Query psy16039
Match_columns 586
No_of_seqs 345 out of 2696
Neff 7.8
Searched_HMMs 29240
Date Fri Aug 16 19:18:12 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16039.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/16039hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2qkb_A Ribonuclease H1, HS-RNA 99.9 7.3E-22 2.5E-26 182.8 14.5 129 409-538 4-152 (154)
2 3qio_A GAG-POL polyprotein; RN 99.9 2.4E-21 8.2E-26 178.2 14.2 126 407-537 7-147 (150)
3 3h08_A RNH (ribonuclease H); R 99.8 3.1E-21 1.1E-25 176.9 11.7 123 411-537 3-144 (146)
4 3p1g_A Xenotropic murine leuke 99.8 7.4E-21 2.5E-25 177.4 12.4 126 412-540 23-159 (165)
5 2kq2_A Ribonuclease H-related 99.8 1.4E-21 4.8E-26 179.4 6.4 128 409-540 3-140 (147)
6 1jl1_A Ribonuclease HI; RNAse 99.8 2.7E-20 9.1E-25 172.4 13.4 125 412-540 4-146 (155)
7 2e4l_A Ribonuclease HI, RNAse 99.8 2.8E-20 9.6E-25 172.8 12.6 123 411-537 5-145 (158)
8 1ril_A Ribonuclease H; hydrola 99.8 5.6E-20 1.9E-24 172.1 9.3 125 411-539 7-150 (166)
9 2lsn_A Reverse transcriptase; 99.8 6.2E-19 2.1E-23 164.2 12.9 125 411-536 6-162 (165)
10 3u3g_D Ribonuclease H, RNAse H 99.7 6.8E-18 2.3E-22 152.9 12.0 121 412-537 3-137 (140)
11 3hst_B Protein RV2228C/MT2287; 99.7 5.1E-18 1.7E-22 154.1 10.7 123 412-539 3-135 (141)
12 1mu2_A HIV-2 RT; HIV-2 reverse 99.7 2.2E-17 7.6E-22 183.3 12.5 119 410-535 434-555 (555)
13 2ehg_A Ribonuclease HI; RNAse 99.7 4.4E-17 1.5E-21 149.7 10.0 122 413-539 2-136 (149)
14 2zd1_A Reverse transcriptase/r 99.7 2E-17 6.7E-22 183.8 8.4 119 409-534 436-557 (557)
15 1zbf_A Ribonuclease H-related 99.2 3.9E-12 1.3E-16 115.1 1.6 118 410-529 9-139 (142)
16 4htu_A Ribonuclease H, RNAse H 98.9 1.8E-09 6.3E-14 95.9 7.1 76 410-487 3-84 (134)
17 3kyl_A Telomerase reverse tran 97.7 7.4E-06 2.5E-10 86.6 1.9 96 38-169 282-379 (596)
18 3fsi_A RT, reverse transcripta 96.3 0.00087 3E-08 66.2 1.2 87 71-201 165-253 (255)
19 1rw3_A POL polyprotein; RNA an 93.1 0.011 3.9E-07 63.3 -1.3 74 411-487 345-429 (455)
20 2zd1_A Reverse transcriptase/r 88.8 0.086 3E-06 57.9 0.3 73 70-163 150-224 (557)
21 1mu2_A HIV-2 RT; HIV-2 reverse 87.5 0.14 4.7E-06 56.2 0.8 72 70-162 148-221 (555)
22 2zd1_B P51 RT; P51/P66, hetero 86.1 0.068 2.3E-06 56.7 -2.5 73 70-163 148-222 (428)
23 1rw3_A POL polyprotein; RNA an 68.2 1.5 5E-05 46.7 1.1 87 71-201 169-257 (455)
24 1go4_E MAD1 (mitotic arrest de 47.9 35 0.0012 28.0 5.7 41 129-171 23-65 (100)
25 3nnq_A Integrase P46, N-termin 31.8 9.5 0.00033 32.1 -0.1 25 546-570 13-45 (114)
No 1
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=99.87 E-value=7.3e-22 Score=182.82 Aligned_cols=129 Identities=19% Similarity=0.250 Sum_probs=102.3
Q ss_pred CCCceEEEEcCCCCCCC-----ceeEEecCCe---eEEeecCCCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHHH
Q psy16039 409 YSDSVLCFTDGSKTVNS-----TSCAYSIGNQ---VHAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSAL 480 (586)
Q Consensus 409 ~~~~~~iytDGS~~~~~-----~G~av~~~~~---~~~~~l~~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~al 480 (586)
..+.+.||||||+..++ .|+|+++... ..+..++..+|+++||+.|++.||+.+.+.+..+|.|+|||++++
T Consensus 4 ~~~~~~iytDGs~~~n~~~~~~aG~Gvv~~~~~~~~~~~~l~~~~tn~~aEl~A~~~aL~~~~~~~~~~v~i~tDS~~vi 83 (154)
T 2qkb_A 4 MGDFVVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQAKTQNINKLVLYTNSMFTI 83 (154)
T ss_dssp ETTEEEEEEEEEEETTTSSSCEEEEEEECSTTCTTCEEEECCSSCCHHHHHHHHHHHHHHHHHHTTCCEEEEEESCHHHH
T ss_pred CCCeEEEEEccCcCCCCCCCCcEEEEEEEECCCceeEEeecCCCCchHHHHHHHHHHHHHHHHhCCCceEEEEECcHHHH
Confidence 34678999999987542 7889877432 244556556899999999999999999987789999999999999
Q ss_pred HHHhcC--------CCCC---cc-HHHHHHHHHHHHhCCCcEEEEEcCCCCCChhhHHHHHHHhhhccCC
Q psy16039 481 LAISNC--------KNDH---PL-VSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITNI 538 (586)
Q Consensus 481 ~~i~~~--------~~~~---~~-~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi~gNe~AD~lAk~a~~~~ 538 (586)
+.|.+. +..+ +. -..+++.+..+.. +..|.|.|||||+|++|||.||+|||+|+..+
T Consensus 84 ~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~-~~~v~~~~V~~H~g~~~N~~AD~LA~~a~~~~ 152 (154)
T 2qkb_A 84 NGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQ-GMDIQWMHVPGHSGFIGNEEADRLAREGAKQS 152 (154)
T ss_dssp HHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHT-TCEEEEEECCTTSSCHHHHHHHHHHHHHHTCC
T ss_pred hhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHc-CCceEEEEccCCCCCHhHHHHHHHHHHHHHhc
Confidence 999762 2211 22 3556677777644 56799999999999999999999999998654
No 2
>3qio_A GAG-POL polyprotein; RNAse H, inhibitor, nuclease, transferase, hydrolase- complex; HET: QID; 1.40A {Hiv-1 M} SCOP: c.55.3.1 PDB: 3qin_A* 3hyf_A* 1o1w_A 3lp3_A* 1hrh_A 3k2p_A* 1rdh_A
Probab=99.86 E-value=2.4e-21 Score=178.21 Aligned_cols=126 Identities=21% Similarity=0.293 Sum_probs=95.7
Q ss_pred ccCCCceEEEEcCCCCCC--CceeEEecCC-eeEEeecCCCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHHHHHH
Q psy16039 407 NKYSDSVLCFTDGSKTVN--STSCAYSIGN-QVHAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAI 483 (586)
Q Consensus 407 ~~~~~~~~iytDGS~~~~--~~G~av~~~~-~~~~~~l~~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~al~~i 483 (586)
.+..+.+.||||||+..+ ..|+|++... ......+ ..+|+++||++|++.||+.+ ..++.|+|||+++++.+
T Consensus 7 ~P~~~~~~iytDGs~~~n~g~~g~G~v~~~~~~~~~~~-~~~Tnn~aEl~A~i~AL~~~----~~~v~i~tDS~~v~~~i 81 (150)
T 3qio_A 7 EPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTL-TDTTNQKTELQAIYLALQDS----GLEVNIVTDSQYALGII 81 (150)
T ss_dssp SCCTTCEEEEEEEEECTTTCCEEEEEEETTSCEEEEEE-SSCCHHHHHHHHHHHHHHHS----CSEEEEEESCHHHHHHH
T ss_pred CCCCCCEEEEEccCCCCCCCCeEEEEEEEcCCEEEEeC-CCCCHHHHHHHHHHHHHHhC----CCcEEEEeCcHHHHHHH
Confidence 345677999999998743 3677766533 2223333 46899999999999999986 48999999999999999
Q ss_pred hcC--------CCC---Cc-cHHHHHHHHHHHHhCCCcEEEEEcCCCCCChhhHHHHHHHhhhccC
Q psy16039 484 SNC--------KND---HP-LVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITN 537 (586)
Q Consensus 484 ~~~--------~~~---~~-~~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi~gNe~AD~lAk~a~~~ 537 (586)
+.. +.. .+ .-.++++.+.++......|.|.|||||+|++|||.||+||++|+..
