Query psy11828
Match_columns 443
No_of_seqs 355 out of 1641
Neff 5.7
Searched_HMMs 29240
Date Fri Aug 16 20:01:24 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11828.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/11828hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3qe9_Y Exonuclease 1; exonucle 100.0 1.2E-46 4E-51 382.9 20.3 245 14-340 48-300 (352)
2 3ory_A Flap endonuclease 1; hy 100.0 3.8E-46 1.3E-50 380.5 15.5 248 16-368 66-329 (363)
3 3q8k_A Flap endonuclease 1; he 100.0 3E-44 1E-48 363.9 17.0 253 15-368 56-316 (341)
4 2izo_A FEN1, flap structure-sp 100.0 2.9E-42 9.8E-47 349.7 11.8 248 16-367 49-314 (346)
5 1ul1_X Flap endonuclease-1; pr 100.0 5.7E-42 2E-46 351.5 10.3 252 15-367 56-315 (379)
6 1b43_A Protein (FEN-1); nuclea 100.0 7.1E-42 2.4E-46 345.8 9.9 245 16-367 52-310 (340)
7 1rxw_A Flap structure-specific 100.0 1.3E-39 4.5E-44 328.8 16.0 245 16-367 52-310 (336)
8 1a76_A Flap endonuclease-1 pro 100.0 2E-40 6.9E-45 333.4 3.0 242 16-367 52-296 (326)
9 1exn_A 5'-exonuclease, 5'-nucl 99.9 1.1E-24 3.6E-29 216.0 11.3 111 166-298 118-234 (290)
10 1bgx_T TAQ DNA polymerase; DNA 99.9 1.8E-26 6.3E-31 256.7 -7.2 233 16-367 38-278 (832)
11 3h7i_A Ribonuclease H, RNAse H 98.8 4.3E-09 1.5E-13 104.4 7.6 85 166-276 121-211 (305)
12 3qe9_Y Exonuclease 1; exonucle 98.4 3.2E-07 1.1E-11 93.0 6.4 54 109-162 210-263 (352)
13 1a76_A Flap endonuclease-1 pro 97.8 1.2E-05 4.3E-10 80.2 5.4 54 101-157 201-256 (326)
14 1rxw_A Flap structure-specific 97.8 1.2E-05 4.2E-10 80.6 4.4 56 100-157 211-266 (336)
15 2izo_A FEN1, flap structure-sp 97.8 9.7E-06 3.3E-10 81.8 3.3 59 98-158 207-266 (346)
16 3q8k_A Flap endonuclease 1; he 97.7 1.7E-05 5.9E-10 80.0 4.4 55 102-158 210-264 (341)
17 1b43_A Protein (FEN-1); nuclea 97.7 2.7E-05 9.1E-10 78.3 4.4 47 98-144 210-257 (340)
18 1ul1_X Flap endonuclease-1; pr 97.6 2.2E-05 7.6E-10 80.2 2.7 56 101-158 209-264 (379)
19 2y35_A LD22664P; hydrolase-DNA 97.6 0.00032 1.1E-08 80.5 12.1 100 177-276 166-299 (1140)
20 3ory_A Flap endonuclease 1; hy 97.4 5.5E-05 1.9E-09 77.0 3.3 55 99-155 225-280 (363)
21 3pie_A 5'->3' exoribonuclease 97.4 0.00029 1E-08 80.4 9.3 205 19-276 58-302 (1155)
22 1exn_A 5'-exonuclease, 5'-nucl 97.0 0.00045 1.5E-08 68.3 4.2 49 108-158 184-235 (290)
23 3fqd_A Protein DHP1, 5'-3' exo 96.9 0.0022 7.4E-08 71.5 9.0 44 20-64 80-127 (899)
24 1bgx_T TAQ DNA polymerase; DNA 95.5 0.0019 6.6E-08 72.2 -0.4 48 98-145 163-212 (832)
25 2a1j_A DNA repair endonuclease 92.7 0.071 2.4E-06 40.6 3.1 26 268-295 7-32 (63)
26 1z00_B DNA repair endonuclease 90.8 0.17 5.7E-06 40.9 3.4 27 268-296 21-47 (84)
27 1x2i_A HEF helicase/nuclease; 87.5 0.38 1.3E-05 36.6 3.2 26 268-295 17-42 (75)
28 1kft_A UVRC, excinuclease ABC 87.4 0.22 7.5E-06 38.9 1.7 26 268-295 27-52 (78)
29 1z00_A DNA excision repair pro 87.0 0.4 1.4E-05 38.3 3.1 26 268-295 22-47 (89)
30 2a1j_B DNA excision repair pro 85.3 0.47 1.6E-05 38.1 2.7 25 268-294 35-59 (91)
31 2nrt_A Uvrabc system protein C 79.8 1 3.4E-05 42.6 3.1 26 268-295 171-196 (220)
32 2duy_A Competence protein come 71.2 2.9 0.0001 32.1 3.2 26 268-293 30-55 (75)
33 1ixr_A Holliday junction DNA h 70.6 1.4 4.8E-05 40.6 1.4 19 269-287 76-94 (191)
34 2bgw_A XPF endonuclease; hydro 69.8 2.2 7.6E-05 39.4 2.6 25 268-294 165-189 (219)
35 3c65_A Uvrabc system protein C 69.6 0.95 3.3E-05 43.0 0.0 26 268-295 176-201 (226)
36 2ztd_A Holliday junction ATP-d 62.6 4.2 0.00015 38.1 3.0 17 270-286 93-109 (212)
37 1cuk_A RUVA protein; DNA repai 61.8 2.6 8.9E-05 39.2 1.3 18 269-286 77-94 (203)
38 1s5l_U Photosystem II 12 kDa e 57.9 6.4 0.00022 34.4 3.0 26 268-294 66-92 (134)
39 4gfj_A Topoisomerase V; helix- 53.8 7.4 0.00025 40.4 3.1 26 268-295 471-496 (685)
40 2bcq_A DNA polymerase lambda; 53.0 8.5 0.00029 38.3 3.4 29 268-297 99-127 (335)
41 2fmp_A DNA polymerase beta; nu 51.4 8.4 0.00029 38.3 3.1 28 268-296 101-128 (335)
42 1jms_A Terminal deoxynucleotid 50.8 9.1 0.00031 38.8 3.3 26 269-295 125-150 (381)
43 3b0x_A DNA polymerase beta fam 50.6 10 0.00035 40.2 3.8 30 269-298 97-126 (575)
44 2ihm_A POL MU, DNA polymerase 47.3 11 0.00037 37.9 3.2 26 268-294 105-130 (360)
45 2w9m_A Polymerase X; SAXS, DNA 46.8 12 0.00041 39.8 3.6 30 268-298 100-129 (578)
46 3arc_U Photosystem II 12 kDa e 45.2 14 0.00046 30.4 2.9 26 268-294 29-55 (97)
47 2ztd_A Holliday junction ATP-d 37.3 13 0.00044 34.7 1.8 37 250-287 108-145 (212)
48 1vq8_Y 50S ribosomal protein L 32.8 9.2 0.00032 36.4 0.0 25 268-294 18-43 (241)
49 1ixr_A Holliday junction DNA h 32.4 22 0.00076 32.5 2.5 37 250-286 92-128 (191)
50 3vdp_A Recombination protein R 32.4 18 0.00062 33.9 1.9 17 268-284 29-45 (212)
51 2ziu_A MUS81 protein; helix-ha 28.2 34 0.0012 33.0 3.2 29 268-298 240-268 (311)
52 2owo_A DNA ligase; protein-DNA 27.7 31 0.0011 37.6 3.0 24 269-294 516-539 (671)
53 1vdd_A Recombination protein R 27.6 25 0.00084 33.3 1.9 17 268-284 15-31 (228)
54 1cuk_A RUVA protein; DNA repai 23.6 27 0.00094 32.2 1.5 37 250-286 93-129 (203)
55 3sgi_A DNA ligase; HET: DNA AM 23.4 17 0.00058 39.2 0.0 26 268-295 532-557 (615)
56 2edu_A Kinesin-like protein KI 23.4 38 0.0013 27.1 2.1 18 268-285 43-60 (98)
57 1dgs_A DNA ligase; AMP complex 23.2 34 0.0012 37.2 2.3 23 269-293 511-533 (667)
58 2i5h_A Hypothetical protein AF 22.3 38 0.0013 31.5 2.1 48 251-298 113-168 (205)
59 3c1y_A DNA integrity scanning 20.4 45 0.0015 33.8 2.3 26 269-296 319-344 (377)
No 1
>3qe9_Y Exonuclease 1; exonuclease, hydrolase-DNA complex; HET: DNA; 2.51A {Homo sapiens} PDB: 3qeb_Z* 3qea_Z*
Probab=100.00 E-value=1.2e-46 Score=382.89 Aligned_cols=245 Identities=34% Similarity=0.543 Sum_probs=205.5
Q ss_pred chhhhhhHHHHHHHHHHHHHhCCCEEEEEEcCCCCCcchhhHHHHHHHHHHHHHHHHHHHhhcCCcccccccccccceee
Q psy11828 14 KKLLQHLYVNYCMKYINMLLAHKIKVIMVFDGRHLPAKEATEEDRRKRAEIRHKQKAAELLHSGSSIIYKLDLSGNCCFM 93 (443)
Q Consensus 14 ~~~~~~~~l~~~~~~i~~L~~~gI~PvfVFDG~~pp~K~~t~~~R~~~R~~~~~~~a~~~~~~g~~~~fKld~~~~~~~~ 93 (443)
.|..|..++.++++++++|+++||+|||||||.+||.|..|+.+|+++|++ +.+++++++++|+.+. +..++.
T Consensus 48 ~G~~t~~l~~~~~r~l~~L~~~gI~PvfVFDG~~~p~Kk~~~~~Rr~~r~~-~~~~~~~~~~~g~~~~------a~~~f~ 120 (352)
T 3qe9_Y 48 KGEPTDRYVGFCMKFVNMLLSHGIKPILVFDGCTLPSKKEVERSRRERRQA-NLLKGKQLLREGKVSE------ARECFT 120 (352)
T ss_dssp TTCCCCHHHHHHHHHHHHHHHTTCEEEEEECCSCCTTTHHHHHHHHHHHHH-HHHHHHHHTTSSCCHH------HHHHHG
T ss_pred CCCCcHHHHHHHHHHHHHHHHcCCEEEEEECCCCcHHHHHHHHHHHHHHHH-HHHHHHHHHHhCCHHH------HHHHHh
Confidence 344455677788888889999999999999999999999999999999999 8899999999998765 777788
Q ss_pred eccCCChhhcccccccchHHHHHHHHhcCCCCCCCccccchhhHHHHHhhccCccHHHHHHHhhhhccccceEEeccchh
Q psy11828 94 DREKLPSALKMPLAKFTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENALRKINVYGKIGSYVKITKEFL 173 (443)
Q Consensus 94 ~~~~v~~~~~~~~~~~t~~~f~~~ciL~GCdYl~~i~g~G~k~A~~~V~~i~~~d~~~ll~~L~~~~k~~~~v~~~~~f~ 173 (443)
++.++++.+...++ .++...| |||
T Consensus 121 ~~~~vt~~~~~~i~--------~~L~~~g-------------------------------------------Ip~----- 144 (352)
T 3qe9_Y 121 RSINITHAMAHKVI--------KAARSQG-------------------------------------------VDC----- 144 (352)
T ss_dssp GGCCCCHHHHHHHH--------HHHHHTT-------------------------------------------CEE-----
T ss_pred hcCCCCHHHHHHHH--------HHHHHcC-------------------------------------------CcE-----
Confidence 88888887654333 3355555 999
Q ss_pred cCCccCCCccccchhhhHHHhHhhhhCCCeEEEecCCCceeeeccCEEEEecCCCCCeEEeccccccccccCCCCC--CC
Q psy11828 174 TSGAPQPFGARNEGRSLLSAVTERNIAGYADYVITEDSDLLVFGAKKIIYKLDLSGNCCFMDREKLPSALKMPLAK--FT 251 (443)
Q Consensus 174 ~~~i~AP~EAdaEgEAQ~A~L~~~~~~g~vd~ViTeDsD~L~fG~~~vi~~l~~~g~~~~i~~~~l~~~~~l~~~~--lt 251 (443)
++||||||| |||+|++. |.+|+|+|+|+|+|+||+++|+++++..++..+++.+.+.. ++.+| ++
T Consensus 145 ---i~ap~EADa----qiA~La~~---g~~~~I~S~D~Dll~~~~~~v~~~~~~~~~~~~~~~~~~~~---~~~~g~~l~ 211 (352)
T 3qe9_Y 145 ---LVAPYEADA----QLAYLNKA---GIVQAIITEDSALLAFGCKKVILKMDQFGNGLEIDQARLGM---CRQLGDVFT 211 (352)
T ss_dssp ---EECSSCHHH----HHHHHHHT---TSCSEEECSCGGGGGGTCSEEEESCCTTSEEEEEEGGGGTT---CCTTCSSCC
T ss_pred ---EECCcchHH----HHHHHHHC---CCeEEEEeCCcCcccccCCeEEEeccCCCCcEEEeHHHHHH---HHHhCCCCC
Confidence 999999999 99999887 99999999999999999999999998877766788776521 12356 99
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCcHHHHHHHHHHcCCCChhhHHHhhhhccccccccccCCCCChhHH------HhhhcCC
Q psy11828 252 DAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENRKEYVKYAKVFPLTAILDMKVPAKWY------RRIIGSI 325 (443)
Q Consensus 252 ~eqfidl~iL~G~DY~~gipGiG~ktA~~li~~~~~~sle~~~~~~~~~~~~~~~~~~~~~~P~~~~------r~l~~~p 325 (443)
++||+|+|+|+||||+|||||||+|||++||++|++.+|++++++++... ..++.+|++|. +.+|+|+
T Consensus 212 ~~q~id~~~L~G~D~~pgv~GiG~ktA~kli~~~~~~~l~~il~~~~~~l------~~~~~vp~~~~~~~~~A~~~F~~q 285 (352)
T 3qe9_Y 212 EEKFRYMCILSGCDYLSSLRGIGLAKACKVLRLANNPDIVKVIKKIGHYL------KMNITVPEDYINGFIRANNTFLYQ 285 (352)
T ss_dssp HHHHHHHHHHHCCSSSCCCTTCCHHHHHHHHHHCCCSCHHHHHTTHHHHH------TCCCCCCHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHhcCCCCCCCCCCeeHHHHHHHHHHhCCCCHHHHHHHHHhhh------ccCCCCCHHHHHHHHHHHHHhCCC
Confidence 99999999999999999999999999999999997558999999987321 12568999997 8889999
Q ss_pred cccccccccccCCCC
Q psy11828 326 EVICGFSMATIPFNM 340 (443)
Q Consensus 326 ~v~~~~~~~~vp~~~ 340 (443)
.|-+......++.++
T Consensus 286 ~V~dp~~~~~~~l~~ 300 (352)
T 3qe9_Y 286 LVFDPIKRKLIPLNA 300 (352)
T ss_dssp EEEETTTTEEEESSC
T ss_pred EEECCCCCeEeeCCC
Confidence 997766666665554
No 2
>3ory_A Flap endonuclease 1; hydrolase; 2.00A {Desulfurococcus amylolyticus}
Probab=100.00 E-value=3.8e-46 Score=380.46 Aligned_cols=248 Identities=20% Similarity=0.205 Sum_probs=212.2
Q ss_pred hhhhhHHHHHHHHHHHHHhCCCEEEEEEcCCCCCcchhhHHHHHHHHHHHHHHHHHHHhhcCCcccccccccccceeeec
Q psy11828 16 LLQHLYVNYCMKYINMLLAHKIKVIMVFDGRHLPAKEATEEDRRKRAEIRHKQKAAELLHSGSSIIYKLDLSGNCCFMDR 95 (443)
Q Consensus 16 ~~~~~~l~~~~~~i~~L~~~gI~PvfVFDG~~pp~K~~t~~~R~~~R~~~~~~~a~~~~~~g~~~~fKld~~~~~~~~~~ 95 (443)
|..+.++.+++.++..|+++||+|+|||||.+|+.|.++..+|+++|++ +.+.+...+++|+.+. +..+++++
T Consensus 66 G~~T~al~gf~~r~~~ll~~~i~Pv~VFDg~~p~~K~~~~~~yK~~R~~-~~e~l~~~~~~g~~~~------a~~~~~~~ 138 (363)
T 3ory_A 66 GRITSHLSGLFYRTINIVEAGIKPVYVFDGKPPELKAREIERRKAVKEE-AAKKYEEAVQSGDLEL------ARRYAMMS 138 (363)
T ss_dssp SCBCHHHHHHHHHHHHHHHTTCEEEEEECSSCGGGCHHHHHHHHHHHHH-HHHHHHHHHHHTCHHH------HHHHTCCC
T ss_pred CCCccHHHHHHHHHHHHHHcCCCcEEEEcCCCccchHHHHHHHHHhhhh-chHHHHHHHHcCCHHH------HHHHHhcc
Confidence 4456899999999999999999999999999999999999999999999 7777777788888766 77888888
Q ss_pred cCCChhhcccccccchHHHHHHHHhcCCCCCCCccccchhhHHHHHhhccCccHHHHHHHhhhhccccceEEeccchhcC
Q psy11828 96 EKLPSALKMPLAKFTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENALRKINVYGKIGSYVKITKEFLTS 175 (443)
Q Consensus 96 ~~v~~~~~~~~~~~t~~~f~~~ciL~GCdYl~~i~g~G~k~A~~~V~~i~~~d~~~ll~~L~~~~k~~~~v~~~~~f~~~ 175 (443)
.++|+++...+ +.++.+.| |||
T Consensus 139 ~~vt~~~~~~i--------~~lL~~~G-------------------------------------------Ip~------- 160 (363)
T 3ory_A 139 AKLTEEMVRDA--------KSLLDAMG-------------------------------------------IPW------- 160 (363)
T ss_dssp CCCCHHHHHHH--------HHHHHHHT-------------------------------------------CCE-------
T ss_pred ccCCHHHHHHH--------HHHHHHCC-------------------------------------------CCE-------
Confidence 99988765433 33355555 999
Q ss_pred CccCCCccccchhhhHHHhHhhhhCCCeEEEecCCCceeeeccCEEEEecCCCCC-------------eEEecccccccc
Q psy11828 176 GAPQPFGARNEGRSLLSAVTERNIAGYADYVITEDSDLLVFGAKKIIYKLDLSGN-------------CCFMDREKLPSA 242 (443)
Q Consensus 176 ~i~AP~EAdaEgEAQ~A~L~~~~~~g~vd~ViTeDsD~L~fG~~~vi~~l~~~g~-------------~~~i~~~~l~~~ 242 (443)
++||+|||| |||+|++. |.+|+|+|+|+|+|+||+++|+++++.++. ...|+.+.+.+.
