consensus 6 ~i~iytDGs~~~n~g~~G~G~v~~~-----~~~~~~-~~~~--~---~~~tn~~aEl~A~~~AL~~~~~--------~~~ 66 (158)
T 2e4l_A 6 LIHIFTDGSCLGNPGPGGYGIVMNY-----KGHTKE-MSDG--F---SLTTNNRMELLAPIVALEALKE--------PCK 66 (158)
T ss_dssp EEEEEEEEEESSSSEEEEEEEEEEE-----TTEEEE-EEEE--E---EEECHHHHHHHHHHHHHHTCSS--------CCE
T ss_pred eEEEEEcccccCCCCcEEEEEEEEE-----CCEEEE-EecC--c---CCCccHHHHHHHHHHHHHHhcc--------CCe
Confidence 68899999975 56654432 232111 1111 1 1457889999999999987642 168
Q ss_pred EEEecchhhhHHHHhcC------Ccc----ChhhhHH--HHHHHHhcc--ccceEEecCC----CC-CCccccccc
Q psy17737 205 YYLWIDSQIVIHWILGN------KVL----PTFINNR--VKEIKNRSF--KLDVHYVPTD----MN-PADIACRGE 261 (493)
Q Consensus 205 ~~~~tDS~i~l~~l~~~------~~~----~~fv~nR--v~~I~~~~~--~~~~~hv~~~----~N-pAD~~SRg~ 261 (493)
+.++|||+.++.-|..- +.| ...+.|+ +.+|.++.. .+.|.||||- .| -||.+.+-.
T Consensus 67 v~I~tDS~~vi~~i~~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~g~~~Ne~AD~LAk~a 142 (158)
T 2e4l_A 67 IILTSDSQYMRQGIMTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQLHQIDWRWVKGHAGHAENERCDQLARAA 142 (158)
T ss_dssp EEEEECCHHHHHHHHTHHHHHHHTTTBCTTSSBCTTHHHHHHHHHHHTTSEEEEEECCTTCCCHHHHHHHHHHHHH
T ss_pred EEEEeCHHHHHHHHHHHHHHHHHccccccCCCcccCHHHHHHHHHHHccCcEEEEEccCCCCchhHHHHHHHHHHH
Confidence 99999999998855541 112 1234443 345555443 5889999965 45 488766543
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=97.61 E-value=1.4e-05 Score=71.42 Aligned_cols=107 Identities=20% Similarity=0.167 Sum_probs=66.6
Q ss_pred eeEEeeccccc------ccceeeEEEEEeeCCCceeeeeecccccCCCCCCccchhhhhHHHHHhhhhHHHhhhhcccce
Q psy17737 130 YELHGFSDASA------TSYSMVIYLKCITGNSVTSNLVFAKARIAPLSRPTLPRLELLGALIAYRGLKFVGESLKVKDI 203 (493)
Q Consensus 130 ~~L~vF~DAS~------~a~gav~y~r~~~~~g~~~~ll~aksrv~P~k~~tIpRlEL~a~~~~~~l~~~~~~~l~~~~~ 203 (493)
..+.+|+|+|- .|||+|++ +|.... + +....|-.|.||.|++.|++.. ..