T Consensus 82 ~~w~~~W~~~gw~~~~g~~v~n~~l~~~l~~~l~~~~~v~~~wV~gH~g~~~Ne~AD~LA~~a~~~ 147 (150)
T 3qio_A 82 TQWIHNWKKRGWKTADKKPVKNVDLVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIRK 147 (150)
T ss_dssp HHHHHHHCC------------CHHHHHHHHHHHTTCSEEEEEECCTTSCCHHHHHHHHHHHTTTSC
T ss_pred HHHHHHHhhcCcCcCcCcccccHHHHHHHHHHHhhcCceEEEEccCcCCChhHHHHHHHHHHHHHH
Confidence 763 111 11 1245556666655678999999999999999999999999999864
No 3
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=99.85 E-value=3.1e-21 Score=176.91 Aligned_cols=123 Identities=20% Similarity=0.139 Sum_probs=92.7
Q ss_pred CceEEEEcCCCCCC--CceeEEec--CCee--EEeecCCCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHHHHHHh
Q psy16039 411 DSVLCFTDGSKTVN--STSCAYSI--GNQV--HAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAIS 484 (586)
Q Consensus 411 ~~~~iytDGS~~~~--~~G~av~~--~~~~--~~~~l~~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~al~~i~ 484 (586)
+.+.||||||+..+ ..|+|+++ ++.. .+..+ ..+|+++||+.|++.||+.+.+ ..++.|+|||+++++.+.
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 KTITIYTDGAASGNPGKGGWGALLMYGSSRKEISGYD-PATTNNRMELMAAIKGLEALKE--PARVQLYSDSAYLVNAMN 79 (146)
T ss_dssp CEEEEEEEEEESSTTEEEEEEEEEEETTEEEEEEEEE-EEECHHHHHHHHHHHHHHTCSS--CCEEEEEESCHHHHHHHH
T ss_pred ceEEEEEecCCCCCCCceEEEEEEEECCeeEEeecCC-CCCcHHHHHHHHHHHHHHhcCc--cCcEEEEeChHHHHHHHH
Confidence 46899999998754 37888765 3322 22233 3579999999999999999976 689999999999999998
Q ss_pred cCC---------CC---Cc-cHHHHHHHHHHHHhCCCcEEEEEcCCCCCChhhHHHHHHHhhhccC
Q psy16039 485 NCK---------ND---HP-LVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITN 537 (586)
Q Consensus 485 ~~~---------~~---~~-~~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi~gNe~AD~lAk~a~~~ 537 (586)
..+ .. .+ .-..+++.+.++.. ...|.|.|||||+|++|||.||+|||+|+..
T Consensus 80 ~~w~~~W~~~~w~~~~~~~v~n~~l~~~~~~~~~-~~~v~~~~V~gH~g~~~N~~AD~LA~~a~~~ 144 (146)
T 3h08_A 80 EGWLKRWVKNGWKTAAKKPVENIDLWQEILKLTT-LHRVTFHKVKGHSDNPYNSRADELARLAIKE 144 (146)
T ss_dssp SSHHHHHHHTTCC----CCCTTHHHHHHHHHHHH-HSEEEEEECCC-CCSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCccCCCCCcCCHHHHHHHHHHHh-hCceEEEEcCCcCCcHhHHHHHHHHHHHHHh
Confidence 721 11 11 12455566666644 3579999999999999999999999999854
No 4
>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV, RNAse H, reverse transcriptase, transcription; 1.50A {Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A 3v1r_A* 2hb5_A 4e89_A
Probab=99.84 E-value=7.4e-21 Score=177.40 Aligned_cols=126 Identities=23% Similarity=0.257 Sum_probs=95.9
Q ss_pred ceEEEEcCCCC--CCCceeEE--ecCCee-EEeecCCCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHHHHHHhcC
Q psy16039 412 SVLCFTDGSKT--VNSTSCAY--SIGNQV-HAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAISNC 486 (586)
Q Consensus 412 ~~~iytDGS~~--~~~~G~av--~~~~~~-~~~~l~~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~al~~i~~~ 486 (586)
.+.||||||+. ++..|+|+ +..+.. .....+..+|+++||++|+..||+.+ ...++.|+|||+++++.+-..
T Consensus 23 ~i~iytDGs~~~npG~~g~G~vi~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~---~~~~v~I~tDS~~vi~~iw~~ 99 (165)
T 3p1g_A 23 DYTWYTDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMA---EGKKLNVYTDSRYAFATAHVH 99 (165)
T ss_dssp SEEEEEEEEEEEETTEEEEEEEEECSSCEEEEEEECTTCCHHHHHHHHHHHHHHHT---BTSEEEEEECCHHHHHHHHSC
T ss_pred CEEEEEEcccCCCCCceEEEEEEEECCEEEEEecCCCCCcHHHHHHHHHHHHHHHc---cCceEEEEEchHHHHhhhhcc
Confidence 58999999987 44466664 333332 22345667899999999999999999 378999999999999998322
Q ss_pred CCCCcc-HHHHHHHHHHHHhCCCcEEEEEcCCCCC-----ChhhHHHHHHHhhhccCCCC
Q psy16039 487 KNDHPL-VSLVYTTWLEAKDCGKNLNFVWCPSHCG-----ITGNELVDIAARNPITNITL 540 (586)
Q Consensus 487 ~~~~~~-~~~i~~~~~~l~~~~~~V~~~WVpgH~G-----i~gNe~AD~lAk~a~~~~~~ 540 (586)
....++ -.++++.+......+.+|.|.|||||+| ++|||.||+|||+|+.....
T Consensus 100 ~~g~~v~n~dl~~~l~~~l~~~~~v~~~wVkgH~g~~~~~~~gNe~AD~LA~~aa~~~~~ 159 (165)
T 3p1g_A 100 SEGREIKNKNEILALLKALFLPKRLSIIHCPGHQKGNSAEARGNRMADQAAREAAMKAVL 159 (165)
T ss_dssp CCSCCCSSHHHHHHHHHHTTSBSEEEEEECCSSCCSCSHHHHHHHHHHHHHHHHHHHHHT
T ss_pred cCCCcccCHHHHHHHHHHHhcCCceEEEEecCCCCCCcCcchHHHHHHHHHHHHHhcCCC
Confidence 222232 2454566655445788999999999999 99999999999999977654
No 5
>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO enzyme, structural genomics, protein structure initiative; NMR {Desulfitobacterium hafniense dcb-2} PDB: 2kw4_A
Probab=99.84 E-value=1.4e-21 Score=179.38 Aligned_cols=128 Identities=17% Similarity=0.141 Sum_probs=97.3
Q ss_pred CCCceEEEEcCCCCCCCceeEEec--CCee--EEe-ec--CC--CcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHH
Q psy16039 409 YSDSVLCFTDGSKTVNSTSCAYSI--GNQV--HAF-KL--NK--VNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSA 479 (586)
Q Consensus 409 ~~~~~~iytDGS~~~~~~G~av~~--~~~~--~~~-~l--~~--~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~a 479 (586)
+.+.+.||||||+..+..|+|+++ .+.. .+. .. +. .+|+++||++|++.||+.+.+.+. +|.|+|||+.+
T Consensus 3 ~~~~i~iytDGs~~~g~~G~G~vi~~~g~~~~~~~~~~~~~~~~~~tNn~aEl~A~~~AL~~a~~~~~-~v~I~tDS~~i 81 (147)
T 2kq2_A 3 DRTEYDVYTDGSYVNGQYAWAYAFVKDGKVHYEDADVGKNPAAATMRNVAGEIAAALYAVKKASQLGV-KIRILHDYAGI 81 (147)
T ss_dssp TTSCCEEECCCCCBTTBCEEEEEEEETTEEEEEEEEECCCGGGGGTCTTHHHHHHHHHHHHHHHHHTC-CCCBSSCCSTH
T ss_pred CCCeEEEEECCCCCCCCcEEEEEEEECCEEEEEEeccccccccccccHHHHHHHHHHHHHHHHHHCCC-eEEEEECcHHH
Confidence 346789999999998778999766 3332 222 22 32 368999999999999999887666 99999999998
Q ss_pred HHHHhcCCCCCc-cHHHHHHHHHHHHhCCCcEEEEEcCCCCCChhhHHHHHHHhhhccCCCC
Q psy16039 480 LLAISNCKNDHP-LVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITNITL 540 (586)
Q Consensus 480 l~~i~~~~~~~~-~~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi~gNe~AD~lAk~a~~~~~~ 540 (586)
.+.+.+.+..+. ......+.+.++.. +|.|.|||||+|++|||.||+|||+|+.....