T Consensus 161 -i~apgEADa----qiA~La~~---g~~~~I~S~D~D~l~fg~~~v~~~l~~~~~~~~p~~~~~v~~~~~~~~~~~v~~~ 232 (363)
T 3ory_A 161 -VQAPAEGEA----QAAYIVKK---GDAYASASQDYDSLLFGSPKLVRNLTISGRRKLPRKNEYVEVKPELIELDKLLVQ 232 (363)
T ss_dssp -EECSSCHHH----HHHHHHHT---TSCSEEECSSSHHHHTTCSEEEESTTTCEEEECSSTTCEEEECCEEEEHHHHHHH
T ss_pred -EEeCccHHH----HHHHHHHC---CCeEEEECCCcCccccCCCeEEEEeeccccccCCccccccccceEEEcHHHHHHH
Confidence 999999999 99999877 999999999999999999999999986542 246788888766
Q ss_pred ccCCCCCCCHHHHHHHHHHhCCCCCC-CCCCCcHHHHHHHHHHcCCCChhhHHHhhhhccccccccccCCCCChhHH--H
Q psy11828 243 LKMPLAKFTDAKFRYMCILSGCDYWT-GIKGMGLKKAKDYVFSIMDPDFENRKEYVKYAKVFPLTAILDMKVPAKWY--R 319 (443)
Q Consensus 243 ~~l~~~~lt~eqfidl~iL~G~DY~~-gipGiG~ktA~~li~~~~~~sle~~~~~~~~~~~~~~~~~~~~~~P~~~~--r 319 (443)
+|++++||+|+|+|+||||+| ||||||||||++||++|| |+|+++++++. ..+|.+|. |
T Consensus 233 -----~gl~~~q~id~~~L~GsDy~p~GVpGIG~KtA~kLl~~~g--sle~il~~~~~-----------~~~~~~~~~~~ 294 (363)
T 3ory_A 233 -----LGITLENLIDIGILLGTDYNPDGFEGIGPKKALQLVKAYG--GIEKIPKPILK-----------SPIEVDVIAIK 294 (363)
T ss_dssp -----HTCCHHHHHHHHHHHCBTTBTTCSTTCCHHHHHHHHHHHT--SSTTSCGGGCC-----------CSSCCCHHHHH
T ss_pred -----hCcCHHHHHHHHHHhCCCCCCCCCCCcCHHHHHHHHHHcC--CHHHHHHhccc-----------ccCCCCHHHHH
Confidence 589999999999999999999 999999999999999999 89999999972 23443444 9
Q ss_pred hhhcCCcccccccccccCCCCCCCchhhcccCCcHHHHHHHhhhhhhHH
Q psy11828 320 RIIGSIEVICGFSMATIPFNMKVPAKWYRRIIGSIEVICGFSMATIPFI 368 (443)
Q Consensus 320 ~l~~~p~v~~~~~~~~vp~~~~~~~~w~~~~v~~l~~l~~fl~~~i~~~ 368 (443)
++|++|+|++ ...++| +.|+++.|+.||..+.+|-
T Consensus 295 ~~f~~p~v~~-----------~~~~~w---~~pd~~~l~~fl~~~~~f~ 329 (363)
T 3ory_A 295 KYFLQPQVTD-----------NYRIEW---HTPDPDAVKRILVDEHDFS 329 (363)
T ss_dssp HHHHSCCCCS-----------CCCCCC---CCCCHHHHHHHHTTTTCCC
T ss_pred HHhcCCCCCC-----------CCCCCC---CCCCHHHHHHHHHhccCCC
Confidence 9999999983 124676 9999999999999988764
No 3
>3q8k_A Flap endonuclease 1; helix-3 turn-helix, hydrophobic wedge, 3' flap binding site, hydrolase-DNA complex, DNA repair, replication; HET: DNA; 2.20A {Homo sapiens} PDB: 3q8l_A* 3q8m_A*
Probab=100.00 E-value=3e-44 Score=363.85 Aligned_cols=253 Identities=20% Similarity=0.236 Sum_probs=212.3
Q ss_pred hhhhhhHHHHHHHHHHHHHhCCCEEEEEEcCCCCCcchhhHHHHHHHHHHHHHHHHHHHhhcCCcccccccccccceeee
Q psy11828 15 KLLQHLYVNYCMKYINMLLAHKIKVIMVFDGRHLPAKEATEEDRRKRAEIRHKQKAAELLHSGSSIIYKLDLSGNCCFMD 94 (443)
Q Consensus 15 ~~~~~~~l~~~~~~i~~L~~~gI~PvfVFDG~~pp~K~~t~~~R~~~R~~~~~~~a~~~~~~g~~~~fKld~~~~~~~~~ 94 (443)
.|..+.++.++++++..|+++||+|+|||||.+|+.|.++..+|+++|.+ +.+++.++.+.|..+. ...++++
T Consensus 56 ~G~~T~al~g~~~~~~~ll~~~i~P~~VFDg~~~~~r~~~~~~yk~~R~~-~~~~~~~a~r~~~pe~------l~~~~~~ 128 (341)
T 3q8k_A 56 EGETTSHLMGMFYRTIRMMENGIKPVYVFDGKPPQLKSGELAKRSERRAE-AEKQLQQAQAAGAEQE------VEKFTKR 128 (341)
T ss_dssp TSCBCHHHHHHHHHHHHHHTTTCEEEEEECCCCCGGGHHHHHHHHHHHHH-HHHHHHHHHTTCCHHH------HHHHHHH
T ss_pred CCCCchHHHHHHHHHHHHHHCCCCceEEEeCCCcccchhhhHHHHHHHhH-hHHHHHHHHhcCCHHH------HHHHHhh
Confidence 34567899999999999999999999999999999999999999999999 7777777777777654 4566677
Q ss_pred ccCCChhhcccccccchHHHHHHHHhcCCCCCCCccccchhhHHHHHhhccCccHHHHHHHhhhhccccceEEeccchhc
Q psy11828 95 REKLPSALKMPLAKFTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENALRKINVYGKIGSYVKITKEFLT 174 (443)
Q Consensus 95 ~~~v~~~~~~~~~~~t~~~f~~~ciL~GCdYl~~i~g~G~k~A~~~V~~i~~~d~~~ll~~L~~~~k~~~~v~~~~~f~~ 174 (443)
+.++|..+...+ +.++..+| |||
T Consensus 129 ~~~vt~~q~~~~--------~~lL~~~g-------------------------------------------ip~------ 151 (341)
T 3q8k_A 129 LVKVTKQHNDEC--------KHLLSLMG-------------------------------------------IPY------ 151 (341)
T ss_dssp TCCCCHHHHHHH--------HHHHHHHT-------------------------------------------CCE------
T ss_pred cccCCHHHHHHH--------HHHHHHcC-------------------------------------------CCE------
Confidence 788888765433 33355555 999
Q ss_pred CCccCCCccccchhhhHHHhHhhhhCCCeEEEecCCCceeeeccCEEEEecCCCC----CeEEeccccccccccCCCCCC
Q psy11828 175 SGAPQPFGARNEGRSLLSAVTERNIAGYADYVITEDSDLLVFGAKKIIYKLDLSG----NCCFMDREKLPSALKMPLAKF 250 (443)
Q Consensus 175 ~~i~AP~EAdaEgEAQ~A~L~~~~~~g~vd~ViTeDsD~L~fG~~~vi~~l~~~g----~~~~i~~~~l~~~~~l~~~~l 250 (443)
++||||||| |||+|++. |.+++|+|+|+|+|+||+++|+++++.++ ....++.+.+.+. +|+
T Consensus 152 --i~ap~EADd----~ia~La~~---g~v~~i~s~D~D~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~v~~~-----~gl 217 (341)
T 3q8k_A 152 --LDAPSEAEA----SCAALVKA---GKVYAAATEDMDCLTFGSPVLMRHLTASEAKKLPIQEFHLSRILQE-----LGL 217 (341)
T ss_dssp --EECSSCHHH----HHHHHHHT---TSSSEEECSCTHHHHTTCSEEEESCCCCSSCCCEEEEEEHHHHHHH-----HTC
T ss_pred --EECCccHHH----HHHHHHhc---CCeEEEEcCCccccccCCcEEEEcccccccCCCceEEEcHHHHHHH-----hCC
Confidence 999999999 99999888 99999999999999999999999987532 2367899888876 589
Q ss_pred CHHHHHHHHHHhCCCCCCCCCCCcHHHHHHHHHHcCCCChhhHHHhhhhccccccccccCCCCChhHH----HhhhcCCc
Q psy11828 251 TDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENRKEYVKYAKVFPLTAILDMKVPAKWY----RRIIGSIE 326 (443)
Q Consensus 251 t~eqfidl~iL~G~DY~~gipGiG~ktA~~li~~~~~~sle~~~~~~~~~~~~~~~~~~~~~~P~~~~----r~l~~~p~ 326 (443)
+++||+|+|+|+||||++||||||||||++||++|| ++|+++++++.. +.++|++|+ |++|.+|+
T Consensus 218 ~~~q~id~~~L~G~D~~~gipGiG~KtA~kll~~~g--sle~i~~~~~~~---------k~~~~~~~~~~~~r~l~l~~~ 286 (341)
T 3q8k_A 218 NQEQFVDLCILLGSDYCESIRGIGPKRAVDLIQKHK--SIEEIVRRLDPN---------KYPVPENWLHKEAHQLFLEPE 286 (341)
T ss_dssp CHHHHHHHHHHHCCSSSCCCTTCCHHHHHHHHHHHC--SHHHHHHHSCTT---------TSCCCTTCCHHHHHHHHHSCC
T ss_pred CHHHHHHHHHhcCCCCCCCCCCccHHHHHHHHHHcC--CHHHHHHHHHhc---------CCCCCcccchHHHHHHhCCCC
Confidence 999999999999999999999999999999999999 899999999732 457777775 99999999
Q ss_pred ccccccccccCCCCCCCchhhcccCCcHHHHHHHhhhhhhHH
Q psy11828 327 VICGFSMATIPFNMKVPAKWYRRIIGSIEVICGFSMATIPFI 368 (443)
Q Consensus 327 v~~~~~~~~vp~~~~~~~~w~~~~v~~l~~l~~fl~~~i~~~ 368 (443)
|... ....++| ..|+.+.|+.|+....+|-
T Consensus 287 V~~~---------~~~~l~~---~~pd~~~l~~fl~~~~~f~ 316 (341)
T 3q8k_A 287 VLDP---------ESVELKW---SEPNEEELIKFMCGEKQFS 316 (341)
T ss_dssp CCCT---------TTSCCCC---CCCCHHHHHHHHTTTTCCC
T ss_pred CCCC---------cccccCC---CCCCHHHHHHHHHHhcCCC
Confidence 9632 1235666 8899999999997666553
No 4
>2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair, DNA-binding, endonuclease, metal-BIND excision repair, DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus solfataricus}
Probab=100.00 E-value=2.9e-42 Score=349.68 Aligned_cols=248 Identities=20% Similarity=0.193 Sum_probs=152.5
Q ss_pred hhhhhHHHHHHHHHHHHHhCCCEEEEEEcCCCCCcchhhHHHHHHHHHHHHHHHHHHHhhcCCcccccccccccceeeec
Q psy11828 16 LLQHLYVNYCMKYINMLLAHKIKVIMVFDGRHLPAKEATEEDRRKRAEIRHKQKAAELLHSGSSIIYKLDLSGNCCFMDR 95 (443)
Q Consensus 16 ~~~~~~l~~~~~~i~~L~~~gI~PvfVFDG~~pp~K~~t~~~R~~~R~~~~~~~a~~~~~~g~~~~fKld~~~~~~~~~~ 95 (443)
|..+.++.++++++..|+++||+|+|||||.+|+.|.++..+|+++|++ ..+...++..+|+.+. +..++.++
T Consensus 49 G~~t~al~g~~~~~~~ll~~~i~Pv~vFDG~~~~~r~~~~~~yk~~R~~-~~~~l~~~~~~g~~~~------a~~~~~~~ 121 (346)
T 2izo_A 49 GRVTSHLSGLFYRTINILEEGVIPIYVFDGKPPEQKSEELERRRKAKEE-AERKLERAKSEGKIEE------LRKYSQAI 121 (346)
T ss_dssp SCBCHHHHHHHHHHHHHHHHTEEEEEEECC--------------------------------------------------
T ss_pred CCccHHHHHHHHHHHHHHHCCCcEEEEECCCCcchhhhHHHHHHHHHHH-hHHHHHHHHhcCCHHH------HHHHHhhc
Confidence 3456899999999999999999999999999999999999999999998 6666666777887665 56666777
Q ss_pred cCCChhhcccccccchHHHHHHHHhcCCCCCCCccccchhhHHHHHhhccCccHHHHHHHhhhhccccceEEeccchhcC
Q psy11828 96 EKLPSALKMPLAKFTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENALRKINVYGKIGSYVKITKEFLTS 175 (443)
Q Consensus 96 ~~v~~~~~~~~~~~t~~~f~~~ciL~GCdYl~~i~g~G~k~A~~~V~~i~~~d~~~ll~~L~~~~k~~~~v~~~~~f~~~ 175 (443)
..+++.+... ++.++...| |||
T Consensus 122 ~~vt~~~~~~--------~~~lL~~~g-------------------------------------------i~~------- 143 (346)
T 2izo_A 122 LRLSNIMVEE--------SKKLLRAMG-------------------------------------------IPI------- 143 (346)
T ss_dssp ---CHHHHHH--------HHHHHHHHT-------------------------------------------CCE-------
T ss_pred cCCCHHHHHH--------HHHHHHHCC-------------------------------------------CCE-------
Confidence 7777655432 233355555 999
Q ss_pred CccCCCccccchhhhHHHhHhhhhCCCeEEEecCCCceeeeccCEEEEecCCCCC-------------eEEecccccccc
Q psy11828 176 GAPQPFGARNEGRSLLSAVTERNIAGYADYVITEDSDLLVFGAKKIIYKLDLSGN-------------CCFMDREKLPSA 242 (443)
Q Consensus 176 ~i~AP~EAdaEgEAQ~A~L~~~~~~g~vd~ViTeDsD~L~fG~~~vi~~l~~~g~-------------~~~i~~~~l~~~ 242 (443)
++||+|||| |||+|++. |.+|+|+|+|+|+|+||+++|+++++.++. ...|+.+.+.+.
