Query psy3428
Match_columns 682
No_of_seqs 650 out of 3836
Neff 8.8
Searched_HMMs 29240
Date Sat Aug 17 00:48:29 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3428.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/3428hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3qio_A GAG-POL polyprotein; RN 99.9 1.6E-22 5.5E-27 186.0 11.1 124 325-453 9-147 (150)
2 2qkb_A Ribonuclease H1, HS-RNA 99.9 1.4E-22 4.7E-27 188.4 10.7 129 325-454 4-152 (154)
3 2kq2_A Ribonuclease H-related 99.9 3.3E-23 1.1E-27 190.5 3.3 128 325-456 3-140 (147)
4 3h08_A RNH (ribonuclease H); R 99.9 3E-22 1E-26 184.4 6.8 123 327-453 3-144 (146)
5 3p1g_A Xenotropic murine leuke 99.8 1.5E-21 5.3E-26 181.8 9.2 128 326-456 21-159 (165)
6 1jl1_A Ribonuclease HI; RNAse 99.8 2.9E-21 9.9E-26 179.3 8.4 125 328-456 4-146 (155)
7 2e4l_A Ribonuclease HI, RNAse 99.8 4.3E-21 1.5E-25 178.7 8.3 123 327-453 5-145 (158)
8 1ril_A Ribonuclease H; hydrola 99.8 5.2E-21 1.8E-25 179.5 5.3 126 327-455 7-150 (166)
9 2lsn_A Reverse transcriptase; 99.8 5.8E-20 2E-24 170.7 9.4 126 326-452 5-162 (165)
10 3hst_B Protein RV2228C/MT2287; 99.8 6.9E-19 2.4E-23 161.1 8.3 121 328-453 3-133 (141)
11 3u3g_D Ribonuclease H, RNAse H 99.8 1.1E-18 3.6E-23 159.6 8.1 121 328-453 3-137 (140)
12 2ehg_A Ribonuclease HI; RNAse 99.7 5.9E-18 2E-22 156.3 8.9 121 329-454 2-135 (149)
13 1mu2_A HIV-2 RT; HIV-2 reverse 99.7 6.3E-18 2.1E-22 189.7 10.5 117 326-451 434-555 (555)
14 2zd1_A Reverse transcriptase/r 99.7 7.6E-18 2.6E-22 189.1 7.4 116 326-450 437-557 (557)
15 1zbf_A Ribonuclease H-related 99.3 3.1E-13 1.1E-17 121.9 0.4 119 325-445 8-139 (142)
16 4htu_A Ribonuclease H, RNAse H 99.0 1.2E-10 4E-15 102.7 4.8 75 326-402 3-83 (134)
17 3fsi_A RT, reverse transcripta 96.3 0.0035 1.2E-07 62.4 5.1 83 4-117 166-253 (255)
18 1rw3_A POL polyprotein; RNA an 93.6 0.026 9E-07 61.1 2.5 84 3-117 169-257 (455)
19 3kyl_A Telomerase reverse tran 93.5 0.059 2E-06 57.1 4.9 62 9-85 312-379 (596)
20 2zd1_B P51 RT; P51/P66, hetero 89.8 0.17 5.9E-06 54.0 3.5 68 4-79 150-222 (428)
21 2zd1_A Reverse transcriptase/r 89.6 0.21 7.3E-06 55.3 4.2 83 4-117 152-239 (557)
22 1mu2_A HIV-2 RT; HIV-2 reverse 88.9 0.3 1E-05 54.1 4.7 83 4-117 150-237 (555)
23 1rw3_A POL polyprotein; RNA an 44.1 5.8 0.0002 42.4 0.7 41 361-402 387-428 (455)
24 1go4_E MAD1 (mitotic arrest de 41.1 34 0.0012 27.8 4.6 36 50-87 28-65 (100)
25 4fp9_B Mterf domain-containing 34.1 13 0.00043 37.9 1.3 13 146-158 56-68 (335)
26 3qio_A GAG-POL polyprotein; RN 29.9 10 0.00036 33.5 -0.2 30 498-527 117-146 (150)
27 2kq2_A Ribonuclease H-related 26.3 8.9 0.0003 33.8 -1.3 28 500-527 109-136 (147)
28 2zd1_B P51 RT; P51/P66, hetero 23.5 63 0.0022 33.9 4.5 69 325-396 321-400 (428)
29 3h08_A RNH (ribonuclease H); R 20.1 13 0.00044 32.5 -1.5 26 500-525 116-141 (146)
No 1
>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=99.87 E-value=1.6e-22 Score=185.97 Aligned_cols=124 Identities=23% Similarity=0.277 Sum_probs=95.7
Q ss_pred CCCeEEEEeCCCCCC--CCceEEEEEcce-eeeecCCCCCchHHHHHHHHHHHHHHHHcCCCCcEEEEcCCHHHHHhhhc
Q psy3428 325 YTSHTICYTDGSKTP--TTTGCAYSVGNV-VRSTLLNPVNSIFSAELIAIFLCLEAILDSPSGKFLIVTDSRSSLAALSN 401 (682)
Q Consensus 325 ~~~~~~iytDgS~~~--~~~G~g~~~~~~-~~~~~~~~~~~~~~aEl~Ai~~al~~~~~~~~~~v~i~sDs~~~i~~l~~ 401 (682)
..+.+.||||||+.. +..|+|+++... .....+ ..+||+.||+.|++.||+.+ ..+|.|+|||++++++|..
T Consensus 9 ~~~~~~iytDGs~~~n~g~~g~G~v~~~~~~~~~~~-~~~Tnn~aEl~A~i~AL~~~----~~~v~i~tDS~~v~~~i~~ 83 (150)
T 3qio_A 9 IVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTL-TDTTNQKTELQAIYLALQDS----GLEVNIVTDSQYALGIITQ 83 (150)
T ss_dssp CTTCEEEEEEEEECTTTCCEEEEEEETTSCEEEEEE-SSCCHHHHHHHHHHHHHHHS----CSEEEEEESCHHHHHHHHH
T ss_pred CCCCEEEEEccCCCCCCCCeEEEEEEEcCCEEEEeC-CCCCHHHHHHHHHHHHHHhC----CCcEEEEeCcHHHHHHHHH
Confidence 456899999999754 458889887632 222333 47899999999999999985 4899999999999999976
Q ss_pred CC-----------CCcH-HHHHHHHHHHHHHhcCCceEEEEecCCCCCchhHHHHHHhcCcccC
Q psy3428 402 VR-----------FINP-LITKVYSTWSYLKLCKKDITFMWCPSHCGIKGNEIVDVAAKNPTTG 453 (682)
Q Consensus 402 ~~-----------~~~~-~~~~i~~~~~~l~~~~~~v~~~WVpgH~gi~gNe~AD~lAk~a~~~ 453 (682)
+. ...+ ..+++++.+..+..++..|.|.|||||+|++|||.||+||++|+..