T Consensus 82 ~~w~~~~w~~~~~~~~~~~~l~~~l~~---~v~~~wV~gH~g~~~Ne~AD~LA~~a~~~~~~ 140 (147)
T 2kq2_A 82 AFWATGEWKAKNEFTQAYAKLMNQYRG---IYSFEKVKAHSGNEFNDYVDMKAKSALGIRDL 140 (147)
T ss_dssp HHHTTSSSSCCHHHHHHHHCGGGGGST---TCCBCCCCCCCCCHHHHHHHHHHHHHHTCCCT
T ss_pred HHHHhCCCccCCcchHHHHHHHHHhcC---CeeEEEecCcCCCcchHHHHHHHHHHHhcccc
Confidence 888887766553 23333233333322 89999999999999999999999999976554
No 6
>1jl1_A Ribonuclease HI; RNAse HI, protein stability, thermostability, hydrogen exchange, cooperativity, hydrolase; 1.30A {Escherichia coli} SCOP: c.55.3.1 PDB: 1f21_A 1jxb_A 1g15_A 1rch_A 1rdd_A 1rnh_A* 2rn2_A 1rda_A 1law_A 1rdb_A 1lav_A 3aa4_A 1rbu_A 1gob_A 1rdc_A 1kvc_A 3aa3_A 3aa2_A 3aa5_X 1rbv_A ...
Probab=99.83 E-value=2.7e-20 Score=172.44 Aligned_cols=125 Identities=22% Similarity=0.227 Sum_probs=96.4
Q ss_pred ceEEEEcCCCCCC--CceeEEecC--Cee--EEeecCCCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHHHHHHhc
Q psy16039 412 SVLCFTDGSKTVN--STSCAYSIG--NQV--HAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAISN 485 (586)
Q Consensus 412 ~~~iytDGS~~~~--~~G~av~~~--~~~--~~~~l~~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~al~~i~~ 485 (586)
.+.||||||+..+ ..|+|++.. +.. .+..+ ..+|+++||+.|++.||+.+.+ ..++.|+|||+++++.|..
T Consensus 4 ~~~iytDGs~~~n~~~~G~G~v~~~~~~~~~~~~~~-~~~tn~~aEl~A~~~aL~~~~~--~~~v~I~tDS~~vi~~i~~ 80 (155)
T 1jl1_A 4 QVEIFTAGSALGNPGPGGYGAILRYRGREKTFSAGY-TRTTNNRMELMAAIVALEALKE--HAEVILSTDSQYVRQGITQ 80 (155)
T ss_dssp CEEEEEEEEESSTTEEEEEEEEEEETTEEEEEEEEE-EEECHHHHHHHHHHHHHHTCCS--CCEEEEEECCHHHHHHHHT
T ss_pred eEEEEEccccCCCCCceEEEEEEEECCeEEEEecCC-CCCcHHHHHHHHHHHHHHHhCc--CCcEEEEeCHHHHHHHHHH
Confidence 5789999998853 378887653 322 22233 3578999999999999999976 4899999999999999986
Q ss_pred --------CCCC---Ccc-HHHHHHHHHHHHhCCCcEEEEEcCCCCCChhhHHHHHHHhhhccCCCC
Q psy16039 486 --------CKND---HPL-VSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITNITL 540 (586)
Q Consensus 486 --------~~~~---~~~-~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi~gNe~AD~lAk~a~~~~~~ 540 (586)
++.. .++ -..+++.+.++.. ...|.|.|||||+|++|||.||+|||+|+..+..
T Consensus 81 w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~-~~~v~~~wV~gH~g~~~Ne~AD~LA~~a~~~~~~ 146 (155)
T 1jl1_A 81 WIHNWKKRGWKTADKKPVKNVDLWQRLDAALG-QHQIKWEWVKGHAGHPENERADELARAAAMNPTL 146 (155)
T ss_dssp THHHHHHTTTBCTTSCBCTTHHHHHHHHHHTT-TCEEEEEECCSSTTCHHHHHHHHHHHHHHHSCCB
T ss_pred HHHHHhhcccccccCCccCCHHHHHHHHHHHc-cCceEEEEcCCCCCCHHHHHHHHHHHHHHhccch
Confidence 2221 122 2456677777644 4699999999999999999999999999987654
No 7
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=99.83 E-value=2.8e-20 Score=172.82 Aligned_cols=123 Identities=20% Similarity=0.216 Sum_probs=95.1
Q ss_pred CceEEEEcCCCCCC--CceeEEec--CCee--EEeecCCCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHHHHHHh
Q psy16039 411 DSVLCFTDGSKTVN--STSCAYSI--GNQV--HAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAIS 484 (586)
Q Consensus 411 ~~~~iytDGS~~~~--~~G~av~~--~~~~--~~~~l~~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~al~~i~ 484 (586)
..+.||||||+..+ ..|+|++. .+.. .+..++ .+|+++||+.|++.||+.+.+ ..+|.|+|||+++++.|.
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 KLIHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGFS-LTTNNRMELLAPIVALEALKE--PCKIILTSDSQYMRQGIM 81 (158)
T ss_dssp CEEEEEEEEEESSSSEEEEEEEEEEETTEEEEEEEEEE-EECHHHHHHHHHHHHHHTCSS--CCEEEEEECCHHHHHHHH
T ss_pred CeEEEEEcccccCCCCcEEEEEEEEECCEEEEEecCcC-CCccHHHHHHHHHHHHHHhcc--CCeEEEEeCHHHHHHHHH
Confidence 35899999998743 47888765 3322 222333 478999999999999999865 389999999999999998
Q ss_pred c--------CCCCC---cc-HHHHHHHHHHHHhCCCcEEEEEcCCCCCChhhHHHHHHHhhhccC
Q psy16039 485 N--------CKNDH---PL-VSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITN 537 (586)
Q Consensus 485 ~--------~~~~~---~~-~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi~gNe~AD~lAk~a~~~ 537 (586)
. ++..+ ++ -..+++.+..+.. ...|.|.|||||+|++|||.||+|||+|+..
T Consensus 82 ~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~-~~~v~~~wV~gH~g~~~Ne~AD~LAk~a~~~ 145 (158)
T 2e4l_A 82 TWIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQ-LHQIDWRWVKGHAGHAENERCDQLARAAAEA 145 (158)
T ss_dssp THHHHHHHTTTBCTTSSBCTTHHHHHHHHHHHT-TSEEEEEECCTTCCCHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHccccccCCCcccCHHHHHHHHHHHc-cCcEEEEEccCCCCchhHHHHHHHHHHHHHh
Confidence 7 33221 22 2455567777654 4699999999999999999999999999976
No 8
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=99.80 E-value=5.6e-20 Score=172.14 Aligned_cols=125 Identities=22% Similarity=0.167 Sum_probs=95.9
Q ss_pred CceEEEEcCCCCCC--CceeEEecC--Cee--EEeecCCCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHHHHHHh
Q psy16039 411 DSVLCFTDGSKTVN--STSCAYSIG--NQV--HAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAIS 484 (586)
Q Consensus 411 ~~~~iytDGS~~~~--~~G~av~~~--~~~--~~~~l~~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~al~~i~ 484 (586)
..+.||||||+..+ ..|+|++.. +.. .+... ..+|+++||+.|++.||+.+.+ ..+|.|+|||+++++.|.