T Consensus 144 -i~ap~EADa----~ia~La~~---g~~~~I~S~D~D~l~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~v~~~ 215 (346)
T 2izo_A 144 -VQAPSEGEA----EAAYLNKL---GLSWAAASQDYDAILFGAKRLVRNLTITGKRKLPNKDVYVEIKPELIETEILLKK 215 (346)
T ss_dssp -EECSSCHHH----HHHHHHHT---TSSSEEECSSSHHHHTTCSEEEESSCC-----------CCCCCCEEEEHHHHHHH
T ss_pred -EEcCCcHHH----HHHHHHhC---CCeEEEECCCCCcceecCCeEEEEecccccccCcccccccccceEEEEHHHHHHH
Confidence 999999999 99999887 999999999999999999999999975432 345788888765
Q ss_pred ccCCCCCCCHHHHHHHHHHhCCCCCC-CCCCCcHHHHHHHHHHcCCCChhhHHHhhhhccccccccccCCCCChhHH---
Q psy11828 243 LKMPLAKFTDAKFRYMCILSGCDYWT-GIKGMGLKKAKDYVFSIMDPDFENRKEYVKYAKVFPLTAILDMKVPAKWY--- 318 (443)
Q Consensus 243 ~~l~~~~lt~eqfidl~iL~G~DY~~-gipGiG~ktA~~li~~~~~~sle~~~~~~~~~~~~~~~~~~~~~~P~~~~--- 318 (443)
+|++++||+|+|+|+||||+| ||||||||||++||++|| ++++++++++.. ++|++|+
T Consensus 216 -----~gl~~~q~id~~~L~G~D~~p~Gv~GIG~KtA~kLi~~~g--sle~i~~~~~~~-----------k~~~~~~~~~ 277 (346)
T 2izo_A 216 -----LGITREQLIDIGILIGTDYNPDGIRGIGPERALKIIKKYG--KIEKAMEYGEIS-----------KKDINFNIDE 277 (346)
T ss_dssp -----HTCCHHHHHHHHHHHCCSSSTTCSTTCCHHHHHHHHHHSS--CC----------------------------CTT
T ss_pred -----cCCCHHHHHHHHHHcCCCCCCCCCCCcCHHHHHHHHHHcC--CHHHHHHHHHhc-----------cCCCCccHHH
Confidence 589999999999999999999 999999999999999998 899999999732 3566665
Q ss_pred -HhhhcCCcccccccccccCCCCCCCchhhcccCCcHHHHHHHhhhhhhH
Q psy11828 319 -RRIIGSIEVICGFSMATIPFNMKVPAKWYRRIIGSIEVICGFSMATIPF 367 (443)
Q Consensus 319 -r~l~~~p~v~~~~~~~~vp~~~~~~~~w~~~~v~~l~~l~~fl~~~i~~ 367 (443)
+++|.+|+|... ...+.| .-|+.+.|+.|+.....|
T Consensus 278 l~~i~~~~~v~~~----------~~~l~~---~~~d~~~l~~~~~~~~~f 314 (346)
T 2izo_A 278 IRGLFLNPQVVKP----------EEALDL---NEPNGEDIINILVYEHNF 314 (346)
T ss_dssp HHHHHHSCCCCCC----------C-CCCC---CCCCHHHHHHHTTTTTCC
T ss_pred HHHHhhCCCCCCc----------cccCcc---CCCCHHHHHHHHHHhcCC
Confidence 888999998631 234555 678889998888554443
No 5
>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A {Homo sapiens} SCOP: a.60.7.1 c.120.1.2
Probab=100.00 E-value=5.7e-42 Score=351.46 Aligned_cols=252 Identities=20% Similarity=0.240 Sum_probs=185.6
Q ss_pred hhhhhhHHHHHHHHHHHHHhCCCEEEEEEcCCCCCcchhhHHHHHHHHHHHHHHHHHHHhhcCCcccccccccccceeee
Q psy11828 15 KLLQHLYVNYCMKYINMLLAHKIKVIMVFDGRHLPAKEATEEDRRKRAEIRHKQKAAELLHSGSSIIYKLDLSGNCCFMD 94 (443)
Q Consensus 15 ~~~~~~~l~~~~~~i~~L~~~gI~PvfVFDG~~pp~K~~t~~~R~~~R~~~~~~~a~~~~~~g~~~~fKld~~~~~~~~~ 94 (443)
++..+.++.++++++..|+++||+|+|||||.+|+.|.++..+|+.+|++ ..++++++...|+.+. ...++.+
T Consensus 56 ~G~~t~~l~g~~~~~~~ll~~~i~P~~VFDG~~~~~K~~~~~~yk~~R~~-~~~~~~~~~~~g~~~~------~~~~~~~ 128 (379)
T 1ul1_X 56 EGETTSHLMGMFYRTIRMMENGIKPVYVFDGKPPQLKSGELAKRSERRAE-AEKQLQQAQAAGAEQE------VEKFTKR 128 (379)
T ss_dssp ---CCHHHHHHHHHHHHHHHTTCCEEEEECCSCCSCCCCCCCCC------------------------------------
T ss_pred CCCCchHHHHHHHHHHHHHHCCCCeEEEEeCCCcccccchHHHHHhhhhH-HHHHHHHHHHcCCHHH------HHHHHhh
Confidence 34556899999999999999999999999999999999999999999998 6667777777777654 4455666
Q ss_pred ccCCChhhcccccccchHHHHHHHHhcCCCCCCCccccchhhHHHHHhhccCccHHHHHHHhhhhccccceEEeccchhc
Q psy11828 95 REKLPSALKMPLAKFTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENALRKINVYGKIGSYVKITKEFLT 174 (443)
Q Consensus 95 ~~~v~~~~~~~~~~~t~~~f~~~ciL~GCdYl~~i~g~G~k~A~~~V~~i~~~d~~~ll~~L~~~~k~~~~v~~~~~f~~ 174 (443)
+.+++..+.. .++.++.++| |||
T Consensus 129 ~~~vt~~~~~--------~~~~lL~~~G-------------------------------------------i~~------ 151 (379)
T 1ul1_X 129 LVKVTKQHND--------ECKHLLSLMG-------------------------------------------IPY------ 151 (379)
T ss_dssp CCCCCCSCHH--------HHHHHHHHHT-------------------------------------------CCE------
T ss_pred ccCCCHHHHH--------HHHHHHHHcC-------------------------------------------CCe------
Confidence 7777765532 3344455555 999
Q ss_pred CCccCCCccccchhhhHHHhHhhhhCCCeEEEecCCCceeeeccCEEEEecCCCC----CeEEeccccccccccCCCCCC
Q psy11828 175 SGAPQPFGARNEGRSLLSAVTERNIAGYADYVITEDSDLLVFGAKKIIYKLDLSG----NCCFMDREKLPSALKMPLAKF 250 (443)
Q Consensus 175 ~~i~AP~EAdaEgEAQ~A~L~~~~~~g~vd~ViTeDsD~L~fG~~~vi~~l~~~g----~~~~i~~~~l~~~~~l~~~~l 250 (443)
++||+|||| |||+|++. |.+++|+|+|+|+|+||+++|+++++.++ ...+|+.+.+.+. +|+
T Consensus 152 --i~apgEADd----~iA~La~~---g~~~~iiS~D~Dll~~g~~~v~~~~~~~~~~k~~~~~~~~~~v~~~-----~gl 217 (379)
T 1ul1_X 152 --LDAPSEAEA----SCAALVKA---GKVYAAATEDMDCLTFGSPVLMRHLTASEAKKLPIQEFHLSRILQE-----LGL 217 (379)
T ss_dssp --EECSSCHHH----HHHHHHHH---TSSSEEECSCTHHHHTTCSEEEECSSCCC-CCCCEEEEEHHHHHHH-----HTC
T ss_pred --ecCCCcHHH----HHHHHHhc---CCeEEEEecCcCccccccceEEEEecccccCcCCeEEEeHHHHHHH-----hCC
Confidence 999999999 99999988 99999999999999999999999987532 3568999988876 589
Q ss_pred CHHHHHHHHHHhCCCCCCCCCCCcHHHHHHHHHHcCCCChhhHHHhhhhccccccccccCCCCChhHH----HhhhcCCc
Q psy11828 251 TDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENRKEYVKYAKVFPLTAILDMKVPAKWY----RRIIGSIE 326 (443)
Q Consensus 251 t~eqfidl~iL~G~DY~~gipGiG~ktA~~li~~~~~~sle~~~~~~~~~~~~~~~~~~~~~~P~~~~----r~l~~~p~ 326 (443)
+++||+|+|+|+||||++||||||||||++||++|+ ++|+++++++.. +..+|++|+ +++|.+|+
T Consensus 218 ~~~q~id~~~L~G~D~~d~IpGIG~KtA~kLl~~~g--sle~i~~~~~~~---------k~~~~~~~~~~~ar~l~l~~~ 286 (379)
T 1ul1_X 218 NQEQFVDLCILLGSDYCESIRGIGPKRAVDLIQKHK--SIEEIVRRLDPN---------KYPVPENWLHKEAHQLFLEPE 286 (379)
T ss_dssp CHHHHHHHHHHHHCSSSCCCTTCCHHHHHHHHHHSS--SHHHHHTTCCCT---------TSCCCSSCCHHHHHHHHHSCC
T ss_pred CHHHHHHHHHHhCCCcCCCCCCcCHHHHHHHHHHcC--CHHHHHHHHHhh---------cccCCCcCCHHHHHHHhcCCe
Confidence 999999999999999999999999999999999998 899999999732 335677664 89999999
Q ss_pred ccccccccccCCCCCCCchhhcccCCcHHHHHHHhhhhhhH
Q psy11828 327 VICGFSMATIPFNMKVPAKWYRRIIGSIEVICGFSMATIPF 367 (443)
Q Consensus 327 v~~~~~~~~vp~~~~~~~~w~~~~v~~l~~l~~fl~~~i~~ 367 (443)
|.... ...+.| .-|+.+.|+.||....+|
T Consensus 287 v~~~~---------~~~l~~---~~pd~~~l~~fl~~~~~f 315 (379)
T 1ul1_X 287 VLDPE---------SVELKW---SEPNEEELIKFMCGEKQF 315 (379)
T ss_dssp CCCGG---------GCCCCC---CCCCHHHHHHHTTTTSCC
T ss_pred eCCCC---------CccCCC---CCCCHHHHHHHHHHHcCC
Confidence 86321 113455 789999999997766555
No 6
>1b43_A Protein (FEN-1); nuclease, DNA repair, DNA replication, transferase; 2.00A {Pyrococcus furiosus} SCOP: a.60.7.1 c.120.1.2 PDB: 1mc8_A
Probab=100.00 E-value=7.1e-42 Score=345.83 Aligned_cols=245 Identities=23% Similarity=0.220 Sum_probs=196.5
Q ss_pred hhhhhHHHHHHHHHHHHHhCCCEEEEEEcCCCCCcchhhHHHHHHHHHHHHHHHHHHHhhcCCcccccccccccceeeec
Q psy11828 16 LLQHLYVNYCMKYINMLLAHKIKVIMVFDGRHLPAKEATEEDRRKRAEIRHKQKAAELLHSGSSIIYKLDLSGNCCFMDR 95 (443)
Q Consensus 16 ~~~~~~l~~~~~~i~~L~~~gI~PvfVFDG~~pp~K~~t~~~R~~~R~~~~~~~a~~~~~~g~~~~fKld~~~~~~~~~~ 95 (443)
|..+.++.++++++..|+++||+|+|||||.+|+.|.++..+|+++|++ +.+++.+++++|+... ...+++++
T Consensus 52 G~~t~~l~g~~~~l~~ll~~~i~pv~VFDG~~~~~K~~~~~~R~~~r~~-~~~~~~~~yk~g~~~~------~~~~~~~~ 124 (340)
T 1b43_A 52 GRITSHLSGLFYRTINLMEAGIKPVYVFDGEPPEFKKKELEKRREAREE-AEEKWREALEKGEIEE------ARKYAQRA 124 (340)
T ss_dssp SCBCHHHHHHHHHHHHHHHTTCEEEEEECCSCCCCSSCSSTTCCCCTTH-HHHHHHHHHHHSCHHH------HHHHHHTS
T ss_pred CCchHHHHHHHHHHHHHHhCCCEEEEEecCCCchhhhhhHHHHHHHHHH-HHHHHHHHHHcCCHHH------HHHHHHhc
Confidence 3446899999999999999999999999999999999999999999999 6667777788887543 34444555
Q ss_pred cCCChhhcccccccchHHHHHHHHhcCCCCCCCccccchhhHHHHHhhccCccHHHHHHHhhhhccccceEEeccchhcC
Q psy11828 96 EKLPSALKMPLAKFTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENALRKINVYGKIGSYVKITKEFLTS 175 (443)
Q Consensus 96 ~~v~~~~~~~~~~~t~~~f~~~ciL~GCdYl~~i~g~G~k~A~~~V~~i~~~d~~~ll~~L~~~~k~~~~v~~~~~f~~~ 175 (443)
.++++.+.. .++.++...| |||
T Consensus 125 ~~vt~~~~~--------~~~~lL~~~g-------------------------------------------ip~------- 146 (340)
T 1b43_A 125 TRVNEMLIE--------DAKKLLELMG-------------------------------------------IPI------- 146 (340)
T ss_dssp GGGTHHHHH--------HHHHHHHHHT-------------------------------------------CCE-------
T ss_pred CCCCHHHHH--------HHHHHHHHcC-------------------------------------------CcE-------
Confidence 555554432 2233344444 999
Q ss_pred CccCCCccccchhhhHHHhHhhhhCCCeEEEecCCCceeeeccCEEEEecCCCCC-------------eEEecccccccc
Q psy11828 176 GAPQPFGARNEGRSLLSAVTERNIAGYADYVITEDSDLLVFGAKKIIYKLDLSGN-------------CCFMDREKLPSA 242 (443)
Q Consensus 176 ~i~AP~EAdaEgEAQ~A~L~~~~~~g~vd~ViTeDsD~L~fG~~~vi~~l~~~g~-------------~~~i~~~~l~~~ 242 (443)
++||||||| |||+|++. |.+|+|+|+|+|+|+||+++|+++++.++. ...|+.+.+.+.
T Consensus 147 -i~ap~EADa----~iA~La~~---g~~~~i~S~D~D~l~~g~~~v~~~~~~~~~~~~p~~~~~v~~~~~~~~~~~v~~~ 218 (340)
T 1b43_A 147 -VQAPSEGEA----QAAYMAAK---GSVYASASQDYDSLLFGAPRLVRNLTITGKRKLPGKNVYVEIKPELIILEEVLKE 218 (340)
T ss_dssp -EECSSCHHH----HHHHHHHH---TSSSEEECSSSHHHHTTCSEEEESTTTCEEEECTTSSCEEEECCEEEEHHHHHHH
T ss_pred -EEcChhHHH----HHHHHHHc---CCEEEEEccCCCcceecCcEEEEEeccCCCccCcccccccccceeEEEHHHHHHH
Confidence 999999999 99999988 999999999999999999999999987543 235777777765
Q ss_pred ccCCCCCCCHHHHHHHHHHhCCCCCC-CCCCCcHHHHHHHHHHcCCCChhhHHHhhhhccccccccccCCCCChhHHHhh
Q psy11828 243 LKMPLAKFTDAKFRYMCILSGCDYWT-GIKGMGLKKAKDYVFSIMDPDFENRKEYVKYAKVFPLTAILDMKVPAKWYRRI 321 (443)
Q Consensus 243 ~~l~~~~lt~eqfidl~iL~G~DY~~-gipGiG~ktA~~li~~~~~~sle~~~~~~~~~~~~~~~~~~~~~~P~~~~r~l 321 (443)
+|++++||+|+|+|+||||+| ||||||||||++||++|| ++++++++.+ .+|..--+++
T Consensus 219 -----~gl~~~q~id~~~L~G~Dy~p~gv~GiG~ktA~kli~~~g--sle~il~~~~-------------~~~~~~~~~~ 278 (340)
T 1b43_A 219 -----LKLTREKLIELAILVGTDYNPGGIKGIGLKKALEIVRHSK--DPLAKFQKQS-------------DVDLYAIKEF 278 (340)
T ss_dssp -----HTCCHHHHHHHHHHHCCTTSTTCSTTCCHHHHHHHHHTCS--SGGGGTGGGC-------------SSCHHHHHHH
T ss_pred -----hCCCHHHHHHHHHhcCCCCCCCCCCCccHHHHHHHHHHcC--CHHHHHcCCC-------------CccHHHHHHH
Confidence 589999999999999999999 999999999999999998 8999998854 1231112889
Q ss_pred hcCCcccccccccccCCCCCCCchhhcccCCcHHHHHHHhhhhhhH
Q psy11828 322 IGSIEVICGFSMATIPFNMKVPAKWYRRIIGSIEVICGFSMATIPF 367 (443)
Q Consensus 322 ~~~p~v~~~~~~~~vp~~~~~~~~w~~~~v~~l~~l~~fl~~~i~~ 367 (443)
|+||.|.+ ...++| .-|+.+.|+.|+.....|
T Consensus 279 ~~~~~v~d-----------~~~~~~---~~pd~~~l~~~~~~~~~f 310 (340)
T 1b43_A 279 FLNPPVTD-----------NYNLVW---RDPDEEGILKFLCDEHDF 310 (340)
T ss_dssp HHSCCCCC-----------CCCCCC---CCCCHHHHHHHHTTTTCC
T ss_pred HhCCCCCC-----------cccCCC---CCCCHHHHHHHHHHhcCC
Confidence 99997763 234555 678999999988655443
No 7
>1rxw_A Flap structure-specific endonuclease; helical clamp, helix-3 turn-helix, hydrophobic wedge, 3' FLA site, hydrolase-DNA complex; 2.00A {Archaeoglobus fulgidus} SCOP: a.60.7.1 c.120.1.2 PDB: 1rxv_A
Probab=100.00 E-value=1.3e-39 Score=328.76 Aligned_cols=245 Identities=19% Similarity=0.224 Sum_probs=195.7
Q ss_pred hhhhhHHHHHHHHHHHHHhCCCEEEEEEcCCCCCcchhhHHHHHHHHHHHHHHHHHHHhhcCCcccccccccccceeeec
Q psy11828 16 LLQHLYVNYCMKYINMLLAHKIKVIMVFDGRHLPAKEATEEDRRKRAEIRHKQKAAELLHSGSSIIYKLDLSGNCCFMDR 95 (443)
Q Consensus 16 ~~~~~~l~~~~~~i~~L~~~gI~PvfVFDG~~pp~K~~t~~~R~~~R~~~~~~~a~~~~~~g~~~~fKld~~~~~~~~~~ 95 (443)
|..+.++.++++++..|++++|+|+|||||.+|+.|.++..+|+.+|.+ ..+++.++.+.|+ +. ...+.+++
T Consensus 52 G~~t~a~~g~~~~l~~ll~~~i~Pv~vFDg~~~~~R~~~~~~yk~~R~~-~~~~~~~~~~~g~-~~------l~~~~~~~ 123 (336)
T 1rxw_A 52 GRITSHLSGILYRVSNMVEVGIRPVFVFDGEPPEFKKAEIEERKKRRAE-AEEMWIAALQAGD-KD------AKKYAQAA 123 (336)
T ss_dssp SCBCHHHHHHHHHHHHHHHHTCEEEEEECCSCCGGGHHHHHHHHHHHHH-HHHHHHHHHHHTC-TT------HHHHHHHH
T ss_pred CCccHHHHHHHHHHHHHHHCCCEEEEEEcCCCCcccccchHHHHHHHHH-HHHHHHHHHHhch-HH------HHHHHHhh
Confidence 3446899999999999999999999999999999999999999999999 7667777777776 33 34445566
Q ss_pred cCCChhhcccccccchHHHHHHHHhcCCCCCCCccccchhhHHHHHhhccCccHHHHHHHhhhhccccceEEeccchhcC
Q psy11828 96 EKLPSALKMPLAKFTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENALRKINVYGKIGSYVKITKEFLTS 175 (443)
Q Consensus 96 ~~v~~~~~~~~~~~t~~~f~~~ciL~GCdYl~~i~g~G~k~A~~~V~~i~~~d~~~ll~~L~~~~k~~~~v~~~~~f~~~ 175 (443)
.++++.+... ++.++...| |||
T Consensus 124 ~~vt~~~~~~--------~~~lL~~~g-------------------------------------------i~~------- 145 (336)
T 1rxw_A 124 GRVDEYIVDS--------AKTLLSYMG-------------------------------------------IPF------- 145 (336)
T ss_dssp CCCCHHHHHH--------HHHHHHHTT-------------------------------------------CCE-------
T ss_pred ccCCHHHHHH--------HHHHHHhCC-------------------------------------------CCE-------
Confidence 7777655332 333355555 999
Q ss_pred CccCCCccccchhhhHHHhHhhhhCCCeEEEecCCCceeeeccCEEEEecCCCC-------------CeEEecccccccc
Q psy11828 176 GAPQPFGARNEGRSLLSAVTERNIAGYADYVITEDSDLLVFGAKKIIYKLDLSG-------------NCCFMDREKLPSA 242 (443)
Q Consensus 176 ~i~AP~EAdaEgEAQ~A~L~~~~~~g~vd~ViTeDsD~L~fG~~~vi~~l~~~g-------------~~~~i~~~~l~~~ 242 (443)
++||+|||| |||+|++. |.+++|+|+|+|+++||+++|+++++..+ ....|+.+.+.+.