T Consensus 11 ~~~~iytDGs~~~n~g~~g~G~v~~------~~~~~~-~-------~~~~~Tnn~aEl~A~i~AL~~~----------~~ 66 (150)
T 3qio_A 11 GAETFYVDGAANRETKLGKAGYVTN------RGRQKV-V-------TLTDTTNQKTELQAIYLALQDS----------GL 66 (150)
T ss_dssp TCEEEEEEEEECTTTCCEEEEEEET------TSCEEE-E-------EESSCCHHHHHHHHHHHHHHHS----------CS
T ss_pred CCEEEEEccCCCCCCCCeEEEEEEE------cCCEEE-E-------eCCCCCHHHHHHHHHHHHHHhC----------CC
Confidence 46899999995 35554332 222111 1 1246799999999999999863 26
Q ss_pred eEEEecchhhhHHHHhcC------CccC----hhhhHH--HHHHHHh---ccccceEEecCCC----C-CCcccccc
Q psy17737 204 KYYLWIDSQIVIHWILGN------KVLP----TFINNR--VKEIKNR---SFKLDVHYVPTDM----N-PADIACRG 260 (493)
Q Consensus 204 ~~~~~tDS~i~l~~l~~~------~~~~----~fv~nR--v~~I~~~---~~~~~~~hv~~~~----N-pAD~~SRg 260 (493)
.+.++|||+.++.-|.+- +.|+ ..|.|+ +.+|.+. ...+.|.||||.. | -||.+.|-
T Consensus 67 ~v~i~tDS~~v~~~i~~w~~~W~~~gw~~~~g~~v~n~~l~~~l~~~l~~~~~v~~~wV~gH~g~~~Ne~AD~LA~~ 143 (150)
T 3qio_A 67 EVNIVTDSQYALGIITQWIHNWKKRGWKTADKKPVKNVDLVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSA 143 (150)
T ss_dssp EEEEEESCHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHTTCSEEEEEECCTTSCCHHHHHHHHHHHT
T ss_pred cEEEEeCcHHHHHHHHHHHHHHhhcCcCcCcCcccccHHHHHHHHHHHhhcCceEEEEccCcCCChhHHHHHHHHHH
Confidence 899999999988755542 1222 234443 3344332 2458999999997 6 48876553
No 13
>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=97.61 E-value=0.00013 Score=65.36 Aligned_cols=111 Identities=23% Similarity=0.228 Sum_probs=71.0
Q ss_pred eEEeecccccc------cceeeEEEEEeeCCCceeeeeecccccCCCCCCccchhhhhHHHHHhhhhHHHhhhhccccee
Q psy17737 131 ELHGFSDASAT------SYSMVIYLKCITGNSVTSNLVFAKARIAPLSRPTLPRLELLGALIAYRGLKFVGESLKVKDIK 204 (493)
Q Consensus 131 ~L~vF~DAS~~------a~gav~y~r~~~~~g~~~~ll~aksrv~P~k~~tIpRlEL~a~~~~~~l~~~~~~~l~~~~~~ 204 (493)
.+.+|+|+|.. |||++++. ++. ...+.+. + ...|-.+.||.|++.|++++.. ...
T Consensus 4 ~~~iytDGs~~~n~~~~G~G~v~~~-----~~~-~~~~~~~--~---~~~tn~~aEl~A~~~aL~~~~~--------~~~ 64 (155)
T 1jl1_A 4 QVEIFTAGSALGNPGPGGYGAILRY-----RGR-EKTFSAG--Y---TRTTNNRMELMAAIVALEALKE--------HAE 64 (155)
T ss_dssp CEEEEEEEEESSTTEEEEEEEEEEE-----TTE-EEEEEEE--E---EEECHHHHHHHHHHHHHHTCCS--------CCE
T ss_pred eEEEEEccccCCCCCceEEEEEEEE-----CCe-EEEEecC--C---CCCcHHHHHHHHHHHHHHHhCc--------CCc
Confidence 57899999874 45554332 221 1111111 1 2457889999999999987753 268
Q ss_pred EEEecchhhhHHHHhcC------Ccc----ChhhhHH--HHHHHHhcc--ccceEEecCC----CC-CCcccccc
Q psy17737 205 YYLWIDSQIVIHWILGN------KVL----PTFINNR--VKEIKNRSF--KLDVHYVPTD----MN-PADIACRG 260 (493)
Q Consensus 205 ~~~~tDS~i~l~~l~~~------~~~----~~fv~nR--v~~I~~~~~--~~~~~hv~~~----~N-pAD~~SRg 260 (493)
+.++|||+.++.-|.+- +.| ...|.|+ +.+|.++.. .+.|.||||- .| -||.+.+-
T Consensus 65 v~I~tDS~~vi~~i~~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~g~~~Ne~AD~LA~~ 139 (155)