T Consensus 84 w~~~W~~~gw~~~~g~~v~n~~l~~~l~~~l~~~~~v~~~wV~gH~g~~~Ne~AD~LA~~a~~~ 147 (150)
T 3qio_A 84 WIHNWKKRGWKTADKKPVKNVDLVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIRK 147 (150)
T ss_dssp HHHHHCC------------CHHHHHHHHHHHTTCSEEEEEECCTTSCCHHHHHHHHHHHTTTSC
T ss_pred HHHHHhhcCcCcCcCcccccHHHHHHHHHHHhhcCceEEEEccCcCCChhHHHHHHHHHHHHHH
Confidence 51 1112 2245666555444567899999999999999999999999999875
No 2
>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=1.4e-22 Score=188.40 Aligned_cols=129 Identities=21% Similarity=0.247 Sum_probs=101.6
Q ss_pred CCCeEEEEeCCCCCCCC-----ceEEEEEcce---eeeecCCCCCchHHHHHHHHHHHHHHHHcCCCCcEEEEcCCHHHH
Q psy3428 325 YTSHTICYTDGSKTPTT-----TGCAYSVGNV---VRSTLLNPVNSIFSAELIAIFLCLEAILDSPSGKFLIVTDSRSSL 396 (682)
Q Consensus 325 ~~~~~~iytDgS~~~~~-----~G~g~~~~~~---~~~~~~~~~~~~~~aEl~Ai~~al~~~~~~~~~~v~i~sDs~~~i 396 (682)
+.+.+.||||||+..++ +|+|+++... ..+..+...+||+.||+.|++.||+.+...+..+|.|+|||++++
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 35689999999986542 7999887632 234445557899999999999999999987889999999999999
Q ss_pred HhhhcC---------CCCc--H-HHHHHHHHHHHHHhcCCceEEEEecCCCCCchhHHHHHHhcCcccCC
Q psy3428 397 AALSNV---------RFIN--P-LITKVYSTWSYLKLCKKDITFMWCPSHCGIKGNEIVDVAAKNPTTGT 454 (682)
Q Consensus 397 ~~l~~~---------~~~~--~-~~~~i~~~~~~l~~~~~~v~~~WVpgH~gi~gNe~AD~lAk~a~~~~ 454 (682)
+.|.++ .... + ..+.+++.+..+... ..|.|.|||||+|++|||.||+|||+|+..+
T Consensus 84 ~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~~-~~v~~~~V~~H~g~~~N~~AD~LA~~a~~~~ 152 (154)
T 2qkb_A 84 NGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQG-MDIQWMHVPGHSGFIGNEEADRLAREGAKQS 152 (154)
T ss_dssp HHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHTT-CEEEEEECCTTSSCHHHHHHHHHHHHHHTCC
T ss_pred hhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHcC-CceEEEEccCCCCCHhHHHHHHHHHHHHHhc
Confidence 999763 1111 1 234566666665554 5799999999999999999999999998764
No 3
>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=99.86 E-value=3.3e-23 Score=190.46 Aligned_cols=128 Identities=16% Similarity=0.063 Sum_probs=100.6
Q ss_pred CCCeEEEEeCCCCCCCCceEEEEEc--ce--eeee-cC--CC--CCchHHHHHHHHHHHHHHHHcCCCCcEEEEcCCHHH
Q psy3428 325 YTSHTICYTDGSKTPTTTGCAYSVG--NV--VRST-LL--NP--VNSIFSAELIAIFLCLEAILDSPSGKFLIVTDSRSS 395 (682)
Q Consensus 325 ~~~~~~iytDgS~~~~~~G~g~~~~--~~--~~~~-~~--~~--~~~~~~aEl~Ai~~al~~~~~~~~~~v~i~sDs~~~ 395 (682)
+++.+.||||||+.++.+|+|+++. +. ..+. .. +. .+||+.||+.|++.||+.+...+. +|.|+|||+.+
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 4678999999999888899998875 22 1222 22 22 369999999999999999877666 99999999998
Q ss_pred HHhhhcCCC-CcHHHHHHHHHHHHHHhcCCceEEEEecCCCCCchhHHHHHHhcCcccCCCC
Q psy3428 396 LAALSNVRF-INPLITKVYSTWSYLKLCKKDITFMWCPSHCGIKGNEIVDVAAKNPTTGTTP 456 (682)
Q Consensus 396 i~~l~~~~~-~~~~~~~i~~~~~~l~~~~~~v~~~WVpgH~gi~gNe~AD~lAk~a~~~~~~ 456 (682)
.+.+.+... ..+....+.+.++.|.. .|.|.|||||+|++|||.||+|||+|+.....
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 888776544 34455556665555543 89999999999999999999999999987654
No 4
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=99.85 E-value=3e-22 Score=184.44 Aligned_cols=123 Identities=20% Similarity=0.156 Sum_probs=92.3
Q ss_pred CeEEEEeCCCCCCC--CceEEEEEcc--e--eeeecCCCCCchHHHHHHHHHHHHHHHHcCCCCcEEEEcCCHHHHHhhh
Q psy3428 327 SHTICYTDGSKTPT--TTGCAYSVGN--V--VRSTLLNPVNSIFSAELIAIFLCLEAILDSPSGKFLIVTDSRSSLAALS 400 (682)
Q Consensus 327 ~~~~iytDgS~~~~--~~G~g~~~~~--~--~~~~~~~~~~~~~~aEl~Ai~~al~~~~~~~~~~v~i~sDs~~~i~~l~ 400 (682)
..++||||||+..+ .+|+|+++.. . ..+..+ ..+||+.||+.|++.||+.+.. ..+|.|+|||+++++.|.
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 47899999997654 4889988752 1 122223 3679999999999999999975 589999999999999998
Q ss_pred c-CC---------C--CcH-HHHHHHHHHHHHHhcCCceEEEEecCCCCCchhHHHHHHhcCcccC
Q psy3428 401 N-VR---------F--INP-LITKVYSTWSYLKLCKKDITFMWCPSHCGIKGNEIVDVAAKNPTTG 453 (682)
Q Consensus 401 ~-~~---------~--~~~-~~~~i~~~~~~l~~~~~~v~~~WVpgH~gi~gNe~AD~lAk~a~~~ 453 (682)
. +. . ..+ ..+.+++.+..+... ..|.|.|||||+|++|||.||+|||+|+..
T Consensus 80 ~~w~~~W~~~~w~~~~~~~v~n~~l~~~~~~~~~~-~~v~~~~V~gH~g~~~N~~AD~LA~~a~~~ 144 (146)
T 3h08_A 80 EGWLKRWVKNGWKTAAKKPVENIDLWQEILKLTTL-HRVTFHKVKGHSDNPYNSRADELARLAIKE 144 (146)
T ss_dssp SSHHHHHHHTTCC----CCCTTHHHHHHHHHHHHH-SEEEEEECCC-CCSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCccCCCCCcCCHHHHHHHHHHHhh-CceEEEEcCCcCCcHhHHHHHHHHHHHHHh
Confidence 7 21 1 111 124555555555544 479999999999999999999999999864
No 5
>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=99.85 E-value=1.5e-21 Score=181.75 Aligned_cols=128 Identities=23% Similarity=0.235 Sum_probs=94.5
Q ss_pred CCeEEEEeCCCCC--CCCceEEEEEc--cee-eeecCCCCCchHHHHHHHHHHHHHHHHcCCCCcEEEEcCCHHHHHhhh
Q psy3428 326 TSHTICYTDGSKT--PTTTGCAYSVG--NVV-RSTLLNPVNSIFSAELIAIFLCLEAILDSPSGKFLIVTDSRSSLAALS 400 (682)
Q Consensus 326 ~~~~~iytDgS~~--~~~~G~g~~~~--~~~-~~~~~~~~~~~~~aEl~Ai~~al~~~~~~~~~~v~i~sDs~~~i~~l~ 400 (682)
...+.||||||+. +|..|+|+++. +.. ........+||+.||+.|++.||+.+ ...+|.|+|||+++++.+-
T Consensus 21 ~~~i~iytDGs~~~npG~~g~G~vi~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~---~~~~v~I~tDS~~vi~~iw 97 (165)
T 3p1g_A 21 DADYTWYTDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMA---EGKKLNVYTDSRYAFATAH 97 (165)
T ss_dssp TCSEEEEEEEEEEEETTEEEEEEEEECSSCEEEEEEECTTCCHHHHHHHHHHHHHHHT---BTSEEEEEECCHHHHHHHH
T ss_pred CCCEEEEEEcccCCCCCceEEEEEEEECCEEEEEecCCCCCcHHHHHHHHHHHHHHHc---cCceEEEEEchHHHHhhhh
Confidence 3469999999986 56688887654 221 12234567899999999999999999 3689999999999999983
Q ss_pred cCCCCcHH-HHHHHHHHHHHHhcCCceEEEEecCCCC-----CchhHHHHHHhcCcccCCCC
Q psy3428 401 NVRFINPL-ITKVYSTWSYLKLCKKDITFMWCPSHCG-----IKGNEIVDVAAKNPTTGTTP 456 (682)
Q Consensus 401 ~~~~~~~~-~~~i~~~~~~l~~~~~~v~~~WVpgH~g-----i~gNe~AD~lAk~a~~~~~~ 456 (682)
....+.++ .+.++..+......+..|.|.|||||+| ++|||+||+|||+|+..+..