T Consensus 146 -i~apgeAEA----~lA~la~~---g~~~~I~S~D~Dllql~~~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 217 (336)
T 1rxw_A 146 -VDAPSEGEA----QAAYMAAK---GDVEYTGSQDYDSLLFGSPRLARNLAITGKRKLPGKNVYVDVKPEIIILESNLKR 217 (336)
T ss_dssp -EECSSCHHH----HHHHHHHT---TSSSEEECSSSHHHHTTCSEEEESCCC-------------CCCCEEEEHHHHHHH
T ss_pred -EEcCchHHH----HHHHHHHc---CCeeEEEcCCCCcceecCCeEEEeccccccccCCccccccccceEEeEHHHHHHH
Confidence 999998888 99999876 99999999999999999999999987643 2346788888766
Q ss_pred ccCCCCCCCHHHHHHHHHHhCCCCCCCCCCCcHHHHHHHHHHcCCCChhhHHHhhhhccccccccccCCCCC-hhHHHhh
Q psy11828 243 LKMPLAKFTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENRKEYVKYAKVFPLTAILDMKVP-AKWYRRI 321 (443)
Q Consensus 243 ~~l~~~~lt~eqfidl~iL~G~DY~~gipGiG~ktA~~li~~~~~~sle~~~~~~~~~~~~~~~~~~~~~~P-~~~~r~l 321 (443)
+|++++||+|+|+|+||||+|||||||||||++||++|| ++|+++++++. .++ .+.-+++
T Consensus 218 -----~gl~~~q~id~~~L~GsD~ipGv~GiG~KtA~kLl~~~g--sle~i~~~~~~------------~l~~~~~l~~i 278 (336)
T 1rxw_A 218 -----LGLTREQLIDIAILVGTDYNEGVKGVGVKKALNYIKTYG--DIFRALKALKV------------NIDHVEEIRNF 278 (336)
T ss_dssp -----HTCCHHHHHHHHHHHCBTTBCCCTTCCHHHHHHHHHHHS--SHHHHHHHHTC----------------CHHHHHH
T ss_pred -----cCCCHHHHHHHHhhcCCCCCCCCCCcCHHHHHHHHHHcC--CHHHHHHhCCC------------CCccHHHHHHH
Confidence 589999999999999999999999999999999999998 89999999872 112 1123899
Q ss_pred hcCCcccccccccccCCCCCCCchhhcccCCcHHHHHHHhhhhhhH
Q psy11828 322 IGSIEVICGFSMATIPFNMKVPAKWYRRIIGSIEVICGFSMATIPF 367 (443)
Q Consensus 322 ~~~p~v~~~~~~~~vp~~~~~~~~w~~~~v~~l~~l~~fl~~~i~~ 367 (443)
+.+|+|.+ ...+.| .-|+.+.|+.|+.....|
T Consensus 279 ~~~~~v~~-----------~~~~~~---~~~d~~~l~~~~~~~~~f 310 (336)
T 1rxw_A 279 FLNPPVTD-----------DYRIEF---REPDFEKAIEFLCEEHDF 310 (336)
T ss_dssp HHSCCCCC-----------CCCCCC---CCCCHHHHHHHHTTTTCC
T ss_pred HhCCCCCC-----------cccccC---CCCCHHHHHHHHHHccCC
Confidence 99999862 224555 678888888888554443
No 8
>1a76_A Flap endonuclease-1 protein; 5'-3' EXO/endo nuclease, DNA replication, RTH, RAD27, DNA repair; 2.00A {Methanocaldococcus jannaschii} SCOP: a.60.7.1 c.120.1.2 PDB: 1a77_A
Probab=100.00 E-value=2e-40 Score=333.42 Aligned_cols=242 Identities=21% Similarity=0.226 Sum_probs=190.2
Q ss_pred hhhhhHHHHHHHHHHHHHhCCCEEEEEEcCCCCCcchhhHHHHHHHHHHHHHHHHHHHhhcCCcccccccccccceeeec
Q psy11828 16 LLQHLYVNYCMKYINMLLAHKIKVIMVFDGRHLPAKEATEEDRRKRAEIRHKQKAAELLHSGSSIIYKLDLSGNCCFMDR 95 (443)
Q Consensus 16 ~~~~~~l~~~~~~i~~L~~~gI~PvfVFDG~~pp~K~~t~~~R~~~R~~~~~~~a~~~~~~g~~~~fKld~~~~~~~~~~ 95 (443)
|..+.++.++++++..|+.+||+|+|||||.+|+.|.++..+|+++|++ ..+...++.+.|+.+. +..++.++
T Consensus 52 G~~t~~l~g~~~~l~~ll~~~i~Pv~vFDG~~~~~k~~~~~~yk~~R~~-~~~~l~~~~~~g~~~~------a~~~~~~~ 124 (326)
T 1a76_A 52 GEITSAYNGVFYKTIHLLENDITPIWVFDGEPPKLKEKTRKVRREMKEK-AELKMKEAIKKEDFEE------AAKYAKRV 124 (326)
T ss_dssp SCBCHHHHHHHHHHHHHHHTTCEEEEEECCCSSCCCCSSCCSSCSSSCS-SCSCCCCCCSHHHHHT------TSTTGGGG
T ss_pred CCccHHHHHHHHHHHHHHHCCCeEEEEEeCcCcccchhhHHHHHHHHHh-hHHHHHHHHHcCCHHH------HHHHHHhc
Confidence 3346788999999988989999999999999999999999999988876 3222222333343332 44555566
Q ss_pred cCCChhhcccccccchHHHHHHHHhcCCCCCCCccccchhhHHHHHhhccCccHHHHHHHhhhhccccceEEeccchhcC
Q psy11828 96 EKLPSALKMPLAKFTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENALRKINVYGKIGSYVKITKEFLTS 175 (443)
Q Consensus 96 ~~v~~~~~~~~~~~t~~~f~~~ciL~GCdYl~~i~g~G~k~A~~~V~~i~~~d~~~ll~~L~~~~k~~~~v~~~~~f~~~ 175 (443)
..+++.+.. .++.++...| |||
T Consensus 125 ~~vt~~~~~--------~~~~lL~~~g-------------------------------------------i~~------- 146 (326)
T 1a76_A 125 SYLTPKMVE--------NCKYLLSLMG-------------------------------------------IPY------- 146 (326)
T ss_dssp CSSCHHHHH--------HHHHHHHHHT-------------------------------------------CCE-------
T ss_pred CCCCHHHHH--------HHHHHHHHcC-------------------------------------------CCe-------
Confidence 666654432 2233344444 999
Q ss_pred CccCCCccccchhhhHHHhHhhhhCCCeEEEecCCCceeeeccCEEEEecCCCC-CeEEeccccccccccCCCCCCCHHH
Q psy11828 176 GAPQPFGARNEGRSLLSAVTERNIAGYADYVITEDSDLLVFGAKKIIYKLDLSG-NCCFMDREKLPSALKMPLAKFTDAK 254 (443)
Q Consensus 176 ~i~AP~EAdaEgEAQ~A~L~~~~~~g~vd~ViTeDsD~L~fG~~~vi~~l~~~g-~~~~i~~~~l~~~~~l~~~~lt~eq 254 (443)
++||+|||| |||+|++. |.+++|+|+|+|+|+||+++|+++++.++ ....|+.+.+.+. +|++++|
T Consensus 147 -i~apgEAD~----~ia~La~~---g~~~~I~S~D~Dll~~~~~~v~~~~~~~~~~~~~~~~~~v~~~-----~gl~~~q 213 (326)
T 1a76_A 147 -VEAPSEGEA----QASYMAKK---GDVWAVVSQDYDALLYGAPRVVRNLTTTKEMPELIELNEVLED-----LRISLDD 213 (326)
T ss_dssp -EECSSCHHH----HHHHHHHT---TSSSEEECSSSGGGGGTCSEEEESSSSCSSCCEEEEHHHHHHH-----HTCCHHH
T ss_pred -EECCccHHH----HHHHHHHC---CCEEEEecCCcccceecCCEEEEeecCCCCceEEEEHHHHHHH-----cCCCHHH
Confidence 999999999 99999887 99999999999999999999999998754 4578999998876 5899999
Q ss_pred HHHHHHHhCCCCCC-CCCCCcHHHHHHHHHHcCCCChhhHH-HhhhhccccccccccCCCCChhHHHhhhcCCccccccc
Q psy11828 255 FRYMCILSGCDYWT-GIKGMGLKKAKDYVFSIMDPDFENRK-EYVKYAKVFPLTAILDMKVPAKWYRRIIGSIEVICGFS 332 (443)
Q Consensus 255 fidl~iL~G~DY~~-gipGiG~ktA~~li~~~~~~sle~~~-~~~~~~~~~~~~~~~~~~~P~~~~r~l~~~p~v~~~~~ 332 (443)
|+|+|+|+||||+| ||||||||||++||++ | ++++++ ++++. + .--+.+|++|+|.+
T Consensus 214 ~id~~~L~GsD~~p~GvpGiG~ktA~kli~~-g--sle~i~~~~~~~-----------~----~~~~~~~l~~~l~~--- 272 (326)
T 1a76_A 214 LIDIAIFMGTDYNPGGVKGIGFKRAYELVRS-G--VAKDVLKKEVEY-----------Y----DEIKRIFKEPKVTD--- 272 (326)
T ss_dssp HHHHHHHHCCTTSTTTTTTCCHHHHHHHHHH-T--CHHHHHHHHSTT-----------H----HHHHHHHHSCCCCC---
T ss_pred HHHHHHHcCCCCCCCCCCCcCHHHHHHHHHc-C--CHHHHHHHHHhH-----------H----HHHHHHHhCCCCCC---
Confidence 99999999999999 9999999999999999 7 899999 99861 1 01178999999984
Q ss_pred ccccCCCCCCCchhhcccCCcHHHHHHHhhhhhhH
Q psy11828 333 MATIPFNMKVPAKWYRRIIGSIEVICGFSMATIPF 367 (443)
Q Consensus 333 ~~~vp~~~~~~~~w~~~~v~~l~~l~~fl~~~i~~ 367 (443)
+..++| .-|+.+.|+.|+.....|
T Consensus 273 --------~~~~~~---~~~d~~~l~~~~~~~~~f 296 (326)
T 1a76_A 273 --------NYSLSL---KLPDKEGIIKFLVDENDF 296 (326)
T ss_dssp --------CCCCCC---CCCCHHHHHHHHTTTTCC
T ss_pred --------CccCCC---CCCCHHHHHHHHHHhcCC
Confidence 114555 778999999887554433
No 9
>1exn_A 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Enterobacteria phage T5} SCOP: a.60.7.1 c.120.1.2 PDB: 1ut5_A 1ut8_A 1xo1_A
Probab=99.91 E-value=1.1e-24 Score=216.05 Aligned_cols=111 Identities=12% Similarity=0.129 Sum_probs=98.3
Q ss_pred EEeccchhcCCccCC-CccccchhhhHHHhHhhh-hCCCeEEEecCCCceeeeccCEE-EEecCCCCCeEEecccccccc
Q psy11828 166 VKITKEFLTSGAPQP-FGARNEGRSLLSAVTERN-IAGYADYVITEDSDLLVFGAKKI-IYKLDLSGNCCFMDREKLPSA 242 (443)
Q Consensus 166 v~~~~~f~~~~i~AP-~EAdaEgEAQ~A~L~~~~-~~g~vd~ViTeDsD~L~fG~~~v-i~~l~~~g~~~~i~~~~l~~~ 242 (443)
||+ +.+| ||||+ +||+|++.. ..|....|+|+|+|++++++++| +++. .....++.+.+.+.
T Consensus 118 ip~--------i~~~g~EADD----viatLa~~~~~~G~~v~IvS~DkDl~Qlv~~~v~v~~~---~~~~~~~~~~v~ek 182 (290)
T 1exn_A 118 FPT--------FTIRGVEADD----MAAYIVKLIGHLYDHVWLISTDGDWDTLLTDKVSRFSF---TTRREYHLRDMYEH 182 (290)
T ss_dssp SCE--------ECCTTBCHHH----HHHHHHHHHGGGSSCEEEECSCGGGGGGCCSSEEEEET---TTTEEECGGGHHHH
T ss_pred CcE--------EEECCcCHHH----HHHHHHHHHHHCCCcEEEEeCCCChhhcCCCCEEEEEC---CCCEEEcHHHHHHH
Confidence 899 9999 59999 999999875 34778889999999999999876 4443 24567888888876
Q ss_pred ccCCCCCCCH-HHHHHHHHHhC--CCCCCCCCCCcHHHHHHHHHHcCCCChhhHHHhhh
Q psy11828 243 LKMPLAKFTD-AKFRYMCILSG--CDYWTGIKGMGLKKAKDYVFSIMDPDFENRKEYVK 298 (443)
Q Consensus 243 ~~l~~~~lt~-eqfidl~iL~G--~DY~~gipGiG~ktA~~li~~~~~~sle~~~~~~~ 298 (443)
+|+++ +||+|+|+|+| |||+|||||||||||.+||++|| |+|+++++++
T Consensus 183 -----~Gv~p~~q~iD~~~L~GD~sDniPGVpGIG~KTA~kLL~~~g--sle~i~~~~~ 234 (290)
T 1exn_A 183 -----HNVDDVEQFISLKAIMGDLGDNIRGVEGIGAKRGYNIIREFG--NVLDIIDQLP 234 (290)
T ss_dssp -----HSSSSHHHHHHHHHHHCBGGGTBCCCTTCCHHHHHHHHHHHC--SHHHHHHHCS
T ss_pred -----cCCCHHHHHHHHHHhcCCCcCCCCCCCcCCHhHHHHHHHHcC--CHHHHHHHHH
Confidence 57999 99999999999 99999999999999999999999 8999999997
No 10
>1bgx_T TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhibition, helix-coil dynamics, inhibitor design, complex (polymerase/inhibitor); 2.30A {Thermus aquaticus} SCOP: a.60.7.1 c.120.1.2 c.55.3.5 e.8.1.1 PDB: 1cmw_A 1tau_A* 1taq_A*
Probab=99.90 E-value=1.8e-26 Score=256.74 Aligned_cols=233 Identities=18% Similarity=0.187 Sum_probs=161.5
Q ss_pred hhhhhHHHHHHHHHHHHHhC-CCEEEEEEcCCCCCcchhhHHHHHHHHHHHHHHHHHHHhhcCCcccccccccccceeee
Q psy11828 16 LLQHLYVNYCMKYINMLLAH-KIKVIMVFDGRHLPAKEATEEDRRKRAEIRHKQKAAELLHSGSSIIYKLDLSGNCCFMD 94 (443)
Q Consensus 16 ~~~~~~l~~~~~~i~~L~~~-gI~PvfVFDG~~pp~K~~t~~~R~~~R~~~~~~~a~~~~~~g~~~~fKld~~~~~~~~~ 94 (443)
|..+.++.++++++..|++. +++|+|||||.++..|.++..+++..|.+ .