T 1jl1_A 65 VILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHAGHPENERADELARA 139 (155)
T ss_dssp EEEEECCHHHHHHHHTTHHHHHHTTTBCTTSCBCTTHHHHHHHHHHTTTCEEEEEECCSSTTCHHHHHHHHHHHH
T ss_pred EEEEeCHHHHHHHHHHHHHHHhhcccccccCCccCCHHHHHHHHHHHccCceEEEEcCCCCCCHHHHHHHHHHHH
Confidence 99999999999777752 112 2244443 455666554 5889999965 45 48877654
No 14
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=97.60 E-value=9.3e-05 Score=65.38 Aligned_cols=111 Identities=20% Similarity=0.226 Sum_probs=65.7
Q ss_pred eeEEeeccccc------ccceeeEEEEEeeCCCceeeeeecccccCCCCCCccchhhhhHHHHHhhhhHHHhhhhcccce
Q psy17737 130 YELHGFSDASA------TSYSMVIYLKCITGNSVTSNLVFAKARIAPLSRPTLPRLELLGALIAYRGLKFVGESLKVKDI 203 (493)
Q Consensus 130 ~~L~vF~DAS~------~a~gav~y~r~~~~~g~~~~ll~aksrv~P~k~~tIpRlEL~a~~~~~~l~~~~~~~l~~~~~ 203 (493)
..+.+|+|+|- .|||++++ . ++ ...-+.+ +....|-.+.||.|++.|++.+.. ..
T Consensus 3 ~~i~iytDGs~~~n~g~~g~G~v~~--~---~~-~~~~~~~-----~~~~~Tnn~aEl~A~~~AL~~~~~--------~~ 63 (146)
T 3h08_A 3 KTITIYTDGAASGNPGKGGWGALLM--Y---GS-SRKEISG-----YDPATTNNRMELMAAIKGLEALKE--------PA 63 (146)
T ss_dssp CEEEEEEEEEESSTTEEEEEEEEEE--E---TT-EEEEEEE-----EEEEECHHHHHHHHHHHHHHTCSS--------CC
T ss_pred ceEEEEEecCCCCCCCceEEEEEEE--E---CC-eeEEeec-----CCCCCcHHHHHHHHHHHHHHhcCc--------cC
Confidence 36899999994 35554433 2 12 1111111 112567889999999999998753 47
Q ss_pred eEEEecchhhhHHHHhcC-------CccC----hhhhHH--HHHHHHhc--cccceEEecCC----CC-CCccccc
Q psy17737 204 KYYLWIDSQIVIHWILGN-------KVLP----TFINNR--VKEIKNRS--FKLDVHYVPTD----MN-PADIACR 259 (493)
Q Consensus 204 ~~~~~tDS~i~l~~l~~~-------~~~~----~fv~nR--v~~I~~~~--~~~~~~hv~~~----~N-pAD~~SR 259 (493)
.+.++|||+.++.-|.+. +.|+ .-+.|+ +.+|.++. ..+.|.||||- .| -||.+.+
T Consensus 64 ~v~I~tDS~~vi~~i~~~w~~~W~~~~w~~~~~~~v~n~~l~~~~~~~~~~~~v~~~~V~gH~g~~~N~~AD~LA~ 139 (146)
T 3h08_A 64 RVQLYSDSAYLVNAMNEGWLKRWVKNGWKTAAKKPVENIDLWQEILKLTTLHRVTFHKVKGHSDNPYNSRADELAR 139 (146)
T ss_dssp EEEEEESCHHHHHHHHSSHHHHHHHTTCC----CCCTTHHHHHHHHHHHHHSEEEEEECCC-CCSHHHHHHHHHHH
T ss_pred cEEEEeChHHHHHHHHHHHHHHHHHCCCccCCCCCcCCHHHHHHHHHHHhhCceEEEEcCCcCCcHhHHHHHHHHH
Confidence 899999999988766551 1121 112222 33333332 24889999954 44 3665543
No 15
>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=97.53 E-value=0.00023 Score=64.52 Aligned_cols=99 Identities=14% Similarity=0.148 Sum_probs=63.8
Q ss_pred eeEEeecccccc------cceeeEEEEEeeCCCceeeeeecccccCCCCCCccchhhhhHHHHHhhhhHHHhhhhcccce
Q psy17737 130 YELHGFSDASAT------SYSMVIYLKCITGNSVTSNLVFAKARIAPLSRPTLPRLELLGALIAYRGLKFVGESLKVKDI 203 (493)
Q Consensus 130 ~~L~vF~DAS~~------a~gav~y~r~~~~~g~~~~ll~aksrv~P~k~~tIpRlEL~a~~~~~~l~~~~~~~l~~~~~ 203 (493)
..+.+|+|+|.. |||+++|. +|.... .+ .. + ...|..|.||.|++.|++.+. ..