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 KRVALFTDGACLGNPGPGGWAALLRFHAHEKLLSGGE-ACTTNNRMELKAAIEGLKALKE--PCEVDLYTDSHYLKKAFT 83 (166)
T ss_dssp CCCCEEEEEEESSTTEEEEEEEEECBTTBCCEECCEE-EEECHHHHHHHHHHHHHHSCCS--CCEEEEECCCHHHHHHHH
T ss_pred ccEEEEECccccCCCCCEEEEEEEEECCEEEEEecCC-CCCcHHHHHHHHHHHHHHHhcc--CCeEEEEeChHHHHHHHh
Confidence 46889999998853 478887763 221 22222 3578999999999999999876 359999999999999998
Q ss_pred cC---------CCC-C--cc-HHHHHHHHHHHHhCCCcEEEEEcCCCCCChhhHHHHHHHhhhccCCC
Q psy16039 485 NC---------KND-H--PL-VSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITNIT 539 (586)
Q Consensus 485 ~~---------~~~-~--~~-~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi~gNe~AD~lAk~a~~~~~ 539 (586)
+. +.. + ++ -..+++.+.++.. ...|.|.|||||+|++|||.||+|||+|+....
T Consensus 84 ~~w~~~W~~~~w~~~~g~~v~n~~l~~~i~~l~~-~~~v~~~wV~gH~g~~~Ne~AD~LAk~a~~~~~ 150 (166)
T 1ril_A 84 EGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMA-PHRVRFHFVKGHTGHPENERVDREARRQAQSQA 150 (166)
T ss_dssp SSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHHT-TSEEECCCCCGGGSCTHHHHHHHHHHHHHTSSC
T ss_pred hhHHHHHHhcccccccCCccCcHHHHHHHHHHHh-cCeEEEEEeeCCCCchhHHHHHHHHHHHHHHhh
Confidence 82 221 1 22 2456677777654 469999999999999999999999999997754
No 9
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=99.79 E-value=6.2e-19 Score=164.16 Aligned_cols=125 Identities=15% Similarity=0.163 Sum_probs=93.2
Q ss_pred CceEEEEcCCCCCC--C-----ceeEEecC--C----eeEEeecC-CCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCc
Q psy16039 411 DSVLCFTDGSKTVN--S-----TSCAYSIG--N----QVHAFKLN-KVNSVLSSELMAILLCVKNLIFLPSTNFTLISDS 476 (586)
Q Consensus 411 ~~~~iytDGS~~~~--~-----~G~av~~~--~----~~~~~~l~-~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS 476 (586)
..++||||||+..+ + .|+||++. + ....+..+ ...+.+.||+.|+..||+.+... ..+|.|+|||
T Consensus 6 ~evviYTDGsc~gNpgp~~~~~aG~Gv~~~~~~~~~~~~~~~~~~tnn~te~~Aei~Al~~al~~al~~-~~~v~I~TDS 84 (165)
T 2lsn_A 6 YEGVFYTDGSAIKSPDPTKSNNAGMGIVHATYKPEYQVLNQWSIPLGNHTAQMAEIAAVEFACKKALKI-PGPVLVITDS 84 (165)
T ss_dssp CSEEEEEEEEEEECSSCTTCEEEEEEEEEECCSSSCCEEEEEEEEESSCCHHHHHHHHHHHHHHHHHHS-SSCEEEEESC
T ss_pred ceEEEEEcCCCCCCCCCCCCCcEEEEEEEEECCCccEEeccccCCchHHHHHHHHHHHHHHHHHHHhcC-CCeEEEEeCh
Confidence 35799999998733 2 78888752 1 12233333 45688899999999999988764 4579999999
Q ss_pred HHHHHHHhc--------CCCC---Ccc-HHHHHHHHHHHHhCCCcEEEEEcCCCCCC------hhhHHHHHHHhhhcc
Q psy16039 477 MSALLAISN--------CKND---HPL-VSLVYTTWLEAKDCGKNLNFVWCPSHCGI------TGNELVDIAARNPIT 536 (586)
Q Consensus 477 ~~al~~i~~--------~~~~---~~~-~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi------~gNe~AD~lAk~a~~ 536 (586)
+++++.+.. ++.. .++ -.++++.+.++.....+|.|.|||||+|+ +|||+||+||++|+.
T Consensus 85 ~Yvi~~it~w~~~Wk~ngw~~~~~~pVkN~dL~~~l~~~~~~~~~v~~~~VkgH~g~~~~~~~~gNe~AD~LA~~gA~ 162 (165)
T 2lsn_A 85 FYVAESANKELPYWKSNGFVNNKKKPLKHISKWKSIAECLSMKPDITIQHEKGHQPTNTSIHTEGNALADKLATQGSY 162 (165)
T ss_dssp HHHHHHHHTHHHHHHHTTSCSCSSSCCSSHHHHHHHHHHHHHCTTCEEEECCSSSCSSSCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHhhhhhhhhhheeccccccCCCcccCHHHHHHHHHHHhCCCCEEEEEEeCCCCccCCCCChHHHHHHHHHHHhhh
Confidence 999999864 2222 122 24566777776667789999999999994 689999999999984
No 10
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=99.74 E-value=6.8e-18 Score=152.87 Aligned_cols=121 Identities=16% Similarity=0.206 Sum_probs=96.0
Q ss_pred ceEEEEcCCCCCC--CceeEEecCC---e-e--EEeecCCCcchhHHHHHHHHHHHHHhhhCCCC----eEEEEeCcHHH
Q psy16039 412 SVLCFTDGSKTVN--STSCAYSIGN---Q-V--HAFKLNKVNSVLSSELMAILLCVKNLIFLPST----NFTLISDSMSA 479 (586)
Q Consensus 412 ~~~iytDGS~~~~--~~G~av~~~~---~-~--~~~~l~~~~tv~~AEl~AI~~AL~~a~~~~~~----~i~I~sDS~~a 479 (586)
.+.||||||+..+ ..|+|++..+ . . ....++ .+|++.||+.|++.||+.+.+.+.+ ++.|+|||+++
T Consensus 3 ~~~iy~DGs~~~n~g~~G~G~v~~~~~g~~~~~~~~~~~-~~tn~~aEl~A~~~aL~~a~~~~~~~~~~~v~i~tDS~~v 81 (140)
T 3u3g_D 3 KIIIYTDGGARGNPGPAGIGVVITDEKGNTLHESSAYIG-ETTNNVAEYEALIRALEDLQMFGDKLVDMEVEVRMDSELI 81 (140)
T ss_dssp EEEEEEEEEESSTTEEEEEEEEEECTTSCEEEEEEEEEE-EECHHHHHHHHHHHHHHHHGGGGGGGTTCEEEEEESCHHH
T ss_pred eEEEEEecCCCCCCCCcEEEEEEEeCCCCEEEEEEeeCC-CCchHHHHHHHHHHHHHHHHHcCCCCCCceEEEEeChHHH
Confidence 5799999998743 4788876532 1 1 222233 4799999999999999999887767 99999999999
Q ss_pred HHHHhcCCC-CCccHHHHHHHHHHH-HhCCCcEEEEEcCCCCCChhhHHHHHHHhhhccC
Q psy16039 480 LLAISNCKN-DHPLVSLVYTTWLEA-KDCGKNLNFVWCPSHCGITGNELVDIAARNPITN 537 (586)
Q Consensus 480 l~~i~~~~~-~~~~~~~i~~~~~~l-~~~~~~V~~~WVpgH~Gi~gNe~AD~lAk~a~~~ 537 (586)
++.+++.+. .++-...+++.+.++ ......|.|.||| .++||.||+|||+|+..
T Consensus 82 i~~i~~~~~~~~~~l~~~~~~i~~l~~~~~~~v~~~~V~----~~~N~~AD~LA~~a~~~ 137 (140)
T 3u3g_D 82 VRQMQGVYKVKEPTLKEKFAKIAHIKMERVPNLVFVHIP----REKNARADELVNEAIDK 137 (140)
T ss_dssp HHHHTTSSCCCCGGGHHHHHHHHHHHHHHCTTCEEEECC----GGGGHHHHHHHHHHHHH
T ss_pred HHHhCCCcccCCHHHHHHHHHHHHHhhcCCCcEEEEEcC----chhhHHHHHHHHHHHHh
Confidence 999998764 344455555777777 6777899999999 59999999999999854
No 11
>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=99.74 E-value=5.1e-18 Score=154.13 Aligned_cols=123 Identities=15% Similarity=0.199 Sum_probs=98.3
Q ss_pred ceEEEEcCCCCCC--CceeEEecC--C--e-e--EEeecCCCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHHHHH
Q psy16039 412 SVLCFTDGSKTVN--STSCAYSIG--N--Q-V--HAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLA 482 (586)
Q Consensus 412 ~~~iytDGS~~~~--~~G~av~~~--~--~-~--~~~~l~~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~al~~ 482 (586)
.+.||||||+..+ ..|+|+++. + . . ....+ ..+|+++||+.|++.||+.+.+.+.+++.|+|||+++++.