T Consensus 38 G~~t~av~gf~~~l~~ll~~~~~~~v~vFDg~~~tfR~~~~~~YKa~R~~----------------~------------- 88 (832)
T 1bgx_T 38 GEPVQAVYGFAKSLLKALKEDGDAVIVVFDAKAPSFRHEAYGGYKAGRAP----------------T------------- 88 (832)
T ss_dssp SCBCSSSTTHHHHHHHGGGTCCSCCCCCCCCSSSCSSSGGGGTTTSCCCC----------------C-------------
T ss_pred CcEehHHHHHHHHHHHHHHHcCCeEEEEEcCCCccccccchHHHHhcccc----------------C-------------
Confidence 34456788888888777665 69999999999887776655443332222 0
Q ss_pred ccCCChhhcccccccchHHHHHHHHhcCCCCCCCccccchhhHHHHHhhccCccHHHHHHHhhhhccccceEEeccchhc
Q psy11828 95 REKLPSALKMPLAKFTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENALRKINVYGKIGSYVKITKEFLT 174 (443)
Q Consensus 95 ~~~v~~~~~~~~~~~t~~~f~~~ciL~GCdYl~~i~g~G~k~A~~~V~~i~~~d~~~ll~~L~~~~k~~~~v~~~~~f~~ 174 (443)
...+..+ ...++.++..+| ||+
T Consensus 89 pe~l~~q---------~~~i~~~l~~~g-------------------------------------------i~~------ 110 (832)
T 1bgx_T 89 PEDFPRQ---------LALIKELVDLLG-------------------------------------------LAR------ 110 (832)
T ss_dssp CTTSTTG---------GGTHHHHHHHTT-------------------------------------------CCC------
T ss_pred hHHHHHH---------HHHHHHHHHHCC-------------------------------------------CCE------
Confidence 0011110 112333444444 999
Q ss_pred CCccCC-CccccchhhhHHHhHhhh-hCCCeEEEecCCCceeeeccCEEEEecCCCCCeEEeccccccccccCCCCCCCH
Q psy11828 175 SGAPQP-FGARNEGRSLLSAVTERN-IAGYADYVITEDSDLLVFGAKKIIYKLDLSGNCCFMDREKLPSALKMPLAKFTD 252 (443)
Q Consensus 175 ~~i~AP-~EAdaEgEAQ~A~L~~~~-~~g~vd~ViTeDsD~L~fG~~~vi~~l~~~g~~~~i~~~~l~~~~~l~~~~lt~ 252 (443)
+++| ||||+ |||+|++.. .+|..++|+|+|+|+++|++++|.+... +| ..|+.+.+.+. +|+++
T Consensus 111 --i~~pg~EADD----~iatLa~~~~~~G~~v~IvS~DkDllql~~~~v~~~~~-~g--~~~~~~~v~~~-----~gv~p 176 (832)
T 1bgx_T 111 --LEVPGYEADD----VLASLAKKAEKEGYEVRILTADKDLYQLLSDRIHVLHP-EG--YLITPAWLWEK-----YGLRP 176 (832)
T ss_dssp --CCCSSSCHHH----HHHHHHHHHHHHTCCBCCCCSSTTCCTTCCTTBCBCCS-SS--CCBCSTTHHHH-----TCCCG
T ss_pred --EEeCCccHHH----HHHHHHHHHHHcCCeEEEEeCCCChhhcCcCCEEEEeC-CC--cEEcHHHHHHH-----HCcCH
Confidence 9999 59999 999998853 2489999999999999999999887766 44 67888888775 58999
Q ss_pred HHHHHHHHHhC--CCCCCCCCCCcHHHHHHHHHHcCCCChhhHHHhhhhccccccccccCCCCChhHH---HhhhcCCcc
Q psy11828 253 AKFRYMCILSG--CDYWTGIKGMGLKKAKDYVFSIMDPDFENRKEYVKYAKVFPLTAILDMKVPAKWY---RRIIGSIEV 327 (443)
Q Consensus 253 eqfidl~iL~G--~DY~~gipGiG~ktA~~li~~~~~~sle~~~~~~~~~~~~~~~~~~~~~~P~~~~---r~l~~~p~v 327 (443)
+||+|+|+|+| |||+|||||||+|||.+||++|| ++|+++++++.- +-++++++. ..++.+.++
T Consensus 177 ~q~id~~~L~GD~sDnipGVpGIG~KtA~kLl~~~g--sle~i~~~~~~~---------~~~~~~~l~~~~~~a~ls~~L 245 (832)
T 1bgx_T 177 DQWADYRALTGDESDNLPGVKGIGEKTARKLLEEWG--SLEALLKNLDRL---------KPAIREKILAHMDDLKLSWDL 245 (832)
T ss_dssp GGTTTTTTSSCCSSSCCCCCCCSSSCTTTTTGGGTT--SSCSSSSSCCCC---------CTTTSHHHHSSCSSTTSGGGS
T ss_pred HHHHHHHHhcCCccccCCCCCCcCchHHHHHHHHCC--CHHHHHHHHHHh---------ChHHHHHHHHhHHHHHHHHHH
Confidence 99999999999 99999999999999999999998 899999998722 114555554 222223222
Q ss_pred cccccccccCCCCCCCchhhcccCCcHHHHHHHhhhhhhH
Q psy11828 328 ICGFSMATIPFNMKVPAKWYRRIIGSIEVICGFSMATIPF 367 (443)
Q Consensus 328 ~~~~~~~~vp~~~~~~~~w~~~~v~~l~~l~~fl~~~i~~ 367 (443)
..- ...+|...... .| .-|+.+.++.|+. ...+
T Consensus 246 ~~i--~~d~~~~~~~~-~~---~~~d~~~l~~~~~-~~~f 278 (832)
T 1bgx_T 246 AKV--RTDLPLEVDFA-KR---REPDRERLRAFLE-RLEF 278 (832)
T ss_dssp SCC--CSCCCCCCCCC-CC---CCCCHHHHHHHHT-TTTC
T ss_pred Hhh--ccCCCCCCChh-Hc---CCccHHHHHHHHH-HcCC
Confidence 110 00122222222 44 6688888888874 4444
No 11
>3h7i_A Ribonuclease H, RNAse H; BPT4 RNAse H, 5'-3' exonuclease, hydrolase, endonuclease; 1.50A {Enterobacteria phage T4} PDB: 2ihn_A 3h8w_A 3h8j_A 1tfr_A 3h8s_A
Probab=98.83 E-value=4.3e-09 Score=104.43 Aligned_cols=85 Identities=12% Similarity=0.094 Sum_probs=66.9
Q ss_pred EEeccchhcCCccCC-CccccchhhhHHHhHhhh-hCCCeEEEecCCCceeeecc-CEE-EEecCCCCCeEEeccccccc
Q psy11828 166 VKITKEFLTSGAPQP-FGARNEGRSLLSAVTERN-IAGYADYVITEDSDLLVFGA-KKI-IYKLDLSGNCCFMDREKLPS 241 (443)
Q Consensus 166 v~~~~~f~~~~i~AP-~EAdaEgEAQ~A~L~~~~-~~g~vd~ViTeDsD~L~fG~-~~v-i~~l~~~g~~~~i~~~~l~~ 241 (443)
||+ +..| ||||+ .+|.|++.+ ..|.-..|+|.|.|++++-. +.| +.+.. +.+.+.+
T Consensus 121 i~~--------l~~~G~EADD----iIgTLA~~a~~~g~~V~IvSgDKDl~QLv~~~~V~~~~~~--------~~~~V~e 180 (305)
T 3h7i_A 121 YIV--------MDIDKYEAND----HIAVLVKKFSLEGHKILIISSDGDFTQLHKYPNVKQWSPM--------HKKWVKI 180 (305)
T ss_dssp SEE--------ECCTTCCHHH----HHHHHHHHHHHTTCCEEEECSSCCCGGGGGSSSEEEEETT--------TTEEECS
T ss_pred CCE--------EccCCccHHH----HHHHHHHHHHHCCCcEEEEeCCCCccccccCCCeEEEecC--------CHHHHHH
Confidence 888 7777 79999 999999875 35777799999999999986 443 33321 1233443
Q ss_pred cccCCCCCCCHHHHHHHHHHhC--CCCCCCCCCCcHH
Q psy11828 242 ALKMPLAKFTDAKFRYMCILSG--CDYWTGIKGMGLK 276 (443)
Q Consensus 242 ~~~l~~~~lt~eqfidl~iL~G--~DY~~gipGiG~k 276 (443)
. .|+ ++|++|+..|+| +|..|||||||+.
T Consensus 181 k-----~Gv-P~q~iD~~aL~GDsSDNIPGVpGIG~~ 211 (305)
T 3h7i_A 181 K-----SGS-AEIDCMTKILKGDKKDNVASVKVRSDF 211 (305)
T ss_dssp S-----CSC-HHHHHHHHHHHCBGGGTBCCTTSCTTH
T ss_pred H-----hCC-HHHHhhHHheeCccccCCCCCCcCCcc
Confidence 3 577 899999999999 9999999999985
No 12
>3qe9_Y Exonuclease 1; exonuclease, hydrolase-DNA complex; HET: DNA; 2.51A {Homo sapiens} PDB: 3qeb_Z* 3qea_Z*
Probab=98.37 E-value=3.2e-07 Score=93.04 Aligned_cols=54 Identities=48% Similarity=0.912 Sum_probs=50.1
Q ss_pred cchHHHHHHHHhcCCCCCCCccccchhhHHHHHhhccCccHHHHHHHhhhhccc
Q psy11828 109 FTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENALRKINVYGKI 162 (443)
Q Consensus 109 ~t~~~f~~~ciL~GCdYl~~i~g~G~k~A~~~V~~i~~~d~~~ll~~L~~~~k~ 162 (443)
+++++|..+|+|+||||+|+|||+|.|||.+++.+....++++++..+..+.+.
T Consensus 210 l~~~q~id~~~L~G~D~~pgv~GiG~ktA~kli~~~~~~~l~~il~~~~~~l~~ 263 (352)
T 3qe9_Y 210 FTEEKFRYMCILSGCDYLSSLRGIGLAKACKVLRLANNPDIVKVIKKIGHYLKM 263 (352)
T ss_dssp CCHHHHHHHHHHHCCSSSCCCTTCCHHHHHHHHHHCCCSCHHHHHTTHHHHHTC
T ss_pred CCHHHHHHHHHhcCCCCCCCCCCeeHHHHHHHHHHhCCCCHHHHHHHHHhhhcc
Confidence 899999999999999999999999999999999998878999999988877553
No 13
>1a76_A Flap endonuclease-1 protein; 5'-3' EXO/endo nuclease, DNA replication, RTH, RAD27, DNA repair; 2.00A {Methanocaldococcus jannaschii} SCOP: a.60.7.1 c.120.1.2 PDB: 1a77_A
Probab=97.84 E-value=1.2e-05 Score=80.24 Aligned_cols=54 Identities=24% Similarity=0.394 Sum_probs=46.0
Q ss_pred hhcccccccchHHHHHHHHhcCCCCCC-CccccchhhHHHHHhhccCccHHHHH-HHhh
Q psy11828 101 ALKMPLAKFTDAKFRYMCILSGCDYWT-GIKGMGLKKAKDYVFSIMDPDFENAL-RKIN 157 (443)
Q Consensus 101 ~~~~~~~~~t~~~f~~~ciL~GCdYl~-~i~g~G~k~A~~~V~~i~~~d~~~ll-~~L~ 157 (443)
+...+-.++++++|..+|+|+||||.| ++||+|.|||.+++.+ +++++++ ..++
T Consensus 201 ~~v~~~~gl~~~q~id~~~L~GsD~~p~GvpGiG~ktA~kli~~---gsle~i~~~~~~ 256 (326)
T 1a76_A 201 NEVLEDLRISLDDLIDIAIFMGTDYNPGGVKGIGFKRAYELVRS---GVAKDVLKKEVE 256 (326)
T ss_dssp HHHHHHHTCCHHHHHHHHHHHCCTTSTTTTTTCCHHHHHHHHHH---TCHHHHHHHHST
T ss_pred HHHHHHcCCCHHHHHHHHHHcCCCCCCCCCCCcCHHHHHHHHHc---CCHHHHHHHHHh
Confidence 334445578999999999999999999 9999999999999988 6788887 6644
No 14
>1rxw_A Flap structure-specific endonuclease; helical clamp, helix-3 turn-helix, hydrophobic wedge, 3' FLA site, hydrolase-DNA complex; 2.00A {Archaeoglobus fulgidus} SCOP: a.60.7.1 c.120.1.2 PDB: 1rxv_A
Probab=97.79 E-value=1.2e-05 Score=80.62 Aligned_cols=56 Identities=30% Similarity=0.485 Sum_probs=47.9
Q ss_pred hhhcccccccchHHHHHHHHhcCCCCCCCccccchhhHHHHHhhccCccHHHHHHHhh
Q psy11828 100 SALKMPLAKFTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENALRKIN 157 (443)
Q Consensus 100 ~~~~~~~~~~t~~~f~~~ciL~GCdYl~~i~g~G~k~A~~~V~~i~~~d~~~ll~~L~ 157 (443)
.+...+--++++++|..+|+|+||||.|++||+|.|||.+++.+. +++++++..+.
T Consensus 211 ~~~v~~~~gl~~~q~id~~~L~GsD~ipGv~GiG~KtA~kLl~~~--gsle~i~~~~~ 266 (336)
T 1rxw_A 211 LESNLKRLGLTREQLIDIAILVGTDYNEGVKGVGVKKALNYIKTY--GDIFRALKALK 266 (336)
T ss_dssp HHHHHHHHTCCHHHHHHHHHHHCBTTBCCCTTCCHHHHHHHHHHH--SSHHHHHHHHT
T ss_pred HHHHHHHcCCCHHHHHHHHhhcCCCCCCCCCCcCHHHHHHHHHHc--CCHHHHHHhCC
Confidence 333444457899999999999999999999999999999999986 67888888766
No 15
>2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair, DNA-binding, endonuclease, metal-BIND excision repair, DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus solfataricus}
Probab=97.77 E-value=9.7e-06 Score=81.79 Aligned_cols=59 Identities=22% Similarity=0.356 Sum_probs=42.2
Q ss_pred CChhhcccccccchHHHHHHHHhcCCCCCC-CccccchhhHHHHHhhccCccHHHHHHHhhh
Q psy11828 98 LPSALKMPLAKFTDAKFRYMCILSGCDYWT-GIKGMGLKKAKDYVFSIMDPDFENALRKINV 158 (443)
Q Consensus 98 v~~~~~~~~~~~t~~~f~~~ciL~GCdYl~-~i~g~G~k~A~~~V~~i~~~d~~~ll~~L~~ 158 (443)
++.+...+..++++++|..+|+|+||||.| +|||+|.|||.+++.+. +++++++..+..
T Consensus 207 ~~~~~v~~~~gl~~~q~id~~~L~G~D~~p~Gv~GIG~KtA~kLi~~~--gsle~i~~~~~~ 266 (346)
T 2izo_A 207 IETEILLKKLGITREQLIDIGILIGTDYNPDGIRGIGPERALKIIKKY--GKIEKAMEYGEI 266 (346)
T ss_dssp EEHHHHHHHHTCCHHHHHHHHHHHCCSSSTTCSTTCCHHHHHHHHHHS--SCC---------
T ss_pred EEHHHHHHHcCCCHHHHHHHHHHcCCCCCCCCCCCcCHHHHHHHHHHc--CCHHHHHHHHHh
Confidence 334444455678999999999999999999 99999999999999986 567777776653
No 16
>3q8k_A Flap endonuclease 1; helix-3 turn-helix, hydrophobic wedge, 3' flap binding site, hydrolase-DNA complex, DNA repair, replication; HET: DNA; 2.20A {Homo sapiens} PDB: 3q8l_A* 3q8m_A*
Probab=97.73 E-value=1.7e-05 Score=80.03 Aligned_cols=55 Identities=27% Similarity=0.521 Sum_probs=47.7
Q ss_pred hcccccccchHHHHHHHHhcCCCCCCCccccchhhHHHHHhhccCccHHHHHHHhhh
Q psy11828 102 LKMPLAKFTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENALRKINV 158 (443)
Q Consensus 102 ~~~~~~~~t~~~f~~~ciL~GCdYl~~i~g~G~k~A~~~V~~i~~~d~~~ll~~L~~ 158 (443)
...+--++++++|..+|+|+||||+++|||+|.|||.+++.+. +++++++..++.