T Consensus 22 ~~i~iytDGs~~~npG~~g~G~vi~~-----~~~~~~--~~--~~-~-~~~Tnn~aEl~Ai~~AL~~~~---------~~ 81 (165)
T 3p1g_A 22 ADYTWYTDGSSFLQEGQRRAGAAVTT-----ETEVIW--AR--AL-P-AGTSAQRAELIALTQALKMAE---------GK 81 (165)
T ss_dssp CSEEEEEEEEEEEETTEEEEEEEEEC-----SSCEEE--EE--EE-C-TTCCHHHHHHHHHHHHHHHTB---------TS
T ss_pred CCEEEEEEcccCCCCCceEEEEEEEE-----CCEEEE--Ee--cC-C-CCCcHHHHHHHHHHHHHHHcc---------Cc
Confidence 469999999985 46655542 232111 11 11 1 256999999999999999771 46
Q ss_pred eEEEecchhhhHHHH--hcCCccChhhhHH--HHHHHH-h--ccccceEEecCCC
Q psy17737 204 KYYLWIDSQIVIHWI--LGNKVLPTFINNR--VKEIKN-R--SFKLDVHYVPTDM 251 (493)
Q Consensus 204 ~~~~~tDS~i~l~~l--~~~~~~~~fv~nR--v~~I~~-~--~~~~~~~hv~~~~ 251 (493)
.+.+||||+.++.-| .+. +..|.|+ +.++.. + ...+.|.||||-.
T Consensus 82 ~v~I~tDS~~vi~~iw~~~~---g~~v~n~dl~~~l~~~l~~~~~v~~~wVkgH~ 133 (165)
T 3p1g_A 82 KLNVYTDSRYAFATAHVHSE---GREIKNKNEILALLKALFLPKRLSIIHCPGHQ 133 (165)
T ss_dssp EEEEEECCHHHHHHHHSCCC---SCCCSSHHHHHHHHHHTTSBSEEEEEECCSSC
T ss_pred eEEEEEchHHHHhhhhcccC---CCcccCHHHHHHHHHHHhcCCceEEEEecCCC
Confidence 899999999877644 322 2234443 334422 2 2458999999977
No 16
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=97.48 E-value=2.6e-05 Score=70.74 Aligned_cols=111 Identities=16% Similarity=0.175 Sum_probs=69.3
Q ss_pred eEEeecccccc------cceeeEEEEEeeCCCceeeeeecccccCCCCCCccchhhhhHHHHHhhhhHHHhhhhccccee
Q psy17737 131 ELHGFSDASAT------SYSMVIYLKCITGNSVTSNLVFAKARIAPLSRPTLPRLELLGALIAYRGLKFVGESLKVKDIK 204 (493)
Q Consensus 131 ~L~vF~DAS~~------a~gav~y~r~~~~~g~~~~ll~aksrv~P~k~~tIpRlEL~a~~~~~~l~~~~~~~l~~~~~~ 204 (493)
.+.+|+|+|.. |||+++ +. .++.. . + +.. ....|-.+.||.|++.|++++.. ...