T Consensus 98 ~~~~g~~v~n~dl~~~l~~~l~~~~~v~~~wVkgH~g~~~~~~~gNe~AD~LA~~aa~~~~~ 159 (165)
T 3p1g_A 98 VHSEGREIKNKNEILALLKALFLPKRLSIIHCPGHQKGNSAEARGNRMADQAAREAAMKAVL 159 (165)
T ss_dssp SCCCSCCCSSHHHHHHHHHHTTSBSEEEEEECCSSCCSCSHHHHHHHHHHHHHHHHHHHHHT
T ss_pred cccCCCcccCHHHHHHHHHHHhcCCceEEEEecCCCCCCcCcchHHHHHHHHHHHHHhcCCC
Confidence 21222221 2344443322233578999999999999 99999999999999876543
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=99.84 E-value=2.9e-21 Score=179.35 Aligned_cols=125 Identities=19% Similarity=0.215 Sum_probs=96.1
Q ss_pred eEEEEeCCCCCC--CCceEEEEEcc--e--eeeecCCCCCchHHHHHHHHHHHHHHHHcCCCCcEEEEcCCHHHHHhhhc
Q psy3428 328 HTICYTDGSKTP--TTTGCAYSVGN--V--VRSTLLNPVNSIFSAELIAIFLCLEAILDSPSGKFLIVTDSRSSLAALSN 401 (682)
Q Consensus 328 ~~~iytDgS~~~--~~~G~g~~~~~--~--~~~~~~~~~~~~~~aEl~Ai~~al~~~~~~~~~~v~i~sDs~~~i~~l~~ 401 (682)
.+.||||||+.. +.+|+|+++.. . ..+..+ ..+||+.||+.|++.||+.+.. ..+|.|+|||+++++.|..
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 589999999865 44889988752 1 122223 3579999999999999999975 3799999999999999986
Q ss_pred C---------CCC--cH-HHHHHHHHHHHHHhcCCceEEEEecCCCCCchhHHHHHHhcCcccCCCC
Q psy3428 402 V---------RFI--NP-LITKVYSTWSYLKLCKKDITFMWCPSHCGIKGNEIVDVAAKNPTTGTTP 456 (682)
Q Consensus 402 ~---------~~~--~~-~~~~i~~~~~~l~~~~~~v~~~WVpgH~gi~gNe~AD~lAk~a~~~~~~ 456 (682)
+ ... .+ ..+.+++.+..+... ..|.|.|||||+|++|||.||+|||+|+..+..
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 WIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQ-HQIKWEWVKGHAGHPENERADELARAAAMNPTL 146 (155)
T ss_dssp THHHHHHTTTBCTTSCBCTTHHHHHHHHHHTTT-CEEEEEECCSSTTCHHHHHHHHHHHHHHHSCCB
T ss_pred HHHHHhhcccccccCCccCCHHHHHHHHHHHcc-CceEEEEcCCCCCCHHHHHHHHHHHHHHhccch
Confidence 2 111 11 124566666666544 689999999999999999999999999987654
No 7
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=99.83 E-value=4.3e-21 Score=178.72 Aligned_cols=123 Identities=20% Similarity=0.230 Sum_probs=94.1
Q ss_pred CeEEEEeCCCCCC--CCceEEEEEcc--e--eeeecCCCCCchHHHHHHHHHHHHHHHHcCCCCcEEEEcCCHHHHHhhh
Q psy3428 327 SHTICYTDGSKTP--TTTGCAYSVGN--V--VRSTLLNPVNSIFSAELIAIFLCLEAILDSPSGKFLIVTDSRSSLAALS 400 (682)
Q Consensus 327 ~~~~iytDgS~~~--~~~G~g~~~~~--~--~~~~~~~~~~~~~~aEl~Ai~~al~~~~~~~~~~v~i~sDs~~~i~~l~ 400 (682)
..+.||||||+.. +.+|+|+++.. . .....+ ..+||+.||+.|++.||+.+.. ..+|.|+|||+++++.|.
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 KLIHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGF-SLTTNNRMELLAPIVALEALKE--PCKIILTSDSQYMRQGIM 81 (158)
T ss_dssp CEEEEEEEEEESSSSEEEEEEEEEEETTEEEEEEEEE-EEECHHHHHHHHHHHHHHTCSS--CCEEEEEECCHHHHHHHH
T ss_pred CeEEEEEcccccCCCCcEEEEEEEEECCEEEEEecCc-CCCccHHHHHHHHHHHHHHhcc--CCeEEEEeCHHHHHHHHH
Confidence 4689999999864 45899988742 2 112223 3579999999999999999864 389999999999999997
Q ss_pred c--------CC-CC--cH-HHHHHHHHHHHHHhcCCceEEEEecCCCCCchhHHHHHHhcCcccC
Q psy3428 401 N--------VR-FI--NP-LITKVYSTWSYLKLCKKDITFMWCPSHCGIKGNEIVDVAAKNPTTG 453 (682)
Q Consensus 401 ~--------~~-~~--~~-~~~~i~~~~~~l~~~~~~v~~~WVpgH~gi~gNe~AD~lAk~a~~~ 453 (682)
+ .. .. .+ ....++..+..+... ..|.|.|||||+|++||+.||+|||+|+..
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 TWIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQL-HQIDWRWVKGHAGHAENERCDQLARAAAEA 145 (158)
T ss_dssp THHHHHHHTTTBCTTSSBCTTHHHHHHHHHHHTT-SEEEEEECCTTCCCHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHccccccCCCcccCHHHHHHHHHHHcc-CcEEEEEccCCCCchhHHHHHHHHHHHHHh
Confidence 7 22 11 11 124555555555544 689999999999999999999999999987
No 8
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=99.82 E-value=5.2e-21 Score=179.46 Aligned_cols=126 Identities=19% Similarity=0.155 Sum_probs=95.8
Q ss_pred CeEEEEeCCCCCC--CCceEEEEEcc--eeeeec-CCCCCchHHHHHHHHHHHHHHHHcCCCCcEEEEcCCHHHHHhhhc
Q psy3428 327 SHTICYTDGSKTP--TTTGCAYSVGN--VVRSTL-LNPVNSIFSAELIAIFLCLEAILDSPSGKFLIVTDSRSSLAALSN 401 (682)
Q Consensus 327 ~~~~iytDgS~~~--~~~G~g~~~~~--~~~~~~-~~~~~~~~~aEl~Ai~~al~~~~~~~~~~v~i~sDs~~~i~~l~~ 401 (682)
..+.||||||+.. +.+|+|+++.. ....+. ....+||+.||+.|++.||+.+... .+|.|+|||+++++.|.+
T Consensus 7 ~~i~iytDGs~~~n~g~~G~G~v~~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~~~~--~~v~I~tDS~~vi~~i~~ 84 (166)
T 1ril_A 7 KRVALFTDGACLGNPGPGGWAALLRFHAHEKLLSGGEACTTNNRMELKAAIEGLKALKEP--CEVDLYTDSHYLKKAFTE 84 (166)
T ss_dssp CCCCEEEEEEESSTTEEEEEEEEECBTTBCCEECCEEEEECHHHHHHHHHHHHHHSCCSC--CEEEEECCCHHHHHHHHS
T ss_pred ccEEEEECccccCCCCCEEEEEEEEECCEEEEEecCCCCCcHHHHHHHHHHHHHHHhccC--CeEEEEeChHHHHHHHhh
Confidence 5789999999865 45899988752 111111 1135799999999999999988653 589999999999999988
Q ss_pred ----------CCCCc--H-HHHHHHHHHHHHHhcCCceEEEEecCCCCCchhHHHHHHhcCcccCCC
Q psy3428 402 ----------VRFIN--P-LITKVYSTWSYLKLCKKDITFMWCPSHCGIKGNEIVDVAAKNPTTGTT 455 (682)
Q Consensus 402 ----------~~~~~--~-~~~~i~~~~~~l~~~~~~v~~~WVpgH~gi~gNe~AD~lAk~a~~~~~ 455 (682)
+...+ + ..+.++..+..+... ..|.|.|||||+|++||+.||+|||+|+....