T Consensus 3 ~~~iy~DGs~~~~~g~~g~G~v~~~~~~~~~~~~~~~~~-~~~tn~~aEl~A~~~aL~~a~~~~~~~v~i~tDS~~vv~~ 81 (141)
T 3hst_B 3 KVVIEADGGSRGNPGPAGYGAVVWTADHSTVLAESKQAI-GRATNNVAEYRGLIAGLDDAVKLGATEAAVLMDSKLVVEQ 81 (141)
T ss_dssp EEEEEEEEEESSSSEEEEEEEEEEETTSCSEEEEEEEEE-EEECHHHHHHHHHHHHHHHHHHHTCSEEEEEESCHHHHHH
T ss_pred EEEEEEecCCCCCCCCcEEEEEEEeCCCCcEEEeeeccC-CCCchHHHHHHHHHHHHHHHHHCCCceEEEEeChHHHHHH
Confidence 4799999998743 578886652 2 1 1 22223 3679999999999999999998888999999999999999
Q ss_pred HhcCCC-CCccHHHHHHHHHHHHhCCCcEEEEEcCCCCCChhhHHHHHHHhhhccCCC
Q psy16039 483 ISNCKN-DHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITNIT 539 (586)
Q Consensus 483 i~~~~~-~~~~~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi~gNe~AD~lAk~a~~~~~ 539 (586)
+++.+. .++-...+++.+.++......|.|.||| .++||.||+|||+|+....
T Consensus 82 i~~~~~~~~~~l~~~~~~i~~l~~~~~~v~~~~V~----~~~N~~AD~LA~~a~~~~~ 135 (141)
T 3hst_B 82 MSGRWKVKHPDLLKLYVQAQALASQFRRINYEWVP----RARNTYADRLANDAMDAAA 135 (141)
T ss_dssp HTTSSCCCSHHHHHHHHHHHHHHTTSSEEEEEECC----GGGCHHHHHHHHHHHHHHH
T ss_pred HhCCcccCCHHHHHHHHHHHHHHhcCCeEEEEEcC----CcccHHHHHHHHHHHHHhc
Confidence 998653 3444555667788887778999999999 4999999999999986543
No 12
>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=99.71 E-value=2.2e-17 Score=183.33 Aligned_cols=119 Identities=22% Similarity=0.304 Sum_probs=90.9
Q ss_pred CCceEEEEcCCCCCCC--ceeEEecC-CeeEEeecCCCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHHHHHHhcC
Q psy16039 410 SDSVLCFTDGSKTVNS--TSCAYSIG-NQVHAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAISNC 486 (586)
Q Consensus 410 ~~~~~iytDGS~~~~~--~G~av~~~-~~~~~~~l~~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~al~~i~~~ 486 (586)
.+.+.+|||||+..++ .|+|++.. +....... ..+||++||++|++.||+. ...++.|+|||+++++++++.
T Consensus 434 ~~~~~iytDGs~~~n~g~~g~G~v~~~~~~~~~~~-~~~TNn~aEl~A~i~aL~~----~~~~v~I~tDS~~v~~~i~~~ 508 (555)
T 1mu2_A 434 PGAETFYTDGSCNRQSKEGKAGYVTDRGKDKVKKL-EQTTNQQAELEAFAMALTD----SGPKVNIIVDSQYVMGIVASQ 508 (555)
T ss_dssp TTCEEEEEEEEECTTTCCEEEEEEETTSCEEEEEE-SSCCHHHHHHHHHHHHHHT----SCSEEEEEESCHHHHHHHHTC
T ss_pred CCceEEEEcccccCCCCCceEEEEEEeCCEeeccC-CCCCHHHHHHHHHHHHHHc----CCCeEEEEEehHHHHHHHhcc
Confidence 4568999999987543 67776553 22223333 3578999999999999998 468999999999999999874
Q ss_pred CCCCccHHHHHHHHHHHHhCCCcEEEEEcCCCCCChhhHHHHHHHhhhc
Q psy16039 487 KNDHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPI 535 (586)
Q Consensus 487 ~~~~~~~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi~gNe~AD~lAk~a~ 535 (586)
.... ...+++.+.++...+..|.|.|||||+|++|||.||+|||+|+
T Consensus 509 ~~~~--~~~l~~~~~~~~~~~~~v~~~wV~~H~g~~~Ne~AD~LA~~a~ 555 (555)
T 1mu2_A 509 PTES--ESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQGI 555 (555)
T ss_dssp CSEE--SCHHHHHHHHHHHHCSEEEEEECCSSSCCTTHHHHHHHHHTTC
T ss_pred cccc--cHHHHHHHHHHhccCCcEEEEEEECCCCChhHHHHHHHHHhhC
Confidence 3222 2333344444444578899999999999999999999999985
No 13
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=99.69 E-value=4.4e-17 Score=149.66 Aligned_cols=122 Identities=14% Similarity=0.200 Sum_probs=93.8
Q ss_pred eEEEEcCCCC-C--CCcee-EEec--CCee-EEe--ecC---CCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHHH
Q psy16039 413 VLCFTDGSKT-V--NSTSC-AYSI--GNQV-HAF--KLN---KVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSAL 480 (586)
Q Consensus 413 ~~iytDGS~~-~--~~~G~-av~~--~~~~-~~~--~l~---~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~al 480 (586)
+.+|||||+. . +..|+ |++. .+.. ..+ ..+ ..+|++.||+.|++.||+.+.+.+.+++.|+|||++++
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 5799999987 2 45775 7544 2222 222 222 36899999999999999999988889999999999999
Q ss_pred HHHhcCCCCC-ccHHHHHHHHHHHHhCCCcEEEEEcCCCCCChhhHHHHHHHhhhccCCC
Q psy16039 481 LAISNCKNDH-PLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITNIT 539 (586)
Q Consensus 481 ~~i~~~~~~~-~~~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi~gNe~AD~lAk~a~~~~~ 539 (586)
+.+++.+..+ +....+++.+..+.... .|.|.|||| ++|+.||+|||+|+....