T Consensus 8 ~i~iytDGs~~~n~g~~G~G~v~--~~--~~~~~-~-~-~~~----~~~~Tnn~aEl~Ai~~AL~~~~~--------~~~ 68 (166)
T 1ril_A 8 RVALFTDGACLGNPGPGGWAALL--RF--HAHEK-L-L-SGG----EACTTNNRMELKAAIEGLKALKE--------PCE 68 (166)
T ss_dssp CCCEEEEEEESSTTEEEEEEEEE--CB--TTBCC-E-E-CCE----EEEECHHHHHHHHHHHHHHSCCS--------CCE
T ss_pred cEEEEECccccCCCCCEEEEEEE--EE--CCEEE-E-E-ecC----CCCCcHHHHHHHHHHHHHHHhcc--------CCe
Confidence 57899999975 455433 21 12211 1 1 111 12468889999999999987653 147
Q ss_pred EEEecchhhhHHHHhcC-------CccC----hhhhH--HHHHHHHhcc--ccceEEecC----CCC-CCcccccc
Q psy17737 205 YYLWIDSQIVIHWILGN-------KVLP----TFINN--RVKEIKNRSF--KLDVHYVPT----DMN-PADIACRG 260 (493)
Q Consensus 205 ~~~~tDS~i~l~~l~~~-------~~~~----~fv~n--Rv~~I~~~~~--~~~~~hv~~----~~N-pAD~~SRg 260 (493)
+.++|||+.++.-|.+. +.|+ ..+.| -+.+|.++.. .+.|.|||| ..| -||.+.+-
T Consensus 69 v~I~tDS~~vi~~i~~~w~~~W~~~~w~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~g~~~Ne~AD~LAk~ 144 (166)
T 1ril_A 69 VDLYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFVKGHTGHPENERVDREARR 144 (166)
T ss_dssp EEEECCCHHHHHHHHSSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHHTTSEEECCCCCGGGSCTHHHHHHHHHHH
T ss_pred EEEEeChHHHHHHHhhhHHHHHHhcccccccCCccCcHHHHHHHHHHHhcCeEEEEEeeCCCCchhHHHHHHHHHH
Confidence 99999999998766551 1222 33444 2455555544 588899994 456 48876653
No 17
>3nnq_A Integrase P46, N-terminal domain of moloney murine leukemia VIRU integrase; retroviral integrase, Zn finger; 2.69A {Moloney murine leukemia virus}
Probab=97.40 E-value=6.2e-05 Score=63.02 Aligned_cols=71 Identities=13% Similarity=0.239 Sum_probs=59.0
Q ss_pred eeeccC-CcEEeccccccccCCCCCCCceEecCCCcchhHHHHHHHHhCCCCChhhhhHHHHHHhh---hc-cccchHHH
Q psy17737 403 LVLDEN-DILRCKGRFVELKVDGKSCFPMLLPRGNHISKIIVNDIHTSGYHTGDKESKKLSNVARG---YY-LDGNHLER 477 (493)
Q Consensus 403 pflD~~-GllRv~gRl~~s~l~~~~k~Pillp~~~~lt~Lii~~~H~~~~H~G~~~t~~l~~lr~~---yW-~~~r~~vr 477 (493)
-..|+. +-+...||+ ++| ..++..+|...|... |.|.+.+ .+.|++. || ++..+.+|
T Consensus 28 ~~y~~~~~~w~~~Gk~-------------vlP--~~~~~eli~~lH~lT-HLg~~kl--~~Ll~r~e~~~~i~~~~~~~~ 89 (114)
T 3nnq_A 28 AIYDKTKKYWVYQGKP-------------VMP--DQFTFELLDFLHQLT-HLSFSKM--KALLERSHSPYYMLNRDRTLK 89 (114)
T ss_dssp CEEETTTTEEEETTEE-------------EEC--HHHHHHHHHHHHHHH-CCCHHHH--HHHHHHHCCSSEETTHHHHHH
T ss_pred ceecCCCceeccCCCC-------------cCC--HHHHHHHHHHHHHHh-ccCHHHH--HHHHHhhccceeeeCHHHHHH
Confidence 345544 456666766 377 458999999999986 9999999 9999886 89 99999999
Q ss_pred HHhcCCcccccccc
Q psy17737 478 RVLLGSRLLSGWVR 491 (493)
Q Consensus 478 ~vi~~C~~C~r~~~ 491 (493)
.|+.+|..|++.+.