T Consensus 85 ~w~~~W~~~~w~~~~g~~v~n~~l~~~i~~l~~~-~~v~~~wV~gH~g~~~Ne~AD~LAk~a~~~~~ 150 (166)
T 1ril_A 85 GWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAP-HRVRFHFVKGHTGHPENERVDREARRQAQSQA 150 (166)
T ss_dssp SHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHHTT-SEEECCCCCGGGSCTHHHHHHHHHHHHHTSSC
T ss_pred hHHHHHHhcccccccCCccCcHHHHHHHHHHHhc-CeEEEEEeeCCCCchhHHHHHHHHHHHHHHhh
Confidence 22211 1 124566666666554 58999999999999999999999999998765
No 9
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=99.80 E-value=5.8e-20 Score=170.75 Aligned_cols=126 Identities=22% Similarity=0.230 Sum_probs=92.6
Q ss_pred CCeEEEEeCCCCC--CCC-----ceEEEEEcc------eeeeecC-CCCCchHHHHHHHHHHHHHHHHcCCCCcEEEEcC
Q psy3428 326 TSHTICYTDGSKT--PTT-----TGCAYSVGN------VVRSTLL-NPVNSIFSAELIAIFLCLEAILDSPSGKFLIVTD 391 (682)
Q Consensus 326 ~~~~~iytDgS~~--~~~-----~G~g~~~~~------~~~~~~~-~~~~~~~~aEl~Ai~~al~~~~~~~~~~v~i~sD 391 (682)
...++||||||+. |++ +|+|+++.. ....+.. ....+++.||+.|+..||+.+...+ .+|.|+||
T Consensus 5 ~~evviYTDGsc~gNpgp~~~~~aG~Gv~~~~~~~~~~~~~~~~~~tnn~te~~Aei~Al~~al~~al~~~-~~v~I~TD 83 (165)
T 2lsn_A 5 QYEGVFYTDGSAIKSPDPTKSNNAGMGIVHATYKPEYQVLNQWSIPLGNHTAQMAEIAAVEFACKKALKIP-GPVLVITD 83 (165)
T ss_dssp CCSEEEEEEEEEEECSSCTTCEEEEEEEEEECCSSSCCEEEEEEEEESSCCHHHHHHHHHHHHHHHHHHSS-SCEEEEES
T ss_pred CceEEEEEcCCCCCCCCCCCCCcEEEEEEEEECCCccEEeccccCCchHHHHHHHHHHHHHHHHHHHhcCC-CeEEEEeC
Confidence 4568999999975 344 799988641 1222222 2467888999999999998887644 57999999
Q ss_pred CHHHHHhhhcC---------CC--CcH-HHHHHHHHHHHHHhcCCceEEEEecCCCCC------chhHHHHHHhcCccc
Q psy3428 392 SRSSLAALSNV---------RF--INP-LITKVYSTWSYLKLCKKDITFMWCPSHCGI------KGNEIVDVAAKNPTT 452 (682)
Q Consensus 392 s~~~i~~l~~~---------~~--~~~-~~~~i~~~~~~l~~~~~~v~~~WVpgH~gi------~gNe~AD~lAk~a~~ 452 (682)
|++++++|..+ .. +.| ..+++++.+..+......|.|.|||||+|+ +|||+||+||++|+.
T Consensus 84 S~Yvi~~it~w~~~Wk~ngw~~~~~~pVkN~dL~~~l~~~~~~~~~v~~~~VkgH~g~~~~~~~~gNe~AD~LA~~gA~ 162 (165)
T 2lsn_A 84 SFYVAESANKELPYWKSNGFVNNKKKPLKHISKWKSIAECLSMKPDITIQHEKGHQPTNTSIHTEGNALADKLATQGSY 162 (165)
T ss_dssp CHHHHHHHHTHHHHHHHTTSCSCSSSCCSSHHHHHHHHHHHHHCTTCEEEECCSSSCSSSCHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHhhhhhhhhhheeccccccCCCcccCHHHHHHHHHHHhCCCCEEEEEEeCCCCccCCCCChHHHHHHHHHHHhhh
Confidence 99999999642 11 112 234666666666666678999999999995 589999999999874
No 10
>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=99.76 E-value=6.9e-19 Score=161.11 Aligned_cols=121 Identities=17% Similarity=0.192 Sum_probs=99.8
Q ss_pred eEEEEeCCCCCC--CCceEEEEEcce-------eeeecCCCCCchHHHHHHHHHHHHHHHHcCCCCcEEEEcCCHHHHHh
Q psy3428 328 HTICYTDGSKTP--TTTGCAYSVGNV-------VRSTLLNPVNSIFSAELIAIFLCLEAILDSPSGKFLIVTDSRSSLAA 398 (682)
Q Consensus 328 ~~~iytDgS~~~--~~~G~g~~~~~~-------~~~~~~~~~~~~~~aEl~Ai~~al~~~~~~~~~~v~i~sDs~~~i~~ 398 (682)
.+.||||||+.. +.+|+|+++... .....+ ..+||+.||+.|++.||+.+...+.++|.|+|||+++++.
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 589999999864 468999887521 112223 3689999999999999999998888999999999999999
Q ss_pred hhcCC-CCcHHHHHHHHHHHHHHhcCCceEEEEecCCCCCchhHHHHHHhcCcccC
Q psy3428 399 LSNVR-FINPLITKVYSTWSYLKLCKKDITFMWCPSHCGIKGNEIVDVAAKNPTTG 453 (682)
Q Consensus 399 l~~~~-~~~~~~~~i~~~~~~l~~~~~~v~~~WVpgH~gi~gNe~AD~lAk~a~~~ 453 (682)
+.+.. ..++....++..+..+..++..|.|.||| .++|+.||+|||+|+..
T Consensus 82 i~~~~~~~~~~l~~~~~~i~~l~~~~~~v~~~~V~----~~~N~~AD~LA~~a~~~ 133 (141)
T 3hst_B 82 MSGRWKVKHPDLLKLYVQAQALASQFRRINYEWVP----RARNTYADRLANDAMDA 133 (141)
T ss_dssp HTTSSCCCSHHHHHHHHHHHHHHTTSSEEEEEECC----GGGCHHHHHHHHHHHHH
T ss_pred HhCCcccCCHHHHHHHHHHHHHHhcCCeEEEEEcC----CcccHHHHHHHHHHHHH
Confidence 98853 55666677777788888888999999999 48999999999998754
No 11
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=99.75 E-value=1.1e-18 Score=159.62 Aligned_cols=121 Identities=17% Similarity=0.185 Sum_probs=96.8
Q ss_pred eEEEEeCCCCCC--CCceEEEEEcc----e--eeeecCCCCCchHHHHHHHHHHHHHHHHcCCCC----cEEEEcCCHHH
Q psy3428 328 HTICYTDGSKTP--TTTGCAYSVGN----V--VRSTLLNPVNSIFSAELIAIFLCLEAILDSPSG----KFLIVTDSRSS 395 (682)
Q Consensus 328 ~~~iytDgS~~~--~~~G~g~~~~~----~--~~~~~~~~~~~~~~aEl~Ai~~al~~~~~~~~~----~v~i~sDs~~~ 395 (682)
.+.||||||+.. +.+|+|+++.. . .....++ .+||+.||+.|++.||+.+...+.+ +|.|+|||+++
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 689999999864 46899988753 1 1222233 5799999999999999999887777 99999999999
Q ss_pred HHhhhcCCC-CcHHHHHHHHHHHHH-HhcCCceEEEEecCCCCCchhHHHHHHhcCcccC
Q psy3428 396 LAALSNVRF-INPLITKVYSTWSYL-KLCKKDITFMWCPSHCGIKGNEIVDVAAKNPTTG 453 (682)
Q Consensus 396 i~~l~~~~~-~~~~~~~i~~~~~~l-~~~~~~v~~~WVpgH~gi~gNe~AD~lAk~a~~~ 453 (682)
++.+.++.. .++-...++..+..+ ..++..|.|.||| .++|+.||+|||+|+..
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 999988653 455455666777777 6677899999999 59999999999998753
No 12
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=99.73 E-value=5.9e-18 Score=156.33 Aligned_cols=121 Identities=17% Similarity=0.134 Sum_probs=94.6
Q ss_pred EEEEeCCCCC---CCCceE-EEEEcc--ee---eeecCC---CCCchHHHHHHHHHHHHHHHHcCCCCcEEEEcCCHHHH
Q psy3428 329 TICYTDGSKT---PTTTGC-AYSVGN--VV---RSTLLN---PVNSIFSAELIAIFLCLEAILDSPSGKFLIVTDSRSSL 396 (682)
Q Consensus 329 ~~iytDgS~~---~~~~G~-g~~~~~--~~---~~~~~~---~~~~~~~aEl~Ai~~al~~~~~~~~~~v~i~sDs~~~i 396 (682)
+.||||||+. ++++|+ |+++.. .. .....+ ..+||+.||+.|++.||+.+...+..+|.|+|||++++
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 5799999986 356885 877653 11 112223 37899999999999999999988888999999999999
Q ss_pred HhhhcCCC-CcHHHHHHHHHHHHHHhcCCceEEEEecCCCCCchhHHHHHHhcCcccCC
Q psy3428 397 AALSNVRF-INPLITKVYSTWSYLKLCKKDITFMWCPSHCGIKGNEIVDVAAKNPTTGT 454 (682)
Q Consensus 397 ~~l~~~~~-~~~~~~~i~~~~~~l~~~~~~v~~~WVpgH~gi~gNe~AD~lAk~a~~~~ 454 (682)
+.+.++.. .++....+++.+..+.... .|.|.|||+ ++|+.||+|||+|+...