T Consensus 82 ~~i~~~w~~~~~~~~~l~~~i~~l~~~~-~v~~~~V~~----~~N~~AD~LA~~a~~~~~ 136 (149)
T 2ehg_A 82 KQMNGEYKVKAKRIIPLYEKAIELKKKL-NATLIWVPR----EENKEADRLSRVAYELVR 136 (149)
T ss_dssp HHHTTSSCCCCTTHHHHHHHHHHHHHHH-TCEEEECCG----GGCHHHHHHHHHHHHHHH
T ss_pred HHHhCccccCCHHHHHHHHHHHHHHhcC-CEEEEEcCC----cccHHHHHHHHHHHHhhc
Confidence 9999876543 44556666676665544 599999997 599999999999997643
No 14
>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=99.69 E-value=2e-17 Score=183.84 Aligned_cols=119 Identities=22% Similarity=0.295 Sum_probs=87.8
Q ss_pred CCCceEEEEcCCCCCC--CceeEEecC-CeeEEeecCCCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHHHHHHhc
Q psy16039 409 YSDSVLCFTDGSKTVN--STSCAYSIG-NQVHAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAISN 485 (586)
Q Consensus 409 ~~~~~~iytDGS~~~~--~~G~av~~~-~~~~~~~l~~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~al~~i~~ 485 (586)
..+.+.+|||||+..+ ..|+|++.. +....... ..+||++||+.|++.||+.+ ..++.|+|||+++++++++
T Consensus 436 ~~~~~~iytDGs~~~n~g~~g~g~v~~~~~~~~~~~-~~~TNn~aEl~Ai~~aL~~~----~~~v~I~tDS~~vi~~i~~ 510 (557)
T 2zd1_A 436 IVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPL-TNTTNQKTELQAIYLALQDS----GLEVNIVTDSQYALGIIQA 510 (557)
T ss_dssp CTTSCEEEEEEEECTTTCCEEEEEEETTSCEEEEEE-CSCCHHHHHHHHHHHHHHHS----CSEEEEEECCHHHHHHHTT
T ss_pred CCCCEEEEEccCCCCCCCceEEEEEEECCcEEEecC-CCCCHHHHHHHHHHHHHHhC----CCcEEEEeChHHHHHHHhc
Confidence 3456899999998743 367776553 22222333 45799999999999999999 6899999999999999988
Q ss_pred CCCCCccHHHHHHHHHHHHhCCCcEEEEEcCCCCCChhhHHHHHHHhhh
Q psy16039 486 CKNDHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNP 534 (586)
Q Consensus 486 ~~~~~~~~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi~gNe~AD~lAk~a 534 (586)
....+ ...+++.+.+.......|.|.|||||+|++|||.||+|||+|
T Consensus 511 ~~~~~--~~~l~~~~~~~l~~~~~v~~~wV~~H~g~~~Ne~AD~LA~~a 557 (557)
T 2zd1_A 511 QPDKS--ESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAG 557 (557)
T ss_dssp CCSEE--SSHHHHHHHHHHHHCSEEEEEECCSSSCCTTCCGGGGCC---
T ss_pred CCccC--CHHHHHHHHHHHhcCCCEEEEEcCCCCCChhHHHHHHHHhcC
Confidence 65442 123334444333345689999999999999999999999986
No 15
>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=99.18 E-value=3.9e-12 Score=115.09 Aligned_cols=118 Identities=14% Similarity=-0.038 Sum_probs=83.8
Q ss_pred CCceEEEEcCCCCC--CCceeEEecC--CeeEE--eecCCCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHHHHHH
Q psy16039 410 SDSVLCFTDGSKTV--NSTSCAYSIG--NQVHA--FKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAI 483 (586)
Q Consensus 410 ~~~~~iytDGS~~~--~~~G~av~~~--~~~~~--~~l~~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~al~~i 483 (586)
.+.+.||||||+.. +..|+|++.. +.... ..++ .+|+++||++|++.||+.+.+... ++.|+|||+++++.+
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 IIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIP-IGTNNMGEFLAIVHGLRYLKERNS-RKPIYSNSQTAIKWV 86 (142)
T ss_dssp CCSSSEEEEEEECSSSEEEEEEEEETTTCCEEEECCCEE-EECHHHHHHHHHHHHHHHHHHTTC-CCCEEESCHHHHHHH
T ss_pred CCeEEEEEeeccCCCCCCeEEEEEEEeCCEEEEEecccC-CcCcHHHHHHHHHHHHHHHHhCCC-eEEEEEehHHHHHHH
Confidence 45678999999874 4478887763 22221 2222 478999999999999999998766 999999999999999
Q ss_pred hcCCCCC-----ccHHHHHHHHHHHH--hCCCcEEEEEcCCCCCChhhHHHHH
Q psy16039 484 SNCKNDH-----PLVSLVYTTWLEAK--DCGKNLNFVWCPSHCGITGNELVDI 529 (586)
Q Consensus 484 ~~~~~~~-----~~~~~i~~~~~~l~--~~~~~V~~~WVpgH~Gi~gNe~AD~ 529 (586)
++.+.++ ..-.++++.+.++. .+...++...|+.|++.-||..||.
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 8876432 12445555554431 2234556666777888889988873
No 16
>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=98.90 E-value=1.8e-09 Score=95.86 Aligned_cols=76 Identities=14% Similarity=0.014 Sum_probs=56.3
Q ss_pred CCceEEEEcCCCCC--CCceeE-EecCC-ee--EEeecCCCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHHHHHH
Q psy16039 410 SDSVLCFTDGSKTV--NSTSCA-YSIGN-QV--HAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAI 483 (586)
Q Consensus 410 ~~~~~iytDGS~~~--~~~G~a-v~~~~-~~--~~~~l~~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~al~~i 483 (586)
+....||||||+.. +..|+| |+..+ .. ....++ .+|+++||++|++.||+.+.+.+.. +.|+|||+++++.+
T Consensus 3 p~~~~iytDGac~GNPGp~G~ggV~~~~g~~~~~~g~~~-~tTNN~aEl~A~i~aL~~l~~~~~~-v~i~tDSqyVi~wi 80 (134)
T 4htu_A 3 IIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIP-IGTNNMGEFLAIVHGLRYLKERNSR-KPIYSNSQTAIKWV 80 (134)
T ss_dssp CCSSSEEEEEEEETTTEEEEEEEEETTTCCEEEEEEEEE-EECHHHHHHHHHHHHHHHHHHTTCC-CCEEESCHHHHHHH
T ss_pred ccceEEEEeeccCCCCCCeEEEEEEEECCEEEEEecCCC-CCchHHHHHHHHHHHHHHHHhCCCC-EEEEcchHHHHHHH
Confidence 34568999999874 347774 54432 21 222233 6899999999999999999885444 89999999999999
Q ss_pred hcCC
Q psy16039 484 SNCK 487 (586)
Q Consensus 484 ~~~~ 487 (586)
.+..
T Consensus 81 ~~~~ 84 (134)
T 4htu_A 81 KDKK 84 (134)
T ss_dssp HHTC
T ss_pred HcCC
Confidence 8653
No 17
>3kyl_A Telomerase reverse transcriptase; reverse transcriptase; 2.70A {Tribolium castaneum} PDB: 3du5_A 3du6_A
Probab=97.74 E-value=7.4e-06 Score=86.60 Aligned_cols=96 Identities=7% Similarity=-0.120 Sum_probs=55.6
Q ss_pred hhhcccccCceeEEEECCeeccccccccccCCCCCCCCcccCCCCccccceeeeecc--CCCCCcccCcCCceeEEeecc
Q psy16039 38 STLSPYLSRHTDMLCRGTRIWRSLLTRSPLGLTRPQPVATHCCLGLTGRLSASVRQT--ARTPLSRADVGRDSLRSAADR 115 (586)
Q Consensus 38 ~~i~syL~~R~~~V~~~~~~~~~~S~~~~~~~GvPQGs~~~~~~~vLsPlLf~~~~~--~~~~~~~~~~~~~~~~~yADD 115 (586)
+||+.+|.+-. |.++| .. +.-..|+|||| ++||+|-|++.. ...-.... .+...++-||||
T Consensus 282 ~LIkk~Lka~L--V~igG----k~---y~qekGTPQGG-------VISPLLANIYLheLDkel~~~l-~kd~~LVRYADD 344 (596)
T 3kyl_A 282 NFIVDHISNQF--VAFRR----KI---YKWNHGLLQGD-------PLSGCLCELYMAFMDRLYFSNL-DKDAFIHRTVDD 344 (596)
T ss_dssp HHHHHHHHCEE--EESSS----SE---EEECSSSCBTC-------TTHHHHHHHHHHHHHHHHSTTS-CTTSEEEECSSE
T ss_pred HHHHHHHhhCe--EEECC----EE---EecCCcccCCc-------chhHHHHHHHHHHHHHHHHHhh-ccCceEEEEcCc
Confidence 45566554322 55677 32 33468999999 999999993210 00000000 113458899999
Q ss_pred chhhhhcccccccchHHHHHHHHHHHHHHHHHHHhcCCccCCCCCceEEEEecC
Q psy16039 116 KDVIRFFFREEKREMGDKKILFRKTLDEVLKWSQANGLIFSTDPQKSVCVLFSR 169 (586)
Q Consensus 116 ~~i~~~~~~~~g~~~~~~~~~lq~~l~~l~~W~~~~gL~~n~~~~Kt~~~~f~~ 169 (586)
..++... .++ .+..++.+..| +++| ++||.+ .|..
T Consensus 345 FVIi~~S-------ke~----Aerfl~~Lkg~-----leLN--pEKTrI-nF~~ 379 (596)
T 3kyl_A 345 YFFCSPH-------PHK----VYDFELLIKGV-----YQVN--PTKTRT-NLPT 379 (596)
T ss_dssp EEEEESC-------HHH----HHHHHHHHHHH-----SCEE--EEEEEE-CCTT
T ss_pred EEEEECC-------HHH----HHHHHHHhhCc-----ceEC--chhcee-eccc
Confidence 9987532 222 33344434444 3999 999985 4433
No 18
>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=96.34 E-value=0.00087 Score=66.24 Aligned_cols=87 Identities=13% Similarity=0.020 Sum_probs=58.9
Q ss_pred CCCCCcccCCCCccccceeee--eccCCCCCcccCcCCceeEEeeccchhhhhcccccccchHHHHHHHHHHHHHHHHHH
Q psy16039 71 RPQPVATHCCLGLTGRLSASV--RQTARTPLSRADVGRDSLRSAADRKDVIRFFFREEKREMGDKKILFRKTLDEVLKWS 148 (586)
Q Consensus 71 vPQGs~~~~~~~vLsPlLf~~--~~~~~~~~~~~~~~~~~~~~yADD~~i~~~~~~~~g~~~~~~~~~lq~~l~~l~~W~ 148 (586)
.|||- .-||.+|.. +.... +... ......+..|.||+.+.+. +. ......++.+.++.