T Consensus 90 ~Vt~sC~aCaqvNa 103 (114)
T 3nnq_A 90 NITETCKACAQVNA 103 (114)
T ss_dssp HHHHHCHHHHHHHC
T ss_pred HHHHHHHHHHHhCC
Confidence 99999999998765
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=97.36 E-value=3.9e-05 Score=66.98 Aligned_cols=72 Identities=19% Similarity=0.116 Sum_probs=50.1
Q ss_pred EEeeccccc------ccceeeEEEEEeeCCCceeeeeecccccCCCCCCccchhhhhHHHHHhhhhHHHhhhhcccceeE
Q psy17737 132 LHGFSDASA------TSYSMVIYLKCITGNSVTSNLVFAKARIAPLSRPTLPRLELLGALIAYRGLKFVGESLKVKDIKY 205 (493)
Q Consensus 132 L~vF~DAS~------~a~gav~y~r~~~~~g~~~~ll~aksrv~P~k~~tIpRlEL~a~~~~~~l~~~~~~~l~~~~~~~ 205 (493)
..+|+|||- .|||+|++ .+|..... . . +....|-.|.||.|++.|++++... +. .+
T Consensus 6 ~~iytDGac~GNPGp~G~ggV~~-----~~g~~~~~-~--g---~~~~tTNN~aEl~A~i~aL~~l~~~----~~---~v 67 (134)
T 4htu_A 6 ESLSVDVGSQGNPGIVEYKGVDT-----KTGEVLFE-R--E---PIPIGTNNMGEFLAIVHGLRYLKER----NS---RK 67 (134)
T ss_dssp SSEEEEEEEETTTEEEEEEEEET-----TTCCEEEE-E--E---EEEEECHHHHHHHHHHHHHHHHHHT----TC---CC
T ss_pred eEEEEeeccCCCCCCeEEEEEEE-----ECCEEEEE-e--c---CCCCCchHHHHHHHHHHHHHHHHhC----CC---CE
Confidence 468999986 46766542 13432211 1 1 2235799999999999999987642 22 37
Q ss_pred EEecchhhhHHHHhcC
Q psy17737 206 YLWIDSQIVIHWILGN 221 (493)
Q Consensus 206 ~~~tDS~i~l~~l~~~ 221 (493)
.++|||+.++.||++.
T Consensus 68 ~i~tDSqyVi~wi~~~ 83 (134)
T 4htu_A 68 PIYSNSQTAIKWVKDK 83 (134)
T ss_dssp CEEESCHHHHHHHHHT
T ss_pred EEEcchHHHHHHHHcC
Confidence 8999999999999976
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=96.96 E-value=0.0011 Score=58.51 Aligned_cols=73 Identities=19% Similarity=0.123 Sum_probs=52.1
Q ss_pred eEEeecccccc------cceeeEEEEEeeCCCceeeeeecccccCCCCCCccchhhhhHHHHHhhhhHHHhhhhccccee
Q psy17737 131 ELHGFSDASAT------SYSMVIYLKCITGNSVTSNLVFAKARIAPLSRPTLPRLELLGALIAYRGLKFVGESLKVKDIK 204 (493)
Q Consensus 131 ~L~vF~DAS~~------a~gav~y~r~~~~~g~~~~ll~aksrv~P~k~~tIpRlEL~a~~~~~~l~~~~~~~l~~~~~~ 204 (493)
.+.+|+|+|-. |||+|++ .+|... ..+ . +....|-.|.||.|++.|++++... + + .
T Consensus 11 ~~~iy~DGa~~gNpG~~G~G~vl~-----~~g~~~--~~~-~---~~~~~TNN~aEl~A~i~aL~~~~~~----~--~-~ 72 (142)
T 1zbf_A 11 WESLSVDVGSQGNPGIVEYKGVDT-----KTGEVL--FER-E---PIPIGTNNMGEFLAIVHGLRYLKER----N--S-R 72 (142)
T ss_dssp SSSEEEEEEECSSSEEEEEEEEET-----TTCCEE--EEC-C---CEEEECHHHHHHHHHHHHHHHHHHT----T--C-C
T ss_pred eEEEEEeeccCCCCCCeEEEEEEE-----eCCEEE--EEe-c---ccCCcCcHHHHHHHHHHHHHHHHhC----C--C-e
Confidence 56789999863 5665443 244321 111 1 2224689999999999999988742 2 2 7
Q ss_pred EEEecchhhhHHHHhcC
Q psy17737 205 YYLWIDSQIVIHWILGN 221 (493)
Q Consensus 205 ~~~~tDS~i~l~~l~~~ 221 (493)
+.++|||+.++.|+++.