T Consensus 82 ~~i~~~w~~~~~~~~~l~~~i~~l~~~~-~v~~~~V~~----~~N~~AD~LA~~a~~~~ 135 (149)
T 2ehg_A 82 KQMNGEYKVKAKRIIPLYEKAIELKKKL-NATLIWVPR----EENKEADRLSRVAYELV 135 (149)
T ss_dssp HHHTTSSCCCCTTHHHHHHHHHHHHHHH-TCEEEECCG----GGCHHHHHHHHHHHHHH
T ss_pred HHHhCccccCCHHHHHHHHHHHHHHhcC-CEEEEEcCC----cccHHHHHHHHHHHHhh
Confidence 99988743 3344566666666666655 599999997 59999999999998654
No 13
>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=99.72 E-value=6.3e-18 Score=189.69 Aligned_cols=117 Identities=23% Similarity=0.298 Sum_probs=91.8
Q ss_pred CCeEEEEeCCCCCCC--CceEEEEEcce-eeeecCCCCCchHHHHHHHHHHHHHHHHcCCCCcEEEEcCCHHHHHhhhcC
Q psy3428 326 TSHTICYTDGSKTPT--TTGCAYSVGNV-VRSTLLNPVNSIFSAELIAIFLCLEAILDSPSGKFLIVTDSRSSLAALSNV 402 (682)
Q Consensus 326 ~~~~~iytDgS~~~~--~~G~g~~~~~~-~~~~~~~~~~~~~~aEl~Ai~~al~~~~~~~~~~v~i~sDs~~~i~~l~~~ 402 (682)
.+.+.||||||+..+ .+|+|+++... ...... ..+||+.||+.|++.||+. ...++.|+|||++|++++.++
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 457999999998654 47888887532 222223 3679999999999999998 568999999999999999987
Q ss_pred CCC--cHHHHHHHHHHHHHHhcCCceEEEEecCCCCCchhHHHHHHhcCcc
Q psy3428 403 RFI--NPLITKVYSTWSYLKLCKKDITFMWCPSHCGIKGNEIVDVAAKNPT 451 (682)
Q Consensus 403 ~~~--~~~~~~i~~~~~~l~~~~~~v~~~WVpgH~gi~gNe~AD~lAk~a~ 451 (682)
... .++.+++.+ +...+..|.|.|||||+|++|||.||+||++|+
T Consensus 509 ~~~~~~~l~~~~~~----~~~~~~~v~~~wV~~H~g~~~Ne~AD~LA~~a~ 555 (555)
T 1mu2_A 509 PTESESKIVNQIIE----EMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQGI 555 (555)
T ss_dssp CSEESCHHHHHHHH----HHHHCSEEEEEECCSSSCCTTHHHHHHHHHTTC
T ss_pred cccccHHHHHHHHH----HhccCCcEEEEEEECCCCChhHHHHHHHHHhhC
Confidence 533 344444433 333468899999999999999999999999985
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=99.70 E-value=7.6e-18 Score=189.10 Aligned_cols=116 Identities=26% Similarity=0.345 Sum_probs=89.0
Q ss_pred CCeEEEEeCCCCCC--CCceEEEEEcce-eeeecCCCCCchHHHHHHHHHHHHHHHHcCCCCcEEEEcCCHHHHHhhhcC
Q psy3428 326 TSHTICYTDGSKTP--TTTGCAYSVGNV-VRSTLLNPVNSIFSAELIAIFLCLEAILDSPSGKFLIVTDSRSSLAALSNV 402 (682)
Q Consensus 326 ~~~~~iytDgS~~~--~~~G~g~~~~~~-~~~~~~~~~~~~~~aEl~Ai~~al~~~~~~~~~~v~i~sDs~~~i~~l~~~ 402 (682)
.+.+.||||||+.. +.+|+|+++... ...... ..+||+.||+.|++.||+.+ ..++.|+|||++|++++.++
T Consensus 437 ~~~~~iytDGs~~~n~g~~g~g~v~~~~~~~~~~~-~~~TNn~aEl~Ai~~aL~~~----~~~v~I~tDS~~vi~~i~~~ 511 (557)
T 2zd1_A 437 VGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPL-TNTTNQKTELQAIYLALQDS----GLEVNIVTDSQYALGIIQAQ 511 (557)
T ss_dssp TTSCEEEEEEEECTTTCCEEEEEEETTSCEEEEEE-CSCCHHHHHHHHHHHHHHHS----CSEEEEEECCHHHHHHHTTC
T ss_pred CCCEEEEEccCCCCCCCceEEEEEEECCcEEEecC-CCCCHHHHHHHHHHHHHHhC----CCcEEEEeChHHHHHHHhcC
Confidence 45689999999754 447888887632 222222 46899999999999999998 57999999999999999987
Q ss_pred CCC--cHHHHHHHHHHHHHHhcCCceEEEEecCCCCCchhHHHHHHhcCc
Q psy3428 403 RFI--NPLITKVYSTWSYLKLCKKDITFMWCPSHCGIKGNEIVDVAAKNP 450 (682)
Q Consensus 403 ~~~--~~~~~~i~~~~~~l~~~~~~v~~~WVpgH~gi~gNe~AD~lAk~a 450 (682)
... .++.+++.+ .+. ....|.|.|||||+|++|||.||+||++|
T Consensus 512 ~~~~~~~l~~~~~~---~l~-~~~~v~~~wV~~H~g~~~Ne~AD~LA~~a 557 (557)
T 2zd1_A 512 PDKSESELVNQIIE---QLI-KKEKVYLAWVPAHKGIGGNEQVDKLVSAG 557 (557)
T ss_dssp CSEESSHHHHHHHH---HHH-HCSEEEEEECCSSSCCTTCCGGGGCC---
T ss_pred CccCCHHHHHHHHH---HHh-cCCCEEEEEcCCCCCChhHHHHHHHHhcC
Confidence 665 244444443 233 34689999999999999999999999986
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=99.29 E-value=3.1e-13 Score=121.90 Aligned_cols=119 Identities=12% Similarity=0.016 Sum_probs=83.9
Q ss_pred CCCeEEEEeCCCCC--CCCceEEEEEcc--ee--eeecCCCCCchHHHHHHHHHHHHHHHHcCCCCcEEEEcCCHHHHHh
Q psy3428 325 YTSHTICYTDGSKT--PTTTGCAYSVGN--VV--RSTLLNPVNSIFSAELIAIFLCLEAILDSPSGKFLIVTDSRSSLAA 398 (682)
Q Consensus 325 ~~~~~~iytDgS~~--~~~~G~g~~~~~--~~--~~~~~~~~~~~~~aEl~Ai~~al~~~~~~~~~~v~i~sDs~~~i~~ 398 (682)
+...+.||||||+. ++.+|+|+++.. .. .+..++ .+||+.||++|++.||+.+.+.+. +|.|+|||++|++.
T Consensus 8 ~~~~~~iy~DGa~~gNpG~~G~G~vl~~~g~~~~~~~~~~-~~TNN~aEl~A~i~aL~~~~~~~~-~v~i~tDS~~vi~w 85 (142)
T 1zbf_A 8 EIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIP-IGTNNMGEFLAIVHGLRYLKERNS-RKPIYSNSQTAIKW 85 (142)
T ss_dssp CCCSSSEEEEEEECSSSEEEEEEEEETTTCCEEEECCCEE-EECHHHHHHHHHHHHHHHHHHTTC-CCCEEESCHHHHHH
T ss_pred CCCeEEEEEeeccCCCCCCeEEEEEEEeCCEEEEEecccC-CcCcHHHHHHHHHHHHHHHHhCCC-eEEEEEehHHHHHH
Confidence 34678899999975 456899998862 11 112222 579999999999999999998766 99999999999999
Q ss_pred hhcCCCC-----cHHHHHHHHHHHHHH--hcCCceEEEEecCCCCCchhHHHHH
Q psy3428 399 LSNVRFI-----NPLITKVYSTWSYLK--LCKKDITFMWCPSHCGIKGNEIVDV 445 (682)
Q Consensus 399 l~~~~~~-----~~~~~~i~~~~~~l~--~~~~~v~~~WVpgH~gi~gNe~AD~ 445 (682)
+.+...+ .....++++.+.++. .+...+....|+.|++.-||..||.