T Consensus 165 mPfGl-------~~sP~~fq~~m~~il~-~~~~-~~~~~~v~~Y~DDili~s~-------~~----eeh~~~l~~v~~~L 224 (255)
T 3fsi_A 165 LPQGF-------KNSPTLFDEALHRDLA-DFRI-QHPDLILLQYVDDLLLAAT-------SE----LDCQQGTRALLQTL 224 (255)
T ss_dssp CCTTC-------TTHHHHHHHHHHHHTH-HHHH-HCTTCEEEEETTEEEEEES-------SH----HHHHHHHHHHHHHH
T ss_pred eCCCC-------CCcHHHHHHHHHHHHH-HHHH-hCcCcEEEEEcCCeEEEeC-------CH----HHHHHHHHHHHHHH
Confidence 59999 999999982 11100 0000 0112347889999887542 33 33445678888889
Q ss_pred HhcCCccCCCCCceEEEEecCCCCCCCCceEeCCEEeeeecceeEEEEEecCC
Q psy16039 149 QANGLIFSTDPQKSVCVLFSRARNPSFPKLYYSGVELKFANSTKFLGLVWDSK 201 (586)
Q Consensus 149 ~~~gL~~n~~~~Kt~~~~f~~~~~~~~~~l~i~~~~I~~~~~~kyLGV~ld~~ 201 (586)
+++||.+| ++||+... .+++|||..++++
T Consensus 225 ~~~gl~l~--~~Kc~f~~----------------------~~~~fLG~~i~~~ 253 (255)
T 3fsi_A 225 GNLGYRAS--AKKAQICQ----------------------KQVKYLGYLLKEG 253 (255)
T ss_dssp HHHTCCBC--TTTCEEEE----------------------SEEEETTEEEETT
T ss_pred HHCCeEEC--HHHhcccC----------------------CceEEEEEEEeCC
Confidence 99999999 99998543 4678999988865
No 19
>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=93.11 E-value=0.011 Score=63.29 Aligned_cols=74 Identities=11% Similarity=-0.025 Sum_probs=46.8
Q ss_pred CceEEEEcCCCCCCCceeEEecCC----ee---EEeecC---CCcchhHHHHHHHHHHHHHhhhC-CCCeEEEEeCcHHH
Q psy16039 411 DSVLCFTDGSKTVNSTSCAYSIGN----QV---HAFKLN---KVNSVLSSELMAILLCVKNLIFL-PSTNFTLISDSMSA 479 (586)
Q Consensus 411 ~~~~iytDGS~~~~~~G~av~~~~----~~---~~~~l~---~~~tv~~AEl~AI~~AL~~a~~~-~~~~i~I~sDS~~a 479 (586)
..+.+|||+|. .++|+...... .. .+..+. ..-+..+.|++||..|++.+... .+.+++|+||+. +
T Consensus 345 ~~~~l~~DAS~--~~~gavL~q~~~~~~~~i~y~Sk~l~~~e~~ys~~ekEllAi~~a~~~~~~yl~g~~~~v~tDh~-~ 421 (455)
T 1rw3_A 345 KPFELFVDEKQ--GYAKGVLTQKLGPWRRPVAYLSKKLDPVAAGWPPCLRMVAAIAVLTKDAGKLTMGQPLVIKAPHA-V 421 (455)
T ss_dssp CTTSCEEEEEE--CSSSBEECCBCTTTTCCCCCCCBCSCSSCSSSCCSSHHHHHHHHHHHHHHGGGCSSCEEEECSSC-T
T ss_pred CcEEEEEeccC--CcceeEEEEecCCcEEEEEEEcccCCccccccchHHHHHHHHHHHHHHHHHHcCCCcEEEEecCh-H
Confidence 34678999973 34443222211 11 122222 23467889999999999988763 567999999996 6
Q ss_pred HHHHhcCC
Q psy16039 480 LLAISNCK 487 (586)
Q Consensus 480 l~~i~~~~ 487 (586)
+..+.+..
T Consensus 422 ~~~l~~~~ 429 (455)
T 1rw3_A 422 EALVKQPP 429 (455)
T ss_dssp TTTSSSTT
T ss_pred HHHhCCCc
Confidence 66665443
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=88.81 E-value=0.086 Score=57.91 Aligned_cols=73 Identities=18% Similarity=0.125 Sum_probs=46.3
Q ss_pred CCCCCCcccCCCCccccceee--eeccCCCCCcccCcCCceeEEeeccchhhhhcccccccchHHHHHHHHHHHHHHHHH
Q psy16039 70 TRPQPVATHCCLGLTGRLSAS--VRQTARTPLSRADVGRDSLRSAADRKDVIRFFFREEKREMGDKKILFRKTLDEVLKW 147 (586)
Q Consensus 70 GvPQGs~~~~~~~vLsPlLf~--~~~~~~~~~~~~~~~~~~~~~yADD~~i~~~~~~~~g~~~~~~~~~lq~~l~~l~~W 147 (586)
.+|||- .-||.+|. +..... +.. .....+.+..|.||+.|.+.. +.++- ...++.+.+.
T Consensus 150 ~mPfGl-------~nap~~fq~~m~~il~-~~~-~~~~~~~v~~Y~DDIli~s~~------~~~eh----~~~l~~v~~~ 210 (557)
T 2zd1_A 150 VLPQGW-------KGSPAIFQSSMTKILE-PFA-AQNPDIVIYQYMDDLYVGSDL------EIGQH----RTKIEELRQH 210 (557)
T ss_dssp BCCTTC-------TTHHHHHHHHHHHHHH-HHH-HTCTTEEEEEETTEEEEEECS------CHHHH----HHHHHHHHHH
T ss_pred eeCCCC-------CCHHHHHHHHHHHHHH-Hhh-hcCCCceEEEEecCEEEecCc------hHHHH----HHHHHHHHHH
Confidence 479999 99999998 111000 000 011123467899999875321 22333 3456677777
Q ss_pred HHhcCCccCCCCCceE
Q psy16039 148 SQANGLIFSTDPQKSV 163 (586)
Q Consensus 148 ~~~~gL~~n~~~~Kt~ 163 (586)
++++||.+| ++||+
T Consensus 211 l~~~gl~l~--~~Kc~ 224 (557)
T 2zd1_A 211 LLRWGLTTP--DKKHQ 224 (557)
T ss_dssp HHTTTCCCC--CSCCS
T ss_pred HHHcCCccC--hhhcC
Confidence 899999999 99986
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=87.46 E-value=0.14 Score=56.25 Aligned_cols=72 Identities=11% Similarity=-0.019 Sum_probs=44.5
Q ss_pred CCCCCCcccCCCCccccceee--eeccCCCCCcccCcCCceeEEeeccchhhhhcccccccchHHHHHHHHHHHHHHHHH
Q psy16039 70 TRPQPVATHCCLGLTGRLSAS--VRQTARTPLSRADVGRDSLRSAADRKDVIRFFFREEKREMGDKKILFRKTLDEVLKW 147 (586)
Q Consensus 70 GvPQGs~~~~~~~vLsPlLf~--~~~~~~~~~~~~~~~~~~~~~yADD~~i~~~~~~~~g~~~~~~~~~lq~~l~~l~~W 147 (586)
..|||- .-+|.+|. ++.... +.. .....+.+..|.||+.|.+.. +.++-. ..+..+.+-
T Consensus 148 ~mPfGl-------~napa~fq~~m~~il~-~~~-~~~~~~~v~~Y~DDIli~s~~------~~~eh~----~~l~~v~~~ 208 (555)
T 1mu2_A 148 VLPQGW-------KGSPAIFQHTMRQVLE-PFR-KANKDVIIIQYMDDILIASDR------TDLEHD----RVVLQLKEL 208 (555)
T ss_dssp BCCTTC-------TTHHHHHHHHHHHHHH-HHH-HHCTTSEEEEETTEEEEEECS------CHHHHH----HHHHHHHHH
T ss_pred EeCCCC-------CCcHHHHHHHHHHHHH-HHH-hhCCCcEEEEEecceEEecCC------CHHHHH----HHHHHHHHH
Confidence 479999 99999998 211000 000 001123477899999875320 233433 445566666
Q ss_pred HHhcCCccCCCCCce
Q psy16039 148 SQANGLIFSTDPQKS 162 (586)