T Consensus 210 ~v~~~~gl~~~q~id~~~L~G~D~~~gipGiG~KtA~kll~~~--gsle~i~~~~~~ 264 (341)
T 3q8k_A 210 RILQELGLNQEQFVDLCILLGSDYCESIRGIGPKRAVDLIQKH--KSIEEIVRRLDP 264 (341)
T ss_dssp HHHHHHTCCHHHHHHHHHHHCCSSSCCCTTCCHHHHHHHHHHH--CSHHHHHHHSCT
T ss_pred HHHHHhCCCHHHHHHHHHhcCCCCCCCCCCccHHHHHHHHHHc--CCHHHHHHHHHh
Confidence 3344457899999999999999999999999999999999986 578888888764
No 17
>1b43_A Protein (FEN-1); nuclease, DNA repair, DNA replication, transferase; 2.00A {Pyrococcus furiosus} SCOP: a.60.7.1 c.120.1.2 PDB: 1mc8_A
Probab=97.65 E-value=2.7e-05 Score=78.30 Aligned_cols=47 Identities=38% Similarity=0.463 Sum_probs=40.2
Q ss_pred CChhhcccccccchHHHHHHHHhcCCCCCC-CccccchhhHHHHHhhc
Q psy11828 98 LPSALKMPLAKFTDAKFRYMCILSGCDYWT-GIKGMGLKKAKDYVFSI 144 (443)
Q Consensus 98 v~~~~~~~~~~~t~~~f~~~ciL~GCdYl~-~i~g~G~k~A~~~V~~i 144 (443)
++.+...+..++++++|..+|+|+||||.| +|||+|.|||.+++.+.
T Consensus 210 ~~~~~v~~~~gl~~~q~id~~~L~G~Dy~p~gv~GiG~ktA~kli~~~ 257 (340)
T 1b43_A 210 IILEEVLKELKLTREKLIELAILVGTDYNPGGIKGIGLKKALEIVRHS 257 (340)
T ss_dssp EEHHHHHHHHTCCHHHHHHHHHHHCCTTSTTCSTTCCHHHHHHHHHTC
T ss_pred EEHHHHHHHhCCCHHHHHHHHHhcCCCCCCCCCCCccHHHHHHHHHHc
Confidence 344444455678999999999999999999 99999999999999875
No 18
>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A {Homo sapiens} SCOP: a.60.7.1 c.120.1.2
Probab=97.58 E-value=2.2e-05 Score=80.17 Aligned_cols=56 Identities=27% Similarity=0.518 Sum_probs=47.5
Q ss_pred hhcccccccchHHHHHHHHhcCCCCCCCccccchhhHHHHHhhccCccHHHHHHHhhh
Q psy11828 101 ALKMPLAKFTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENALRKINV 158 (443)
Q Consensus 101 ~~~~~~~~~t~~~f~~~ciL~GCdYl~~i~g~G~k~A~~~V~~i~~~d~~~ll~~L~~ 158 (443)
+...+-.++++++|..+|+|+||||.++|||+|.|||.+++.+. +++++++..+..
T Consensus 209 ~~v~~~~gl~~~q~id~~~L~G~D~~d~IpGIG~KtA~kLl~~~--gsle~i~~~~~~ 264 (379)
T 1ul1_X 209 SRILQELGLNQEQFVDLCILLGSDYCESIRGIGPKRAVDLIQKH--KSIEEIVRRLDP 264 (379)
T ss_dssp HHHHHHHTCCHHHHHHHHHHHHCSSSCCCTTCCHHHHHHHHHHS--SSHHHHHTTCCC
T ss_pred HHHHHHhCCCHHHHHHHHHHhCCCcCCCCCCcCHHHHHHHHHHc--CCHHHHHHHHHh
Confidence 33444557899999999999999999999999999999999985 678888877654
No 19
>2y35_A LD22664P; hydrolase-DNA complex, RNA degradation, exonuclease 5'-3', R interference; 3.20A {Drosophila melanogaster}
Probab=97.56 E-value=0.00032 Score=80.46 Aligned_cols=100 Identities=13% Similarity=0.112 Sum_probs=61.0
Q ss_pred ccCCCccccchhhhHHHhHhhhh------CCCeEEEecCCCceeeecc----C--EEEEecCCC-----------CCeEE
Q psy11828 177 APQPFGARNEGRSLLSAVTERNI------AGYADYVITEDSDLLVFGA----K--KIIYKLDLS-----------GNCCF 233 (443)
Q Consensus 177 i~AP~EAdaEgEAQ~A~L~~~~~------~g~vd~ViTeDsD~L~fG~----~--~vi~~l~~~-----------g~~~~ 233 (443)
|.+..+-..|||--+-..-+..+ .+.-..|+|.|+|++++|- + .++|.--.. ..+..
T Consensus 166 i~S~~~vPGEGEhKIm~~IR~~~~~p~~~pn~~HciyG~DADLImL~L~the~~f~ilRe~v~f~~~~~~~~~~~~~f~~ 245 (1140)
T 2y35_A 166 ILSGQEAPGEGEHKIMDYIRYMKTQPDYDPNTRHCLYGLDAALIILGLCTHELHFVVLREEVKFGRNVKRTSVEETRFFL 245 (1140)
T ss_dssp EEECSSSCSCHHHHHHHHHHHHHHSTTCCTTCCEEEECCSHHHHHHHHHTTCSSEEEEEESSCTTCCTTCCCGGGCEEEE
T ss_pred EEeCCCCCCchHHHHHHHHHHHhhCCCCCCCCeEEEEccCHhHHHHHHccCCCcEEEeecccccccccccccccccceEE
Confidence 55666666677778877666421 2567899999999999972 2 256642111 11223
Q ss_pred ecccccccccc-----C--CCCCCC----HHHHHHHHHHhCCCCCCCCCCCcHH
Q psy11828 234 MDREKLPSALK-----M--PLAKFT----DAKFRYMCILSGCDYWTGIKGMGLK 276 (443)
Q Consensus 234 i~~~~l~~~~~-----l--~~~~lt----~eqfidl~iL~G~DY~~gipGiG~k 276 (443)
++...+.+.+. + ....++ -+.|+.+|.|+|+||+|++|++.+.
T Consensus 246 l~i~~lReyL~~ef~~~~~~~~~~d~eriidDfVfl~fl~GNDFLP~lp~l~I~ 299 (1140)
T 2y35_A 246 LHLGLLREYLELEFDALRTDEHKLDIAQLIDDWVLMGFLVGNDFIPHLPCLHIS 299 (1140)
T ss_dssp EEHHHHHHHHHHHGGGGCCSSSCCCHHHHHHHHHHHHHHHCCTTSCCCTTCCTT
T ss_pred EEehHHHHHHHHHhhhhccccccccHHHHHHHHHHHHHHhCCccCCCCCccccC
Confidence 33332221110 0 112344 4577789999999999999998643
No 20
>3ory_A Flap endonuclease 1; hydrolase; 2.00A {Desulfurococcus amylolyticus}
Probab=97.43 E-value=5.5e-05 Score=76.96 Aligned_cols=55 Identities=25% Similarity=0.244 Sum_probs=42.9
Q ss_pred ChhhcccccccchHHHHHHHHhcCCCCCC-CccccchhhHHHHHhhccCccHHHHHHH
Q psy11828 99 PSALKMPLAKFTDAKFRYMCILSGCDYWT-GIKGMGLKKAKDYVFSIMDPDFENALRK 155 (443)
Q Consensus 99 ~~~~~~~~~~~t~~~f~~~ciL~GCdYl~-~i~g~G~k~A~~~V~~i~~~d~~~ll~~ 155 (443)
+.+...+..++++++|..+|+|+||||.| +|||+|.|||.+++.+.. ++++++..
T Consensus 225 ~~~~v~~~~gl~~~q~id~~~L~GsDy~p~GVpGIG~KtA~kLl~~~g--sle~il~~ 280 (363)
T 3ory_A 225 ELDKLLVQLGITLENLIDIGILLGTDYNPDGFEGIGPKKALQLVKAYG--GIEKIPKP 280 (363)
T ss_dssp EHHHHHHHHTCCHHHHHHHHHHHCBTTBTTCSTTCCHHHHHHHHHHHT--SSTTSCGG
T ss_pred cHHHHHHHhCcCHHHHHHHHHHhCCCCCCCCCCCcCHHHHHHHHHHcC--CHHHHHHh
Confidence 33334445578999999999999999999 999999999999998853 34444433
No 21
>3pie_A 5'->3' exoribonuclease (XRN1); beta berrel, tudor domain, chromo domain, mRNA turnover, RRN processing, RNA binding, DNA binding; 2.90A {Kluyveromyces lactis} PDB: 3pif_A
Probab=97.42 E-value=0.00029 Score=80.35 Aligned_cols=205 Identities=18% Similarity=0.248 Sum_probs=106.6
Q ss_pred hhHHHHHHHHHHHHHhCCCEE----EEEEcCCCCCcchhhHHHHHHHHHHHHHHHHHHHhhcCCcccccccccccceeee
Q psy11828 19 HLYVNYCMKYINMLLAHKIKV----IMVFDGRHLPAKEATEEDRRKRAEIRHKQKAAELLHSGSSIIYKLDLSGNCCFMD 94 (443)
Q Consensus 19 ~~~l~~~~~~i~~L~~~gI~P----vfVFDG~~pp~K~~t~~~R~~~R~~~~~~~a~~~~~~g~~~~fKld~~~~~~~~~ 94 (443)
+.....++..+..|... |+| ++.+||-+|-+|-.+...||-+....+......++..|+... .
T Consensus 58 ~e~~~~if~yid~l~~~-vrPrkllyiAiDGVAPrAKmnqQR~RRfrsa~~~~~~~~~~~~~g~~~~------------~ 124 (1155)
T 3pie_A 58 EEVYSKIFSYIDHLFHT-IKPKQTFYMAIDGVAPRAKMNQQRARRFRTAMDAEKALQKAIENGDELP------------K 124 (1155)
T ss_pred HHHHHHHHHHHHHHHHh-cCcceEEEEEecCCCChhHHHHHHHHHHHhhhhhhHHHHHHHhcCCcCC------------c
Confidence 45667788888887643 665 789999999999999988887654412212223344443211 0
Q ss_pred ccCCChhhcccccccchHHHHHHHHhcCCCCCCCccccchhhHHHHHhhccCccHHHHHHHhhhhccccceEEeccchhc
Q psy11828 95 REKLPSALKMPLAKFTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIMDPDFENALRKINVYGKIGSYVKITKEFLT 174 (443)
Q Consensus 95 ~~~v~~~~~~~~~~~t~~~f~~~ciL~GCdYl~~i~g~G~k~A~~~V~~i~~~d~~~ll~~L~~~~k~~~~v~~~~~f~~ 174 (443)
...+ ..-||..|+..... +..+.++. +..+++....- +.+.+
T Consensus 125 ~~~f----------------dsn~ITPGT~FM~~-----L~~~L~~~----------i~~k~~~d~~w-~~~~v------ 166 (1155)
T 3pie_A 125 GEPF----------------DSNAITPGTEFMAK-----LTENLKYF----------IHDKITNDTRW-QNVKV------ 166 (1155)
T ss_pred cccc----------------ccccccCCcHHHHH-----HHHHHHHH----------HHHHhhCCcCc-cccEE------
Confidence 0011 11133333111100 01111110 01111110000 11444
Q ss_pred CCccCCCccccchhhhHHHhHhhhh------CCCeEEEecCCCceeeecc----C--EEEEec---CCC---------CC
Q psy11828 175 SGAPQPFGARNEGRSLLSAVTERNI------AGYADYVITEDSDLLVFGA----K--KIIYKL---DLS---------GN 230 (443)
Q Consensus 175 ~~i~AP~EAdaEgEAQ~A~L~~~~~------~g~vd~ViTeDsD~L~fG~----~--~vi~~l---~~~---------g~ 230 (443)
|.+..+-..|||-=+...-+..+ .+....|+|.|+|++++|- + .++|.- ... ..
T Consensus 167 --i~S~~~vPGEGEhKIm~~IR~~r~~p~y~pn~~H~IyG~DADLImL~L~thep~f~iLRe~v~f~~~~~~~~~~~~~~ 244 (1155)
T 3pie_A 167 --IFSGHEVPGEGQHKIMDYIRAIRAQEDYNPNTRHCIYGLDADLIILGLSTHDHHFCLLREEVTFGKRSSSVKTLETQN 244 (1155)
T ss_pred --EEeCCCCCCccHHHHHHHHHHhccCCCCCCCCeEEEeccChhHHHhhhccCCCcEEEEeeccccCcccccccccccCC
Confidence 55555555577768887766532 2467899999999999982 2 256642 111 11
Q ss_pred eEEeccccccccccC------CC--CCCCH----HHHHHHHHHhCCCCCCCCCCCcHH
Q psy11828 231 CCFMDREKLPSALKM------PL--AKFTD----AKFRYMCILSGCDYWTGIKGMGLK 276 (443)
Q Consensus 231 ~~~i~~~~l~~~~~l------~~--~~lt~----eqfidl~iL~G~DY~~gipGiG~k 276 (443)
+..++...+.+.+.+ +. ..++- +.|+.+|.|+|+||+|++|.+.+.
T Consensus 245 f~~l~i~~LREyL~~ef~~~~~~~~~~~d~ERiiDDfVflcf~vGNDFLPhlP~l~I~ 302 (1155)
T 3pie_A 245 FFLLHLSILREYLALEFEEITDSVQFEYDFERVLDDFIFVLFTIGNDFLPNLPDLHLK 302 (1155)
T ss_pred eEEEEHHHHHHHHHHHHHhhccccCCCccHhHhhcceeeehhhhCcccCCCCCccCcC
Confidence 223333322211110 00 12332 367779999999999999998543
No 22
>1exn_A 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Enterobacteria phage T5} SCOP: a.60.7.1 c.120.1.2 PDB: 1ut5_A 1ut8_A 1xo1_A
Probab=96.97 E-value=0.00045 Score=68.28 Aligned_cols=49 Identities=16% Similarity=0.379 Sum_probs=44.4
Q ss_pred ccch-HHHHHHHHhcC--CCCCCCccccchhhHHHHHhhccCccHHHHHHHhhh
Q psy11828 108 KFTD-AKFRYMCILSG--CDYWTGIKGMGLKKAKDYVFSIMDPDFENALRKINV 158 (443)
Q Consensus 108 ~~t~-~~f~~~ciL~G--CdYl~~i~g~G~k~A~~~V~~i~~~d~~~ll~~L~~ 158 (443)
++++ ++|..+|.|+| |||.|||||+|.|||.+++.+. +++++++..+..
T Consensus 184 Gv~p~~q~iD~~~L~GD~sDniPGVpGIG~KTA~kLL~~~--gsle~i~~~~~~ 235 (290)
T 1exn_A 184 NVDDVEQFISLKAIMGDLGDNIRGVEGIGAKRGYNIIREF--GNVLDIIDQLPL 235 (290)
T ss_dssp SSSSHHHHHHHHHHHCBGGGTBCCCTTCCHHHHHHHHHHH--CSHHHHHHHCSC
T ss_pred CCCHHHHHHHHHHhcCCCcCCCCCCCcCCHhHHHHHHHHc--CCHHHHHHHHHH
Confidence 4688 99999999999 9999999999999999999985 678888888764
No 23
>3fqd_A Protein DHP1, 5'-3' exoribonuclease 2; protein-protein complex, exonuclease, hydrolase, mRNA proces nuclease, nucleus, rRNA processing, transcription; 2.20A {Schizosaccharomyces pombe}
Probab=96.88 E-value=0.0022 Score=71.47 Aligned_cols=44 Identities=23% Similarity=0.320 Sum_probs=33.1
Q ss_pred hHHHHHHHHHHHHHhCCCEE----EEEEcCCCCCcchhhHHHHHHHHHH
Q psy11828 20 LYVNYCMKYINMLLAHKIKV----IMVFDGRHLPAKEATEEDRRKRAEI 64 (443)
Q Consensus 20 ~~l~~~~~~i~~L~~~gI~P----vfVFDG~~pp~K~~t~~~R~~~R~~ 64 (443)
.-...++..+..|.. -|+| ++.+||-+|-+|-.+...||-+...
T Consensus 80 e~~~~If~yid~l~~-~vrPrklly~AiDGVAPrAKmnQQRsRRfrsa~ 127 (899)
T 3fqd_A 80 EMMVAVFEYTDRILA-MVRPRQLLFIAIDGVAPRAKMNQQRSRRFRSSR 127 (899)
T ss_dssp HHHHHHHHHHHHHHH-HHCEEEEEEEECCCCCCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH-HcCcceeEEEeecCCCCchHHHHHHHHHHHhhh
Confidence 455667777776653 4555 7889999999999999888886544
No 24
>1bgx_T TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhibition, helix-coil dynamics, inhibitor design, complex (polymerase/inhibitor); 2.30A {Thermus aquaticus} SCOP: a.60.7.1 c.120.1.2 c.55.3.5 e.8.1.1 PDB: 1cmw_A 1tau_A* 1taq_A*
Probab=95.55 E-value=0.0019 Score=72.15 Aligned_cols=48 Identities=21% Similarity=0.263 Sum_probs=39.6
Q ss_pred CChhhcccccccchHHHHHHHHhcC--CCCCCCccccchhhHHHHHhhcc
Q psy11828 98 LPSALKMPLAKFTDAKFRYMCILSG--CDYWTGIKGMGLKKAKDYVFSIM 145 (443)
Q Consensus 98 v~~~~~~~~~~~t~~~f~~~ciL~G--CdYl~~i~g~G~k~A~~~V~~i~ 145 (443)
++.+...+--++++++|..+|+|+| |||.|+|||+|.|||.+++.+..