T Consensus 86 ~~~~~~k~~~~~~v~n~dLw~~l~~~~~w~~~~~~~~~~~kw~~~~~ge~pad~ 139 (142)
T 1zbf_A 86 VKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADY 139 (142)
T ss_dssp HHHTCCCCCCCCSTTTHHHHHHHHHHHHHHHHCCCCCCEEECCHHHHCSCTTCC
T ss_pred HHcCCccCCCCCCcccHHHHHHHHHHHHHHhhCCCceeEEEeccCccCcCcccc
Confidence 9876522 112344454444332 1124556666777888889988873
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=99.04 E-value=1.2e-10 Score=102.74 Aligned_cols=75 Identities=13% Similarity=0.088 Sum_probs=56.8
Q ss_pred CCeEEEEeCCCCC--CCCceEEEEEcc--e--eeeecCCCCCchHHHHHHHHHHHHHHHHcCCCCcEEEEcCCHHHHHhh
Q psy3428 326 TSHTICYTDGSKT--PTTTGCAYSVGN--V--VRSTLLNPVNSIFSAELIAIFLCLEAILDSPSGKFLIVTDSRSSLAAL 399 (682)
Q Consensus 326 ~~~~~iytDgS~~--~~~~G~g~~~~~--~--~~~~~~~~~~~~~~aEl~Ai~~al~~~~~~~~~~v~i~sDs~~~i~~l 399 (682)
+....||||||+. ||.+|+|+|+.. . .....+ ..+||+.||++|++.||+.+.+.+.. +.|+|||++|++.+
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 IIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPI-PIGTNNMGEFLAIVHGLRYLKERNSR-KPIYSNSQTAIKWV 80 (134)
T ss_dssp CCSSSEEEEEEEETTTEEEEEEEEETTTCCEEEEEEEE-EEECHHHHHHHHHHHHHHHHHHTTCC-CCEEESCHHHHHHH
T ss_pred ccceEEEEeeccCCCCCCeEEEEEEEECCEEEEEecCC-CCCchHHHHHHHHHHHHHHHHhCCCC-EEEEcchHHHHHHH
Confidence 4566899999975 456889655542 1 122222 26899999999999999999875544 89999999999999
Q ss_pred hcC
Q psy3428 400 SNV 402 (682)
Q Consensus 400 ~~~ 402 (682)
.++
T Consensus 81 ~~~ 83 (134)
T 4htu_A 81 KDK 83 (134)
T ss_dssp HHT
T ss_pred HcC
Confidence 764
No 17
>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=96.25 E-value=0.0035 Score=62.35 Aligned_cols=83 Identities=13% Similarity=-0.035 Sum_probs=62.1
Q ss_pred eeehhhHHHHHHHHhhcccc-----CCCcEEEEEEecCeEEEEecCCHHHHHHHHHHHHHHHHHHHhHhCCcccCCCCee
Q psy3428 4 EVQIHKVILMSLLFVGFAVT-----GVGMTCNCDQDYDLLIIGRSKDLDLLLQRFQHTLDEIHKWSDLNGTIFSTDPGKS 78 (682)
Q Consensus 4 ~~~~~~~~llfllyi~~~~~-----~~~~~~~~yAD~D~~i~~~~~~~~~~~~~lq~~l~~~~~W~~~~gl~~n~~~~Kt 78 (682)
-||.-.++.+|--+++.... ..++.+..|.| |+.|.+ ++.++ ....+..+.++.+++||.+| ++||
T Consensus 166 PfGl~~sP~~fq~~m~~il~~~~~~~~~~~v~~Y~D-Dili~s--~~~ee----h~~~l~~v~~~L~~~gl~l~--~~Kc 236 (255)
T 3fsi_A 166 PQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVD-DLLLAA--TSELD----CQQGTRALLQTLGNLGYRAS--AKKA 236 (255)
T ss_dssp CTTCTTHHHHHHHHHHHHTHHHHHHCTTCEEEEETT-EEEEEE--SSHHH----HHHHHHHHHHHHHHHTCCBC--TTTC
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHHhCcCcEEEEEcC-CeEEEe--CCHHH----HHHHHHHHHHHHHHCCeEEC--HHHh
Confidence 46667788888887775421 24567899999 988764 45544 45668888889999999999 9999
Q ss_pred EEEEecCCCCCCCCceeeCCeeeccccceeEEeEEeCCC
Q psy3428 79 VCIDFNRLRNSRSPALSYNGIQLKFVTSTKFLGLTWDAK 117 (682)
Q Consensus 79 ~~i~f~~~~~~~~~~~~i~g~~I~~~~~~k~LGv~ld~~ 117 (682)
+.. +..++|||..++.+
T Consensus 237 ~f~----------------------~~~~~fLG~~i~~~ 253 (255)
T 3fsi_A 237 QIC----------------------QKQVKYLGYLLKEG 253 (255)
T ss_dssp EEE----------------------ESEEEETTEEEETT
T ss_pred ccc----------------------CCceEEEEEEEeCC
Confidence 754 24678999988765
No 18
>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=93.60 E-value=0.026 Score=61.07 Aligned_cols=84 Identities=12% Similarity=-0.057 Sum_probs=58.8
Q ss_pred eeeehhhHHHHHHHHhhcccc-----CCCcEEEEEEecCeEEEEecCCHHHHHHHHHHHHHHHHHHHhHhCCcccCCCCe
Q psy3428 3 TEVQIHKVILMSLLFVGFAVT-----GVGMTCNCDQDYDLLIIGRSKDLDLLLQRFQHTLDEIHKWSDLNGTIFSTDPGK 77 (682)
Q Consensus 3 ~~~~~~~~~llfllyi~~~~~-----~~~~~~~~yAD~D~~i~~~~~~~~~~~~~lq~~l~~~~~W~~~~gl~~n~~~~K 77 (682)
--||.-.+|-+|--+++.... ..+..+..|+| |+.|. +++.++.. ..+..+.+-++++||.+| ++|
T Consensus 169 mpfGl~naP~~fq~~m~~~l~~~~~~~~~~~v~~YvD-Dili~--s~~~~e~~----~~l~~v~~~l~~~gl~l~--~~K 239 (455)
T 1rw3_A 169 LPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVD-DLLLA--ATSELDCQ----QGTRALLQTLGNLGYRAS--AKK 239 (455)
T ss_dssp CCSSCTTHHHHHHHHHHHHHHHHHHTCTTCEEEEETT-EEEEE--ESSHHHHH----HHHHHHHHHHHHHTCCBC--GGG
T ss_pred cCCCCCCcHHHHHHHHHHHHHHhhhhCCCceEEEEcC-CEEEe--cCCHHHHH----HHHHHHHHHHHHcCCccC--ccc
Confidence 346667778777777665311 24678889999 98776 45565544 445566666678899999 999
Q ss_pred eEEEEecCCCCCCCCceeeCCeeeccccceeEEeEEeCCC
Q psy3428 78 SVCIDFNRLRNSRSPALSYNGIQLKFVTSTKFLGLTWDAK 117 (682)
Q Consensus 78 t~~i~f~~~~~~~~~~~~i~g~~I~~~~~~k~LGv~ld~~ 117 (682)
|++. +..++|||.+++.+
T Consensus 240 ~~f~----------------------~~~~~fLG~~i~~~ 257 (455)
T 1rw3_A 240 AQIC----------------------QKQVKYLGYLLKEG 257 (455)
T ss_dssp CCCS----------------------BSSCEETTEEESSS
T ss_pred hhhh----------------------ccceeEeeeeccCC
Confidence 9642 35678999998865
No 19
>3kyl_A Telomerase reverse transcriptase; reverse transcriptase; 2.70A {Tribolium castaneum} PDB: 3du5_A 3du6_A
Probab=93.52 E-value=0.059 Score=57.14 Aligned_cols=62 Identities=11% Similarity=0.001 Sum_probs=40.0
Q ss_pred hHHHHHHHHhhccc------cCCCcEEEEEEecCeEEEEecCCHHHHHHHHHHHHHHHHHHHhHhCCcccCCCCeeEEEE
Q psy3428 9 KVILMSLLFVGFAV------TGVGMTCNCDQDYDLLIIGRSKDLDLLLQRFQHTLDEIHKWSDLNGTIFSTDPGKSVCID 82 (682)
Q Consensus 9 ~~~llfllyi~~~~------~~~~~~~~~yAD~D~~i~~~~~~~~~~~~~lq~~l~~~~~W~~~~gl~~n~~~~Kt~~i~ 82 (682)
-||||-.+|.+++. ...+...+.||| |..+++.+ .++ .+..+..+..| +.+| ++||.+ .