Q Consensus 148 ~~~~gL~~n~~~~Kt 162 (586)
++++||.+| ++||
T Consensus 209 l~~~gl~l~--~~K~ 221 (555)
T 1mu2_A 209 LNGLGFSTP--DEKF 221 (555)
T ss_dssp HHHTTCBCC--STTE
T ss_pred HHHcCCccC--HHHh
Confidence 788999999 9997
No 22
>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=86.09 E-value=0.068 Score=56.73 Aligned_cols=73 Identities=15% Similarity=0.098 Sum_probs=37.3
Q ss_pred CCCCCCcccCCCCccccceee--eeccCCCCCcccCcCCceeEEeeccchhhhhcccccccchHHHHHHHHHHHHHHHHH
Q psy16039 70 TRPQPVATHCCLGLTGRLSAS--VRQTARTPLSRADVGRDSLRSAADRKDVIRFFFREEKREMGDKKILFRKTLDEVLKW 147 (586)
Q Consensus 70 GvPQGs~~~~~~~vLsPlLf~--~~~~~~~~~~~~~~~~~~~~~yADD~~i~~~~~~~~g~~~~~~~~~lq~~l~~l~~W 147 (586)
-+|||- .-||.+|. ++.... +.. .....+.+..|.||+.|.+.. +.++.. ..++.+.+-
T Consensus 148 vmPfGl-------~nsPa~fq~~m~~il~-~~~-~~~~~~~v~vY~DDIlI~s~~------~~~eh~----~~l~~v~~~ 208 (428)
T 2zd1_B 148 VLPQGW-------KGSPAIFQSSMTKILE-PFK-KQNPDIVIYQYMDDLYVGSDL------EIGQHR----TKIEELRQH 208 (428)
T ss_dssp BCCTTC-------THHHHHHHHHHHHHHH-HHH-HHCTTCEEEEETTEEEEEECS------CHHHHH----HHHHHHHHH
T ss_pred eeCCCC-------cchHHHHHHHHHHHHH-HHh-hcCCCceEEEEecceEEecCC------cHHHHH----HHHHHHHHH
Confidence 479999 99999998 111000 000 001122367899999875321 234444 445555556
Q ss_pred HHhcCCccCCCCCceE
Q psy16039 148 SQANGLIFSTDPQKSV 163 (586)
Q Consensus 148 ~~~~gL~~n~~~~Kt~ 163 (586)
++++||.+| ++||+
T Consensus 209 l~~~gL~l~--~~Kc~ 222 (428)
T 2zd1_B 209 LLRWGLTTP--DKKHQ 222 (428)
T ss_dssp HHHHHC----------
T ss_pred HHHhCCccC--hhHcc
Confidence 778899999 99987
No 23
>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=68.19 E-value=1.5 Score=46.66 Aligned_cols=87 Identities=14% Similarity=0.038 Sum_probs=55.2
Q ss_pred CCCCCcccCCCCccccceee--eeccCCCCCcccCcCCceeEEeeccchhhhhcccccccchHHHHHHHHHHHHHHHHHH
Q psy16039 71 RPQPVATHCCLGLTGRLSAS--VRQTARTPLSRADVGRDSLRSAADRKDVIRFFFREEKREMGDKKILFRKTLDEVLKWS 148 (586)
Q Consensus 71 vPQGs~~~~~~~vLsPlLf~--~~~~~~~~~~~~~~~~~~~~~yADD~~i~~~~~~~~g~~~~~~~~~lq~~l~~l~~W~ 148 (586)
.|||- .-||.+|. +..... +.. .......+..|.||+.|.+ ++.++... .++.+.+-+
T Consensus 169 mpfGl-------~naP~~fq~~m~~~l~-~~~-~~~~~~~v~~YvDDili~s-------~~~~e~~~----~l~~v~~~l 228 (455)
T 1rw3_A 169 LPQGF-------KNSPTLFDEALHRDLA-DFR-IQHPDLILLQYVDDLLLAA-------TSELDCQQ----GTRALLQTL 228 (455)
T ss_dssp CCSSC-------TTHHHHHHHHHHHHHH-HHH-HTCTTCEEEEETTEEEEEE-------SSHHHHHH----HHHHHHHHH
T ss_pred cCCCC-------CCcHHHHHHHHHHHHH-Hhh-hhCCCceEEEEcCCEEEec-------CCHHHHHH----HHHHHHHHH
Confidence 78998 88999998 111000 000 0001234678999987753 24444444 455555566
Q ss_pred HhcCCccCCCCCceEEEEecCCCCCCCCceEeCCEEeeeecceeEEEEEecCC
Q psy16039 149 QANGLIFSTDPQKSVCVLFSRARNPSFPKLYYSGVELKFANSTKFLGLVWDSK 201 (586)
Q Consensus 149 ~~~gL~~n~~~~Kt~~~~f~~~~~~~~~~l~i~~~~I~~~~~~kyLGV~ld~~ 201 (586)
+++||.+| ++||++. +.+++|||..++.+
T Consensus 229 ~~~gl~l~--~~K~~f~----------------------~~~~~fLG~~i~~~ 257 (455)
T 1rw3_A 229 GNLGYRAS--AKKAQIC----------------------QKQVKYLGYLLKEG 257 (455)
T ss_dssp HHHTCCBC--GGGCCCS----------------------BSSCEETTEEESSS
T ss_pred HHcCCccC--ccchhhh----------------------ccceeEeeeeccCC
Confidence 77899999 9999742 25678999888865
No 24
>1go4_E MAD1 (mitotic arrest deficient)-like 1; mitotic spindle checkpoint, cell cycle, mitosis, nuclear Pro; 2.05A {Homo sapiens} SCOP: h.1.22.1
Probab=47.86 E-value=35 Score=28.04 Aligned_cols=41 Identities=7% Similarity=0.076 Sum_probs=32.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHhcCC--ccCCCCCceEEEEecCCC
Q psy16039 129 EMGDKKILFRKTLDEVLKWSQANGL--IFSTDPQKSVCVLFSRAR 171 (586)
Q Consensus 129 ~~~~~~~~lq~~l~~l~~W~~~~gL--~~n~~~~Kt~~~~f~~~~ 171 (586)
++..-...|.+-.+.++.+.....| .|| ++||+++||+...
T Consensus 23 ~Le~E~~rLr~~~~~LE~~Le~~~l~Gd~~--~~~TKVlH~~~NP 65 (100)
T 1go4_E 23 ELEGERSRLEEEKRMLEAQLERRALQGDYD--QSRTKVLHMSLNP 65 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHSSCCSCCC--TTTEEEEEESSCH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccccC--CccCeeeeecCCh
Confidence 3445557788888888889888777 788 9999999998764
No 25
>3nnq_A Integrase P46, N-terminal domain of moloney murine leukemia VIRU integrase; retroviral integrase, Zn finger; 2.69A {Moloney murine leukemia virus}
Probab=31.83 E-value=9.5 Score=32.14 Aligned_cols=25 Identities=24% Similarity=0.501 Sum_probs=20.7
Q ss_pred CCCCCCCC--------cccccceeEeEeceeEE
Q psy16039 546 FDFRPNDD--------SYGTQCRYWSLLTYIMM 570 (586)
Q Consensus 546 ~~~~~~~~--------~~~~~~~~~~~~~~~~~ 570 (586)
+.|..+|. .|.+..+||.+.|++||
T Consensus 13 ~~Yt~~D~~~~~~l~~~y~~~~~~w~~~Gk~vl 45 (114)
T 3nnq_A 13 FHYTVTDIKDLTKLGAIYDKTKKYWVYQGKPVM 45 (114)
T ss_dssp CCCCHHHHHHHHHHTCEEETTTTEEEETTEEEE
T ss_pred CccChHHHHHHHHhcceecCCCceeccCCCCcC
Confidence 67777765 48888899999999987
Done!