T Consensus 73 v~i~tDS~~vi~w~~~~ 89 (142)
T 1zbf_A 73 KPIYSNSQTAIKWVKDK 89 (142)
T ss_dssp CCEEESCHHHHHHHHHT
T ss_pred EEEEEehHHHHHHHHcC
Confidence 89999999999999988
No 20
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=96.89 E-value=0.0028 Score=57.31 Aligned_cols=108 Identities=13% Similarity=-0.018 Sum_probs=60.1
Q ss_pred eeEEeeccccc-----------ccceeeEEEEEeeCCCceeeeeecccccCCCCCCccchhhhhHHHHHhhhhHHHhhhh
Q psy17737 130 YELHGFSDASA-----------TSYSMVIYLKCITGNSVTSNLVFAKARIAPLSRPTLPRLELLGALIAYRGLKFVGESL 198 (493)
Q Consensus 130 ~~L~vF~DAS~-----------~a~gav~y~r~~~~~g~~~~ll~aksrv~P~k~~tIpRlEL~a~~~~~~l~~~~~~~l 198 (493)
.++++|||+|- .|||+ ++... +....+..+-. .-|=.|.|+.|.+.|+..+... ++
T Consensus 6 ~evviYTDGsc~gNpgp~~~~~aG~Gv--~~~~~---~~~~~~~~~~~------~~tnn~te~~Aei~Al~~al~~--al 72 (165)
T 2lsn_A 6 YEGVFYTDGSAIKSPDPTKSNNAGMGI--VHATY---KPEYQVLNQWS------IPLGNHTAQMAEIAAVEFACKK--AL 72 (165)
T ss_dssp CSEEEEEEEEEEECSSCTTCEEEEEEE--EEECC---SSSCCEEEEEE------EEESSCCHHHHHHHHHHHHHHH--HH
T ss_pred ceEEEEEcCCCCCCCCCCCCCcEEEEE--EEEEC---CCccEEecccc------CCchHHHHHHHHHHHHHHHHHH--Hh
Confidence 67899999994 35664 44321 11112221111 1133577888888887755421 22
Q ss_pred cccceeEEEecchhhhHHHHh--------cC--CccChhhhHH--HHHHHHh---ccccceEEecCCC
Q psy17737 199 KVKDIKYYLWIDSQIVIHWIL--------GN--KVLPTFINNR--VKEIKNR---SFKLDVHYVPTDM 251 (493)
Q Consensus 199 ~~~~~~~~~~tDS~i~l~~l~--------~~--~~~~~fv~nR--v~~I~~~---~~~~~~~hv~~~~ 251 (493)
. ....+.++|||+-++.-|. +. ..-+.-|.|+ +.+|.++ ...+.|.||+|-.
T Consensus 73 ~-~~~~v~I~TDS~Yvi~~it~w~~~Wk~ngw~~~~~~pVkN~dL~~~l~~~~~~~~~v~~~~VkgH~ 139 (165)
T 2lsn_A 73 K-IPGPVLVITDSFYVAESANKELPYWKSNGFVNNKKKPLKHISKWKSIAECLSMKPDITIQHEKGHQ 139 (165)
T ss_dssp H-SSSCEEEEESCHHHHHHHHTHHHHHHHTTSCSCSSSCCSSHHHHHHHHHHHHHCTTCEEEECCSSS
T ss_pred c-CCCeEEEEeChHHHHhhhhhhhhhheeccccccCCCcccCHHHHHHHHHHHhCCCCEEEEEEeCCC
Confidence 1 1246999999998875333 22 1222335554 3344433 3468999999864
Done!