T Consensus 312 ISPLLANIYLheLDkel~~~l~kd~~LVRYAD-DFVIi~~S--ke~----Aerfl~~Lkg~-----leLN--pEKTrI-n 376 (596)
T 3kyl_A 312 LSGCLCELYMAFMDRLYFSNLDKDAFIHRTVD-DYFFCSPH--PHK----VYDFELLIKGV-----YQVN--PTKTRT-N 376 (596)
T ss_dssp THHHHHHHHHHHHHHHHSTTSCTTSEEEECSS-EEEEEESC--HHH----HHHHHHHHHHH-----SCEE--EEEEEE-C
T ss_pred hhHHHHHHHHHHHHHHHHHhhccCceEEEEcC-cEEEEECC--HHH----HHHHHHHhhCc-----ceEC--chhcee-e
Confidence 46677777877652 124567889999 99999865 332 23333334444 3999 999975 4
Q ss_pred ecC
Q psy3428 83 FNR 85 (682)
Q Consensus 83 f~~ 85 (682)
|..
T Consensus 377 F~~ 379 (596)
T 3kyl_A 377 LPT 379 (596)
T ss_dssp CTT
T ss_pred ccc
Confidence 433
No 20
>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=89.81 E-value=0.17 Score=54.04 Aligned_cols=68 Identities=9% Similarity=-0.041 Sum_probs=40.4
Q ss_pred eeehhhHHHHHHHHhhccc-----cCCCcEEEEEEecCeEEEEecCCHHHHHHHHHHHHHHHHHHHhHhCCcccCCCCee
Q psy3428 4 EVQIHKVILMSLLFVGFAV-----TGVGMTCNCDQDYDLLIIGRSKDLDLLLQRFQHTLDEIHKWSDLNGTIFSTDPGKS 78 (682)
Q Consensus 4 ~~~~~~~~llfllyi~~~~-----~~~~~~~~~yAD~D~~i~~~~~~~~~~~~~lq~~l~~~~~W~~~~gl~~n~~~~Kt 78 (682)
.||.-.++.+|-.+++... ...++.+..|.| |+.|.+.+ +.++. ...+..+.+-+.++||.+| ++||
T Consensus 150 PfGl~nsPa~fq~~m~~il~~~~~~~~~~~v~vY~D-DIlI~s~~-~~~eh----~~~l~~v~~~l~~~gL~l~--~~Kc 221 (428)
T 2zd1_B 150 PQGWKGSPAIFQSSMTKILEPFKKQNPDIVIYQYMD-DLYVGSDL-EIGQH----RTKIEELRQHLLRWGLTTP--DKKH 221 (428)
T ss_dssp CTTCTHHHHHHHHHHHHHHHHHHHHCTTCEEEEETT-EEEEEECS-CHHHH----HHHHHHHHHHHHHHHC---------
T ss_pred CCCCcchHHHHHHHHHHHHHHHhhcCCCceEEEEec-ceEEecCC-cHHHH----HHHHHHHHHHHHHhCCccC--hhHc
Confidence 4666778888887776541 234567889999 99987632 34443 4455566666778899999 9998
Q ss_pred E
Q psy3428 79 V 79 (682)
Q Consensus 79 ~ 79 (682)
+
T Consensus 222 ~ 222 (428)
T 2zd1_B 222 Q 222 (428)
T ss_dssp -
T ss_pred c
Confidence 6
No 21
>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=89.59 E-value=0.21 Score=55.34 Aligned_cols=83 Identities=8% Similarity=-0.015 Sum_probs=57.8
Q ss_pred eeehhhHHHHHHHHhhcc-----ccCCCcEEEEEEecCeEEEEecCCHHHHHHHHHHHHHHHHHHHhHhCCcccCCCCee
Q psy3428 4 EVQIHKVILMSLLFVGFA-----VTGVGMTCNCDQDYDLLIIGRSKDLDLLLQRFQHTLDEIHKWSDLNGTIFSTDPGKS 78 (682)
Q Consensus 4 ~~~~~~~~llfllyi~~~-----~~~~~~~~~~yAD~D~~i~~~~~~~~~~~~~lq~~l~~~~~W~~~~gl~~n~~~~Kt 78 (682)
-||.-.+|.+|--+++.. ...+++.+..|.| |+.|.+.. +.++ ....+..+.+.+.++||.+| ++||
T Consensus 152 PfGl~nap~~fq~~m~~il~~~~~~~~~~~v~~Y~D-DIli~s~~-~~~e----h~~~l~~v~~~l~~~gl~l~--~~Kc 223 (557)
T 2zd1_A 152 PQGWKGSPAIFQSSMTKILEPFAAQNPDIVIYQYMD-DLYVGSDL-EIGQ----HRTKIEELRQHLLRWGLTTP--DKKH 223 (557)
T ss_dssp CTTCTTHHHHHHHHHHHHHHHHHHTCTTEEEEEETT-EEEEEECS-CHHH----HHHHHHHHHHHHHTTTCCCC--CSCC
T ss_pred CCCCCCHHHHHHHHHHHHHHHhhhcCCCceEEEEec-CEEEecCc-hHHH----HHHHHHHHHHHHHHcCCccC--hhhc
Confidence 456667788887777654 2234567889999 99887532 3444 34456777778889999999 9997
Q ss_pred EEEEecCCCCCCCCceeeCCeeeccccceeEEeEEeCCC
Q psy3428 79 VCIDFNRLRNSRSPALSYNGIQLKFVTSTKFLGLTWDAK 117 (682)
Q Consensus 79 ~~i~f~~~~~~~~~~~~i~g~~I~~~~~~k~LGv~ld~~ 117 (682)
+ | ..+++|||..++.+
T Consensus 224 ~---f--------------------~~~~~fLG~~i~~~ 239 (557)
T 2zd1_A 224 Q---K--------------------EPPFLWMGYELHPD 239 (557)
T ss_dssp S---C--------------------CSSEEETTEEECSS
T ss_pred C---C--------------------CCceEEeeEEEccC
Confidence 4 2 12467888888765
No 22
>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=88.90 E-value=0.3 Score=54.14 Aligned_cols=83 Identities=8% Similarity=-0.078 Sum_probs=56.3
Q ss_pred eeehhhHHHHHHHHhhccc-----cCCCcEEEEEEecCeEEEEecCCHHHHHHHHHHHHHHHHHHHhHhCCcccCCCCee
Q psy3428 4 EVQIHKVILMSLLFVGFAV-----TGVGMTCNCDQDYDLLIIGRSKDLDLLLQRFQHTLDEIHKWSDLNGTIFSTDPGKS 78 (682)
Q Consensus 4 ~~~~~~~~llfllyi~~~~-----~~~~~~~~~yAD~D~~i~~~~~~~~~~~~~lq~~l~~~~~W~~~~gl~~n~~~~Kt 78 (682)
.||.-.++-+|--+++... ..+++.+..|.| |+.|.+. .+.++- ...+..+.+-+.++||.+| ++||
T Consensus 150 PfGl~napa~fq~~m~~il~~~~~~~~~~~v~~Y~D-DIli~s~-~~~~eh----~~~l~~v~~~l~~~gl~l~--~~K~ 221 (555)
T 1mu2_A 150 PQGWKGSPAIFQHTMRQVLEPFRKANKDVIIIQYMD-DILIASD-RTDLEH----DRVVLQLKELLNGLGFSTP--DEKF 221 (555)
T ss_dssp CTTCTTHHHHHHHHHHHHHHHHHHHCTTSEEEEETT-EEEEEEC-SCHHHH----HHHHHHHHHHHHHTTCBCC--STTE
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHhhCCCcEEEEEec-ceEEecC-CCHHHH----HHHHHHHHHHHHHcCCccC--HHHh
Confidence 4566677877877776541 124567899999 9988653 145543 3445666667788999999 9997
Q ss_pred EEEEecCCCCCCCCceeeCCeeeccccceeEEeEEeCCC
Q psy3428 79 VCIDFNRLRNSRSPALSYNGIQLKFVTSTKFLGLTWDAK 117 (682)
Q Consensus 79 ~~i~f~~~~~~~~~~~~i~g~~I~~~~~~k~LGv~ld~~ 117 (682)
. + +.+++|||..++.+
T Consensus 222 ~---~--------------------~~~~~fLG~~i~~~ 237 (555)
T 1mu2_A 222 Q---K--------------------DPPYHWMGYELWPT 237 (555)
T ss_dssp E---C--------------------SSSEEETTEEECSS
T ss_pred c---c--------------------CCceeEEeEEEeCC
Confidence 2 1 13577888887754
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=44.13 E-value=5.8 Score=42.38 Aligned_cols=41 Identities=10% Similarity=-0.105 Sum_probs=32.0
Q ss_pred CchHHHHHHHHHHHHHHHHcC-CCCcEEEEcCCHHHHHhhhcC
Q psy3428 361 NSIFSAELIAIFLCLEAILDS-PSGKFLIVTDSRSSLAALSNV 402 (682)
Q Consensus 361 ~~~~~aEl~Ai~~al~~~~~~-~~~~v~i~sDs~~~i~~l~~~ 402 (682)
-+.+..|+.||..|++..... ...++.|+||+. ++..+.+.