T Consensus 163 ~~~~~v~~~~gv~p~q~id~~~L~GD~sDnipGVpGIG~KtA~kLl~~~g 212 (832)
T 1bgx_T 163 ITPAWLWEKYGLRPDQWADYRALTGDESDNLPGVKGIGEKTARKLLEEWG 212 (832)
T ss_dssp BCSTTHHHHTCCCGGGTTTTTTSSCCSSSCCCCCCCSSSCTTTTTGGGTT
T ss_pred EcHHHHHHHHCcCHHHHHHHHHhcCCccccCCCCCCcCchHHHHHHHHCC
Confidence 3333334445678999999999999 99999999999999999998864
No 25
>2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 PDB: 2kn7_A*
Probab=92.73 E-value=0.071 Score=40.58 Aligned_cols=26 Identities=8% Similarity=0.247 Sum_probs=22.2
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhHHH
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENRKE 295 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~~~ 295 (443)
..|||||++++..|++.|| |++++.+
T Consensus 7 ~~IpGIG~kr~~~LL~~Fg--s~~~i~~ 32 (63)
T 2a1j_A 7 LKMPGVNAKNCRSLMHHVK--NIAELAA 32 (63)
T ss_dssp HTSTTCCHHHHHHHHHHCS--SHHHHHT
T ss_pred HcCCCCCHHHHHHHHHHcC--CHHHHHH
Confidence 4799999999999999999 6766653
No 26
>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A*
Probab=90.76 E-value=0.17 Score=40.90 Aligned_cols=27 Identities=7% Similarity=0.237 Sum_probs=22.6
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhHHHh
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENRKEY 296 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~~~~ 296 (443)
..|||||++++..|++.|+ |++++.+.
T Consensus 21 ~~IpGIG~kr~~~LL~~Fg--Sl~~i~~A 47 (84)
T 1z00_B 21 LKMPGVNAKNCRSLMHHVK--NIAELAAL 47 (84)
T ss_dssp HTCSSCCHHHHHHHHHHSS--CHHHHHHS
T ss_pred HhCCCCCHHHHHHHHHHcC--CHHHHHHC
Confidence 3699999999999999999 67766543
No 27
>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding domain, homodimer, hydrolase; 1.45A {Pyrococcus furiosus} SCOP: a.60.2.5
Probab=87.55 E-value=0.38 Score=36.63 Aligned_cols=26 Identities=12% Similarity=0.077 Sum_probs=22.3
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhHHH
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENRKE 295 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~~~ 295 (443)
.+|||||+++|.+|+..|+ +++++.+
T Consensus 17 ~~i~giG~~~a~~Ll~~fg--s~~~l~~ 42 (75)
T 1x2i_A 17 EGLPHVSATLARRLLKHFG--SVERVFT 42 (75)
T ss_dssp TTSTTCCHHHHHHHHHHHC--SHHHHHH
T ss_pred cCCCCCCHHHHHHHHHHcC--CHHHHHh
Confidence 4899999999999999998 6777654
No 28
>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} SCOP: a.60.2.3
Probab=87.40 E-value=0.22 Score=38.91 Aligned_cols=26 Identities=15% Similarity=0.277 Sum_probs=22.3
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhHHH
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENRKE 295 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~~~ 295 (443)
.+|||||+++|.+|++.|+ +++++.+
T Consensus 27 ~~I~gIG~~~A~~Ll~~fg--sl~~l~~ 52 (78)
T 1kft_A 27 ETIEGVGPKRRQMLLKYMG--GLQGLRN 52 (78)
T ss_dssp GGCTTCSSSHHHHHHHHHS--CHHHHHH
T ss_pred hcCCCCCHHHHHHHHHHcC--CHHHHHH
Confidence 4899999999999999998 6776654
No 29
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5
Probab=86.97 E-value=0.4 Score=38.32 Aligned_cols=26 Identities=12% Similarity=0.160 Sum_probs=22.1
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhHHH
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENRKE 295 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~~~ 295 (443)
.+|||||+++|.+|++.|+ +++++.+
T Consensus 22 ~~IpgIG~~~A~~Ll~~fg--sl~~l~~ 47 (89)
T 1z00_A 22 TTVKSVNKTDSQTLLTTFG--SLEQLIA 47 (89)
T ss_dssp TTSSSCCHHHHHHHHHHTC--BHHHHHH
T ss_pred HcCCCCCHHHHHHHHHHCC--CHHHHHh
Confidence 4799999999999999998 6766653
No 30
>2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5
Probab=85.30 E-value=0.47 Score=38.15 Aligned_cols=25 Identities=12% Similarity=0.166 Sum_probs=21.4
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhHH
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENRK 294 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~~ 294 (443)
.+|||||+++|.+|+..|+ +++++.
T Consensus 35 ~~IpgIG~~~A~~Ll~~fg--s~~~l~ 59 (91)
T 2a1j_B 35 TTVKSVNKTDSQTLLTTFG--SLEQLI 59 (91)
T ss_dssp TTSTTCCHHHHHHHHHHHS--SHHHHH
T ss_pred HcCCCCCHHHHHHHHHHCC--CHHHHH
Confidence 4799999999999999998 576655
No 31
>2nrt_A Uvrabc system protein C; UVRC, endonuclease, RNAse H, helix hairpin helix, NER, hydrolase; 1.50A {Thermotoga maritima} PDB: 2nrv_A 2nrw_A 2nrx_A 2nrz_A
Probab=79.80 E-value=1 Score=42.64 Aligned_cols=26 Identities=19% Similarity=0.349 Sum_probs=22.7
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhHHH
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENRKE 295 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~~~ 295 (443)
.+|||||+++|..|++.|| |++++.+
T Consensus 171 dgIpGIG~k~ak~Ll~~Fg--Sl~~i~~ 196 (220)
T 2nrt_A 171 DNVPGIGPIRKKKLIEHFG--SLENIRS 196 (220)
T ss_dssp TTSTTCCHHHHHHHHHHHC--SHHHHHT
T ss_pred cCCCCcCHHHHHHHHHHcC--CHHHHHh
Confidence 6999999999999999998 6776643
No 32
>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus} SCOP: a.60.2.7
Probab=71.17 E-value=2.9 Score=32.06 Aligned_cols=26 Identities=19% Similarity=0.153 Sum_probs=19.6
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhH
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENR 293 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~ 293 (443)
..+||||+++|.+++...+-.+++++
T Consensus 30 ~~ipGIG~~~A~~Il~~r~~~s~~eL 55 (75)
T 2duy_A 30 MALPGIGPVLARRIVEGRPYARVEDL 55 (75)
T ss_dssp TTSTTCCHHHHHHHHHTCCCSSGGGG
T ss_pred HhCCCCCHHHHHHHHHHcccCCHHHH
Confidence 46899999999999997643355443
No 33
>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} SCOP: a.60.2.1 b.40.4.2
Probab=70.64 E-value=1.4 Score=40.62 Aligned_cols=19 Identities=21% Similarity=0.307 Sum_probs=17.3
Q ss_pred CCCCCcHHHHHHHHHHcCC
Q psy11828 269 GIKGMGLKKAKDYVFSIMD 287 (443)
Q Consensus 269 gipGiG~ktA~~li~~~~~ 287 (443)
+|||||||+|..++..++.
T Consensus 76 ~v~GIGpk~A~~iL~~f~~ 94 (191)
T 1ixr_A 76 SVSGVGPKVALALLSALPP 94 (191)
T ss_dssp SSSCCCHHHHHHHHHHSCH
T ss_pred cCCCcCHHHHHHHHHhCCh
Confidence 4999999999999999973
No 34
>2bgw_A XPF endonuclease; hydrolase, structure specific endonuclease, nucleotide excision repair; 2.8A {Aeropyrum pernix} SCOP: a.60.2.5 c.52.1.20 PDB: 2bhn_A
Probab=69.76 E-value=2.2 Score=39.42 Aligned_cols=25 Identities=16% Similarity=0.199 Sum_probs=21.4
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhHH
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENRK 294 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~~ 294 (443)
.+|||||+++|..|++.|+ +++++.
T Consensus 165 ~~i~gVg~~~a~~Ll~~fg--s~~~l~ 189 (219)
T 2bgw_A 165 QSFPGIGRRTAERILERFG--SLERFF 189 (219)
T ss_dssp HTSTTCCHHHHHHHHHHHS--SHHHHT
T ss_pred hcCCCCCHHHHHHHHHHcC--CHHHHH
Confidence 3799999999999999998 566654
No 35
>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA excision; 1.90A {Bacillus stearothermophilus}
Probab=69.56 E-value=0.95 Score=42.97 Aligned_cols=26 Identities=27% Similarity=0.333 Sum_probs=0.0
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhHHH
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENRKE 295 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~~~ 295 (443)
.+|||||+++|.+|++.|| |++++.+
T Consensus 176 ~~IpGIG~k~ak~Ll~~FG--Sl~~i~~ 201 (226)
T 3c65_A 176 DDIPGVGEKRKKALLNYFG--SVKKMKE 201 (226)
T ss_dssp ----------------------------
T ss_pred cccCCCCHHHHHHHHHHhC--CHHHHHh
Confidence 6899999999999999998 5766543
No 36
>2ztd_A Holliday junction ATP-dependent DNA helicase RUVA; recombination, branch migration, DNA BIND oligomerization, acidic PIN; 2.40A {Mycobacterium tuberculosis} PDB: 2ztc_A 2zte_A 2h5x_A 1bvs_A
Probab=62.59 E-value=4.2 Score=38.07 Aligned_cols=17 Identities=18% Similarity=0.161 Sum_probs=16.3
Q ss_pred CCCCcHHHHHHHHHHcC
Q psy11828 270 IKGMGLKKAKDYVFSIM 286 (443)
Q Consensus 270 ipGiG~ktA~~li~~~~ 286 (443)
|+|||||+|..++..++
T Consensus 93 v~GIGpk~A~~Ils~~~ 109 (212)
T 2ztd_A 93 VSGVGPRLAMAALAVHD 109 (212)
T ss_dssp STTCCHHHHHHHHHHSC
T ss_pred cCCcCHHHHHHHHHhCC
Confidence 99999999999999986
No 37
>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA recombination; 1.90A {Escherichia coli} SCOP: a.5.1.1 a.60.2.1 b.40.4.2 PDB: 1hjp_A 1bdx_A* 1c7y_A 1d8l_A
Probab=61.85 E-value=2.6 Score=39.17 Aligned_cols=18 Identities=22% Similarity=0.233 Sum_probs=16.9
Q ss_pred CCCCCcHHHHHHHHHHcC
Q psy11828 269 GIKGMGLKKAKDYVFSIM 286 (443)
Q Consensus 269 gipGiG~ktA~~li~~~~ 286 (443)
+|+|||||+|..++..++
T Consensus 77 ~V~GIGpk~A~~iL~~f~ 94 (203)
T 1cuk_A 77 KTNGVGPKLALAILSGMS 94 (203)
T ss_dssp HSSSCCHHHHHHHHHHSC
T ss_pred cCCCcCHHHHHHHHhhCC
Confidence 399999999999999997
No 38
>1s5l_U Photosystem II 12 kDa extrinsic protein; photosynthesis, oxygen-evolving, tetra- manganese, membrane; HET: CL1 PHO HEM PL9 LMT BCR; 3.50A {Thermosynechococcus elongatus}
Probab=57.91 E-value=6.4 Score=34.41 Aligned_cols=26 Identities=19% Similarity=0.004 Sum_probs=19.4
Q ss_pred CCCCCCcHHHHHHHHHHcCC-CChhhHH
Q psy11828 268 TGIKGMGLKKAKDYVFSIMD-PDFENRK 294 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~-~sle~~~ 294 (443)
..+|||||++|-++|+ +|. .++|++.
T Consensus 66 ~~LpGiGp~~A~~II~-~GpF~svedL~ 92 (134)
T 1s5l_U 66 IQYRGLYPTLAKLIVK-NAPYESVEDVL 92 (134)
T ss_dssp GGSTTCTHHHHHHHHH-TCCCSSGGGGG
T ss_pred HHCCCCCHHHHHHHHH-cCCCCCHHHHH
Confidence 3699999999999995 442 2666655
No 39
>4gfj_A Topoisomerase V; helix-hairpin-helix, DNA repair enzyme, DNA B isomerase; 2.91A {Methanopyrus kandleri AV19}
Probab=53.85 E-value=7.4 Score=40.37 Aligned_cols=26 Identities=15% Similarity=0.330 Sum_probs=21.9
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhHHH
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENRKE 295 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~~~ 295 (443)
..||||||++|-.|+.+|| +++.+.+
T Consensus 471 tAIaGIGp~tAeRLLEkFG--SVe~Vm~ 496 (685)
T 4gfj_A 471 ISIRGIDRERAERLLKKYG--GYSKVRE 496 (685)
T ss_dssp HTSTTCCHHHHHHHHHHHT--SHHHHHH
T ss_pred eccCCCCHHHHHHHHHHhc--CHHHHHh
Confidence 3799999999999999999 6765544
No 40
>2bcq_A DNA polymerase lambda; misalignment, extrahelical, mutagenesis, mutation, deletion, streisinger, slippage, transferase, lyase/DNA complex; HET: DNA; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1xsl_A* 2bcr_A* 2bcs_A* 2bcu_A* 2bcv_A* 2gws_A* 3c5g_A* 3c5f_A* 2pfn_A* 1xsp_A* 1xsn_A* 2pfo_A* 2pfp_A* 2pfq_A* 3hw8_A* 3hwt_A* 1rzt_A* 3hx0_A* 3mdc_A* 3mda_A* ...
Probab=52.98 E-value=8.5 Score=38.27 Aligned_cols=29 Identities=21% Similarity=0.194 Sum_probs=24.4
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhHHHhh
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENRKEYV 297 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~~~~~ 297 (443)
..|||||||||.++..+ |=.|++++.+..
T Consensus 99 ~~v~GiG~k~a~~l~~~-Gi~tledL~~a~ 127 (335)
T 2bcq_A 99 SNIWGAGTKTAQMWYQQ-GFRSLEDIRSQA 127 (335)
T ss_dssp HTSTTCCHHHHHHHHHT-TCCSHHHHHHHC
T ss_pred hcCCCcCHHHHHHHHHc-CCCCHHHHHHHh
Confidence 48999999999999988 656898887654
No 41
>2fmp_A DNA polymerase beta; nucleotidyl transferase, transferase/DNA complex; HET: DNA DOC DCT; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1bpx_A* 1bpz_A* 1mq2_A* 1mq3_A* 1bpy_A* 1tva_A* 1zjm_A* 1zjn_A* 1zqa_A* 1zqb_A* 1zqc_A* 1zqd_A* 1zqe_A* 1zqf_A* 1zqg_A* 1zqh_A* 1zqi_A* 1zqj_A* 1zqk_A* 1zql_A* ...
Probab=51.35 E-value=8.4 Score=38.26 Aligned_cols=28 Identities=21% Similarity=0.332 Sum_probs=24.4
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhHHHh
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENRKEY 296 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~~~~ 296 (443)
..|||||||+|.++..+ |=.|++++.+.
T Consensus 101 ~~V~GiGpk~a~~l~~~-Gi~tledL~~a 128 (335)
T 2fmp_A 101 TRVSGIGPSAARKFVDE-GIKTLEDLRKN 128 (335)
T ss_dssp TTSTTCCHHHHHHHHHT-TCCSHHHHHTC
T ss_pred hCCCCCCHHHHHHHHHc-CCCCHHHHHHh
Confidence 48999999999999998 65689888874
No 42
>1jms_A Terminal deoxynucleotidyltransferase; polymerase; 2.36A {Mus musculus} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1kdh_A* 1kej_A*
Probab=50.84 E-value=9.1 Score=38.76 Aligned_cols=26 Identities=19% Similarity=0.250 Sum_probs=23.0
Q ss_pred CCCCCcHHHHHHHHHHcCCCChhhHHH
Q psy11828 269 GIKGMGLKKAKDYVFSIMDPDFENRKE 295 (443)
Q Consensus 269 gipGiG~ktA~~li~~~~~~sle~~~~ 295 (443)
.|+|||||||.++..+ |=.|++++.+
T Consensus 125 ~I~GvGpk~a~~ly~~-Gi~tledL~~ 150 (381)
T 1jms_A 125 SVFGVGLKTAEKWFRM-GFRTLSKIQS 150 (381)
T ss_dssp TSTTCCHHHHHHHHHT-TCCSHHHHHH
T ss_pred ccCCCCHHHHHHHHHc-CCCcHHHHHh
Confidence 8999999999999998 6568888875
No 43
>3b0x_A DNA polymerase beta family (X family); structural genomics, riken structural genomics/proteomics in RSGI, polxc, PHP, DRP lyase; HET: DNA DGT; 1.36A {Thermus thermophilus} PDB: 3au2_A* 3au6_A* 3auo_A* 3b0y_A*
Probab=50.60 E-value=10 Score=40.24 Aligned_cols=30 Identities=20% Similarity=0.189 Sum_probs=23.5
Q ss_pred CCCCCcHHHHHHHHHHcCCCChhhHHHhhh
Q psy11828 269 GIKGMGLKKAKDYVFSIMDPDFENRKEYVK 298 (443)
Q Consensus 269 gipGiG~ktA~~li~~~~~~sle~~~~~~~ 298 (443)
+|+|||||+|..++...|-.+++++.+.+.