T Consensus 387 ys~~ekEllAi~~a~~~~~~yl~g~~~~v~tDh~-~~~~l~~~ 428 (455)
T 1rw3_A 387 WPPCLRMVAAIAVLTKDAGKLTMGQPLVIKAPHA-VEALVKQP 428 (455)
T ss_dssp SCCSSHHHHHHHHHHHHHHGGGCSSCEEEECSSC-TTTTSSST
T ss_pred cchHHHHHHHHHHHHHHHHHHcCCCcEEEEecCh-HHHHhCCC
Confidence 356789999999999988653 457899999997 66555544
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=41.14 E-value=34 Score=27.83 Aligned_cols=36 Identities=3% Similarity=0.043 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHhHhCC--cccCCCCeeEEEEecCCC
Q psy3428 50 LQRFQHTLDEIHKWSDLNGT--IFSTDPGKSVCIDFNRLR 87 (682)
Q Consensus 50 ~~~lq~~l~~~~~W~~~~gl--~~n~~~~Kt~~i~f~~~~ 87 (682)
..+|....+.+..+.....| .|| +.||+|+||+...
T Consensus 28 ~~rLr~~~~~LE~~Le~~~l~Gd~~--~~~TKVlH~~~NP 65 (100)
T 1go4_E 28 RSRLEEEKRMLEAQLERRALQGDYD--QSRTKVLHMSLNP 65 (100)
T ss_dssp HHHHHHHHHHHHHHHHHSSCCSCCC--TTTEEEEEESSCH
T ss_pred HHHHHHHHHHHHHHHHHHhhccccC--CccCeeeeecCCh
Confidence 45577778888888877666 788 9999999998743
No 25
>4fp9_B Mterf domain-containing protein 2; modification enzyme, transferase; HET: SAM; 2.90A {Homo sapiens}
Probab=34.07 E-value=13 Score=37.90 Aligned_cols=13 Identities=8% Similarity=0.204 Sum_probs=7.1
Q ss_pred CCCChHHHHHHHH
Q psy3428 146 WGVRRSMLLRFYK 158 (682)
Q Consensus 146 ~g~~~~~~~~ly~ 158 (682)
.|+++..+.++..
T Consensus 56 ~Gfs~~~i~~il~ 68 (335)
T 4fp9_B 56 MGFSNAHINELLS 68 (335)
T ss_dssp TTCCHHHHHHHHH
T ss_pred CCCCHHHHHHHHH
Confidence 3666665555443
No 26
>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=29.86 E-value=10 Score=33.53 Aligned_cols=30 Identities=37% Similarity=0.646 Sum_probs=25.3
Q ss_pred CCcceeecCCCCCCccCCccccccccCCcc
Q psy3428 498 KKDITFMWCPSHCGIKGNELVDVAAKNPTT 527 (682)
Q Consensus 498 ~~~~~~~~~p~~~~i~~~r~~~~~~~~~r~ 527 (682)
...+.|.|+|+|.|+.+|+.+|..+++..-
T Consensus 117 ~~~v~~~wV~gH~g~~~Ne~AD~LA~~a~~ 146 (150)
T 3qio_A 117 KEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 146 (150)
T ss_dssp CSEEEEEECCTTSCCHHHHHHHHHHHTTTS
T ss_pred cCceEEEEccCcCCChhHHHHHHHHHHHHH
Confidence 345778999999999999999999877654
No 27
>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=26.25 E-value=8.9 Score=33.85 Aligned_cols=28 Identities=29% Similarity=0.300 Sum_probs=24.1
Q ss_pred cceeecCCCCCCccCCccccccccCCcc
Q psy3428 500 DITFMWCPSHCGIKGNELVDVAAKNPTT 527 (682)
Q Consensus 500 ~~~~~~~p~~~~i~~~r~~~~~~~~~r~ 527 (682)
++.|.|+|+|.|+.+|+.+|..++++..
T Consensus 109 ~v~~~wV~gH~g~~~Ne~AD~LA~~a~~ 136 (147)
T 2kq2_A 109 IYSFEKVKAHSGNEFNDYVDMKAKSALG 136 (147)
T ss_dssp TCCBCCCCCCCCCHHHHHHHHHHHHHHT
T ss_pred CeeEEEecCcCCCcchHHHHHHHHHHHh
Confidence 6889999999999999999998776543
No 28
>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=23.49 E-value=63 Score=33.92 Aligned_cols=69 Identities=4% Similarity=-0.137 Sum_probs=40.8
Q ss_pred CCCeEEEEeCCCCCCCCceEEEEEcce------eeeecCCCCCchHHHHHHH-HHHHHHHHHc----CCCCcEEEEcCCH
Q psy3428 325 YTSHTICYTDGSKTPTTTGCAYSVGNV------VRSTLLNPVNSIFSAELIA-IFLCLEAILD----SPSGKFLIVTDSR 393 (682)
Q Consensus 325 ~~~~~~iytDgS~~~~~~G~g~~~~~~------~~~~~~~~~~~~~~aEl~A-i~~al~~~~~----~~~~~v~i~sDs~ 393 (682)
+...+.++||+|.. + ++|++..+. +..+.-......+.-|++| ++.||+.... .....++++||.+
T Consensus 321 ~~~~~~l~~das~~--g-~~g~vl~q~~~~~~~s~~~~~~~~y~~~~~e~la~vv~al~~~r~yl~G~~~~~~i~~td~~ 397 (428)
T 2zd1_B 321 PSKDLIAEIQKQGQ--G-QWTYQIYQEPFKNLKTGKYARMRGAHTNDVKQLTEAVQKITTESIVIWGKTPKFKLPIQKET 397 (428)
T ss_dssp TTSCCEEEEEEEET--T-EEEEEEESSTTCEEEEEEEECCSSCTTCHHHHHHHHHHHHHHHHHHHHSSCCEEEESSCHHH
T ss_pred CCCCEEEEEecCCC--C-cEEEEEecCCCceeeecccchhhhcccchHHHHHHHHHHhhccceEEECCCCcEECCccHHH
Confidence 35568999999942 1 334444321 1222212233445667777 9999987643 2345678889997
Q ss_pred HHH
Q psy3428 394 SSL 396 (682)
Q Consensus 394 ~~i 396 (682)
...
T Consensus 398 ~~~ 400 (428)
T 2zd1_B 398 WET 400 (428)
T ss_dssp HHH
T ss_pred HHH
Confidence 544
No 29
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=20.06 E-value=13 Score=32.55 Aligned_cols=26 Identities=23% Similarity=0.156 Sum_probs=21.2
Q ss_pred cceeecCCCCCCccCCccccccccCC
Q psy3428 500 DITFMWCPSHCGIKGNELVDVAAKNP 525 (682)
Q Consensus 500 ~~~~~~~p~~~~i~~~r~~~~~~~~~ 525 (682)
.+.|.|+|+|.|..+|+.+|..++++
T Consensus 116 ~v~~~~V~gH~g~~~N~~AD~LA~~a 141 (146)
T 3h08_A 116 RVTFHKVKGHSDNPYNSRADELARLA 141 (146)
T ss_dssp EEEEEECCC-CCSHHHHHHHHHHHHH
T ss_pred ceEEEEcCCcCCcHhHHHHHHHHHHH
Confidence 47788999999999999999887654
Done!