T Consensus 97 ~v~GvGpk~A~~~~~~lg~~~~~~l~~a~~ 126 (575)
T 3b0x_A 97 EVPGVGPKTARLLYEGLGIDSLEKLKAALD 126 (575)
T ss_dssp TSTTTCHHHHHHHHHTSCCCSHHHHHHHHH
T ss_pred cCCCcCHHHHHHHHHhcCCCCHHHHHHHHH
Confidence 789999999999998755457877776654
No 44
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus}
Probab=47.26 E-value=11 Score=37.87 Aligned_cols=26 Identities=19% Similarity=0.289 Sum_probs=22.5
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhHH
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENRK 294 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~~ 294 (443)
-.|||||||||.++..+ |=.|++++.
T Consensus 105 ~~I~GvG~kta~~l~~~-Gi~tledL~ 130 (360)
T 2ihm_A 105 TQVFGVGVKTANRWYQE-GLRTLDELR 130 (360)
T ss_dssp HTSTTCCHHHHHHHHHT-TCCSHHHHH
T ss_pred hCCCCCCHHHHHHHHHc-CCCCHHHHH
Confidence 38999999999999998 656888877
No 45
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=46.83 E-value=12 Score=39.81 Aligned_cols=30 Identities=23% Similarity=0.398 Sum_probs=24.4
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhHHHhhh
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENRKEYVK 298 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~~~~~~ 298 (443)
-+|+|||||+|.+++.+ |=.+++++.+.+.
T Consensus 100 ~~v~GVGpk~A~~i~~~-G~~s~edL~~a~~ 129 (578)
T 2w9m_A 100 LGVRGLGPKKIRSLWLA-GIDSLERLREAAE 129 (578)
T ss_dssp TTSTTCCHHHHHHHHHT-TCCSHHHHHHHHH
T ss_pred hCCCCcCHHHHHHHHHc-CCCCHHHHHHHHh
Confidence 48999999999999988 4358888877643
No 46
>3arc_U Photosystem II 12 kDa extrinsic protein; PSII, membrane-protein complex, transmembrane alpha-helix, E transport, photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT HTG DGD LHG HEM; 1.90A {Thermosynechococcus vulcanus} PDB: 3bz1_U* 2axt_U* 3bz2_U* 3kzi_U* 3prq_U* 3prr_U* 3a0b_U* 3a0h_U*
Probab=45.23 E-value=14 Score=30.42 Aligned_cols=26 Identities=19% Similarity=0.051 Sum_probs=19.0
Q ss_pred CCCCCCcHHHHHHHHHHcCC-CChhhHH
Q psy11828 268 TGIKGMGLKKAKDYVFSIMD-PDFENRK 294 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~-~sle~~~ 294 (443)
..+||||+++|-++|.. |. .+++++.
T Consensus 29 ~~lpGIG~~~A~~IV~~-GpF~s~edL~ 55 (97)
T 3arc_U 29 IQYRGLYPTLAKLIVKN-APYESVEDVL 55 (97)
T ss_dssp GGSTTCTTHHHHHHHHH-CCCSSGGGGG
T ss_pred hHCCCCCHHHHHHHHHc-CCCCCHHHHH
Confidence 46999999999999994 42 2555443
No 47
>2ztd_A Holliday junction ATP-dependent DNA helicase RUVA; recombination, branch migration, DNA BIND oligomerization, acidic PIN; 2.40A {Mycobacterium tuberculosis} PDB: 2ztc_A 2zte_A 2h5x_A 1bvs_A
Probab=37.34 E-value=13 Score=34.74 Aligned_cols=37 Identities=22% Similarity=0.395 Sum_probs=24.8
Q ss_pred CCHHHHHHHHHHhC-CCCCCCCCCCcHHHHHHHHHHcCC
Q psy11828 250 FTDAKFRYMCILSG-CDYWTGIKGMGLKKAKDYVFSIMD 287 (443)
Q Consensus 250 lt~eqfidl~iL~G-~DY~~gipGiG~ktA~~li~~~~~ 287 (443)
++.+.|.. +++.+ -+.+..+||||+|+|-+++.+..+
T Consensus 108 ~~~~~l~~-aI~~~d~~~L~~vpGIG~KtA~rIi~elk~ 145 (212)
T 2ztd_A 108 HDAPALRQ-VLADGNVAALTRVPGIGKRGAERMVLELRD 145 (212)
T ss_dssp SCHHHHHH-HHHTTCHHHHHTSTTCCHHHHHHHHHHHTT
T ss_pred CCHHHHHH-HHHhCCHHHHhhCCCCCHHHHHHHHHHHHH
Confidence 45555542 23333 233458999999999999998763
No 48
>1vq8_Y 50S ribosomal protein L32E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: c.9.2.1 PDB: 1vq4_Y* 1vq5_Y* 1vq6_Y* 1vq7_Y* 1s72_Y* 1vq9_Y* 1vqk_Y* 1vql_Y* 1vqm_Y* 1vqn_Y* 1vqo_Y* 1vqp_Y* 1yhq_Y* 1yi2_Y* 1yij_Y* 1yit_Y* 1yj9_Y* 1yjn_Y* 1yjw_Y* 2otj_Y* ...
Probab=32.77 E-value=9.2 Score=36.41 Aligned_cols=25 Identities=28% Similarity=0.373 Sum_probs=0.0
Q ss_pred CCCCCCcHHHHHHHHHH-cCCCChhhHH
Q psy11828 268 TGIKGMGLKKAKDYVFS-IMDPDFENRK 294 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~-~~~~sle~~~ 294 (443)
..||||||++|..|+.. ++ +++.+.
T Consensus 18 ~~IpGIGpk~a~~Ll~~gf~--sve~L~ 43 (241)
T 1vq8_Y 18 TDISGVGPSKAESLREAGFE--SVEDVR 43 (241)
T ss_dssp ----------------------------
T ss_pred hcCCCCCHHHHHHHHHcCCC--CHHHHH
Confidence 47899999999999987 44 566653
No 49
>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} SCOP: a.60.2.1 b.40.4.2
Probab=32.41 E-value=22 Score=32.49 Aligned_cols=37 Identities=11% Similarity=0.162 Sum_probs=24.3
Q ss_pred CCHHHHHHHHHHhCCCCCCCCCCCcHHHHHHHHHHcC
Q psy11828 250 FTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIM 286 (443)
Q Consensus 250 lt~eqfidl~iL~G~DY~~gipGiG~ktA~~li~~~~ 286 (443)
++.++|...-.-.--+....+||||+|+|-+++.++.
T Consensus 92 f~~~~l~~aI~~~d~~~L~~vpGIG~K~A~rI~~~lk 128 (191)
T 1ixr_A 92 LPPRLLARALLEGDARLLTSASGVGRRLAERIALELK 128 (191)
T ss_dssp SCHHHHHHHHHTTCHHHHTTSTTCCHHHHHHHHHHHT
T ss_pred CChHHHHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHH
Confidence 4555554322222224456899999999999998875
No 50
>3vdp_A Recombination protein RECR; zinc finger, DNA repair, DNA binding; 2.45A {Thermoanaerobacter tengcongensis} PDB: 3vdu_A 3ve5_D
Probab=32.38 E-value=18 Score=33.87 Aligned_cols=17 Identities=29% Similarity=0.534 Sum_probs=14.5
Q ss_pred CCCCCCcHHHHHHHHHH
Q psy11828 268 TGIKGMGLKKAKDYVFS 284 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~ 284 (443)
..+||||+|+|.++.-.
T Consensus 29 ~~LPGIG~KsA~RlA~h 45 (212)
T 3vdp_A 29 SKLPGIGPKTAQRLAFF 45 (212)
T ss_dssp HTSTTCCHHHHHHHHHH
T ss_pred HHCCCCCHHHHHHHHHH
Confidence 47999999999988754
No 51
>2ziu_A MUS81 protein; helix-hairpin-helix, alternative splicing, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; 2.70A {Danio rerio} PDB: 2ziv_A 2ziw_A
Probab=28.19 E-value=34 Score=33.05 Aligned_cols=29 Identities=14% Similarity=0.030 Sum_probs=25.6
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhHHHhhh
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENRKEYVK 298 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~~~~~~ 298 (443)
-.||||++++|..++.+|+ ++..+++..+
T Consensus 240 ~~IpGVs~~~A~~I~~~yp--Tp~~L~~Ay~ 268 (311)
T 2ziu_A 240 MQISGVSGDKAAAVLEHYS--TVSSLLQAYD 268 (311)
T ss_dssp TTBTTCCHHHHHHHHHHCS--SHHHHHHHHH
T ss_pred HhccCCCHHHHHHHHHHCC--CHHHHHHHHH
Confidence 4799999999999999998 7888887775
No 52
>2owo_A DNA ligase; protein-DNA complex, ligase-DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli}
Probab=27.68 E-value=31 Score=37.60 Aligned_cols=24 Identities=21% Similarity=0.243 Sum_probs=21.0
Q ss_pred CCCCCcHHHHHHHHHHcCCCChhhHH
Q psy11828 269 GIKGMGLKKAKDYVFSIMDPDFENRK 294 (443)
Q Consensus 269 gipGiG~ktA~~li~~~~~~sle~~~ 294 (443)
||||||+++|..|.+.|+ +++++.
T Consensus 516 gi~~VG~~~Ak~La~~Fg--sl~~l~ 539 (671)
T 2owo_A 516 GIREVGEATAAGLAAYFG--TLEALE 539 (671)
T ss_dssp TCTTCCHHHHHHHHHHHC--SHHHHH
T ss_pred cccCccHHHHHHHHHHcC--CHHHHH
Confidence 899999999999999998 677664
No 53
>1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc finger, toprim, walker B ATP binding motif; 2.50A {Deinococcus radiodurans} SCOP: e.49.1.1 PDB: 2v1c_A
Probab=27.55 E-value=25 Score=33.33 Aligned_cols=17 Identities=29% Similarity=0.587 Sum_probs=14.5
Q ss_pred CCCCCCcHHHHHHHHHH
Q psy11828 268 TGIKGMGLKKAKDYVFS 284 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~ 284 (443)
..+||||+|+|.++.-.
T Consensus 15 ~~LPGIG~KSA~RlA~h 31 (228)
T 1vdd_A 15 SRLPGIGPKSAQRLAFH 31 (228)
T ss_dssp HTSTTCCHHHHHHHHHH
T ss_pred hHCCCCCHHHHHHHHHH
Confidence 47899999999998754
No 54
>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA recombination; 1.90A {Escherichia coli} SCOP: a.5.1.1 a.60.2.1 b.40.4.2 PDB: 1hjp_A 1bdx_A* 1c7y_A 1d8l_A
Probab=23.61 E-value=27 Score=32.17 Aligned_cols=37 Identities=14% Similarity=0.223 Sum_probs=23.4
Q ss_pred CCHHHHHHHHHHhCCCCCCCCCCCcHHHHHHHHHHcC
Q psy11828 250 FTDAKFRYMCILSGCDYWTGIKGMGLKKAKDYVFSIM 286 (443)
Q Consensus 250 lt~eqfidl~iL~G~DY~~gipGiG~ktA~~li~~~~ 286 (443)
++.++|+..-.-.--+....+||||+|+|-+++.+..
T Consensus 93 f~~~~l~~aI~~~d~~~L~~vpGIG~K~A~rI~~elk 129 (203)
T 1cuk_A 93 MSAQQFVNAVEREEVGALVKLPGIGKKTAERLIVEMK 129 (203)
T ss_dssp SCHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHHHHHH
T ss_pred CChHHHHHHHHhCCHHHHhhCCCCCHHHHHHHHHHHH
Confidence 4555554322211123445899999999999987753
No 55
>3sgi_A DNA ligase; HET: DNA AMP; 3.50A {Mycobacterium tuberculosis}
Probab=23.42 E-value=17 Score=39.21 Aligned_cols=26 Identities=12% Similarity=0.162 Sum_probs=0.0
Q ss_pred CCCCCCcHHHHHHHHHHcCCCChhhHHH
Q psy11828 268 TGIKGMGLKKAKDYVFSIMDPDFENRKE 295 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~~~~sle~~~~ 295 (443)
-||||||+++|..|++.|+ +++++.+
T Consensus 532 LGIp~VG~~~ak~La~~Fg--sle~L~~ 557 (615)
T 3sgi_A 532 LSIRHVGPTAARALATEFG--SLDAIAA 557 (615)
T ss_dssp ----------------------------
T ss_pred cCCCCCCHHHHHHHHHHcC--CHHHHHh
Confidence 3788888888888888887 5665543
No 56
>2edu_A Kinesin-like protein KIF22; kinesin-like DNA binding domain, helix turn helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.60.2.7
Probab=23.35 E-value=38 Score=27.12 Aligned_cols=18 Identities=28% Similarity=0.157 Sum_probs=15.9
Q ss_pred CCCCCCcHHHHHHHHHHc
Q psy11828 268 TGIKGMGLKKAKDYVFSI 285 (443)
Q Consensus 268 ~gipGiG~ktA~~li~~~ 285 (443)
..|||||+++|.+++...
T Consensus 43 ~~ipGIG~~~A~~Il~~r 60 (98)
T 2edu_A 43 RSLQRIGPKKAQLIVGWR 60 (98)
T ss_dssp HHSTTCCHHHHHHHHHHH
T ss_pred HHCCCCCHHHHHHHHHHH
Confidence 369999999999999875
No 57
>1dgs_A DNA ligase; AMP complex, NAD+-dependent; HET: DNA AMP; 2.90A {Thermus filiformis} SCOP: a.60.2.2 b.40.4.6 d.142.2.2 PDB: 1v9p_A*
Probab=23.22 E-value=34 Score=37.19 Aligned_cols=23 Identities=17% Similarity=0.304 Sum_probs=20.3
Q ss_pred CCCCCcHHHHHHHHHHcCCCChhhH
Q psy11828 269 GIKGMGLKKAKDYVFSIMDPDFENR 293 (443)
Q Consensus 269 gipGiG~ktA~~li~~~~~~sle~~ 293 (443)
||||||+++|..|++.|+ +++++
T Consensus 511 GI~~VG~~~Ak~La~~Fg--sl~~l 533 (667)
T 1dgs_A 511 GLPGVGEVLARNLARRFG--TMDRL 533 (667)
T ss_dssp TCSSCCHHHHHHHHHTTS--BHHHH
T ss_pred ccCCccHHHHHHHHHHcC--CHHHH
Confidence 899999999999999998 56665
No 58
>2i5h_A Hypothetical protein AF1531; PFAM:DUF655, PSI-2, structural genomics, protein structure initiative; 1.74A {Archaeoglobus fulgidus} SCOP: e.71.1.1
Probab=22.30 E-value=38 Score=31.53 Aligned_cols=48 Identities=17% Similarity=0.135 Sum_probs=30.0
Q ss_pred CHHHHHHHHHHhC---CCCC--CCCCCCcHHHHHHHHHHc--CC-CChhhHHHhhh
Q psy11828 251 TDAKFRYMCILSG---CDYW--TGIKGMGLKKAKDYVFSI--MD-PDFENRKEYVK 298 (443)
Q Consensus 251 t~eqfidl~iL~G---~DY~--~gipGiG~ktA~~li~~~--~~-~sle~~~~~~~ 298 (443)
..+.|++|.--++ .+.- ..+||||+++|.++|..- |. .|++++.+.+.
T Consensus 113 ~E~~fv~f~n~a~pITA~~~eL~~LpGIG~k~A~~IIeyRe~G~F~s~eDL~~RV~ 168 (205)
T 2i5h_A 113 DEKKYVDFFNKADSITTRMHQLELLPGVGKKMMWAIIEERKKRPFESFEDIAQRVK 168 (205)
T ss_dssp THHHHHHHHC--CCBCSSSBGGGGSTTCCHHHHHHHHHHHHHSCCCSHHHHHHHST
T ss_pred chhhhhhhccccCCccCCHHHHhcCCCcCHHHHHHHHHHHhcCCCCCHHHHHHhcC
Confidence 4677888754443 2332 379999999999999532 32 26776655443
No 59
>3c1y_A DNA integrity scanning protein DISA; DNA damage, DNA repair, DNA-binding, DNA binding protein; HET: DNA 2BA; 2.10A {Thermotoga maritima} PDB: 3c1z_A* 3c21_A* 3c23_A*
Probab=20.40 E-value=45 Score=33.84 Aligned_cols=26 Identities=8% Similarity=0.047 Sum_probs=22.7
Q ss_pred CCCCCcHHHHHHHHHHcCCCChhhHHHh
Q psy11828 269 GIKGMGLKKAKDYVFSIMDPDFENRKEY 296 (443)
Q Consensus 269 gipGiG~ktA~~li~~~~~~sle~~~~~ 296 (443)
.||++|++.|-+|+.+|| +++++.+.
T Consensus 319 ~IPrl~~~iae~Lv~~FG--sLq~Il~A 344 (377)
T 3c1y_A 319 TVARIPLSIGYNVVRMFK--TLDQISKA 344 (377)
T ss_dssp HTSCCCHHHHHHHHHHHC--SHHHHTTC
T ss_pred hCCCCCHHHHHHHHHHhC--CHHHHHhC
Confidence 499999999999999999 78777654
Done!