Query 005869
Match_columns 672
No_of_seqs 279 out of 1572
Neff 5.0
Searched_HMMs 29240
Date Mon Mar 25 09:40:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005869.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/005869hhsearch_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 2.5E-76 8.5E-81 630.4 33.7 329 1-332 1-345 (352)
2 3q8k_A Flap endonuclease 1; he 100.0 7.4E-56 2.5E-60 470.9 27.0 293 2-301 1-302 (341)
3 3ory_A Flap endonuclease 1; hy 100.0 7.1E-56 2.4E-60 474.5 20.9 295 1-308 11-322 (363)
4 1b43_A Protein (FEN-1); nuclea 100.0 1.3E-56 4.3E-61 475.5 13.4 271 1-285 1-286 (340)
5 1ul1_X Flap endonuclease-1; pr 100.0 7.2E-54 2.5E-58 461.1 13.1 283 2-288 1-292 (379)
6 1rxw_A Flap structure-specific 100.0 1E-51 3.6E-56 437.2 23.8 271 1-284 1-285 (336)
7 1a76_A Flap endonuclease-1 pro 100.0 2.6E-53 9.1E-58 447.7 7.4 264 1-285 1-272 (326)
8 2izo_A FEN1, flap structure-sp 100.0 3.3E-52 1.1E-56 443.0 12.9 274 9-287 3-291 (346)
9 1exn_A 5'-exonuclease, 5'-nucl 100.0 2.2E-32 7.6E-37 284.9 12.3 221 4-258 2-235 (290)
10 1bgx_T TAQ DNA polymerase; DNA 100.0 8E-34 2.8E-38 331.2 -9.9 211 16-258 4-223 (832)
11 3h7i_A Ribonuclease H, RNAse H 99.7 1E-16 3.4E-21 167.4 13.3 185 23-237 12-211 (305)
12 2y35_A LD22664P; hydrolase-DNA 98.7 7.8E-08 2.7E-12 115.6 15.7 232 1-237 1-299 (1140)
13 3pie_A 5'->3' exoribonuclease 98.7 4.3E-08 1.5E-12 117.0 10.5 233 1-237 1-302 (1155)
14 3fqd_A Protein DHP1, 5'-3' exo 98.3 4.4E-06 1.5E-10 97.5 15.4 150 26-179 54-246 (899)
15 2a1j_A DNA repair endonuclease 91.4 0.11 3.7E-06 42.2 2.8 28 228-255 6-33 (63)
16 1z00_B DNA repair endonuclease 89.6 0.23 7.8E-06 42.7 3.4 27 229-255 21-47 (84)
17 1x2i_A HEF helicase/nuclease; 85.8 0.49 1.7E-05 38.2 3.1 27 229-255 17-43 (75)
18 1kft_A UVRC, excinuclease ABC 85.8 0.27 9.2E-06 40.8 1.5 28 228-255 26-53 (78)
19 1z00_A DNA excision repair pro 84.3 0.63 2.2E-05 39.5 3.2 27 229-255 22-48 (89)
20 2a1j_B DNA excision repair pro 82.1 0.95 3.3E-05 38.6 3.5 27 229-255 35-61 (91)
21 2nrt_A Uvrabc system protein C 76.7 1.2 4E-05 44.8 2.6 27 229-255 171-197 (220)
22 2ztd_A Holliday junction ATP-d 66.0 3.8 0.00013 40.8 3.5 54 190-248 57-110 (212)
23 2bgw_A XPF endonuclease; hydro 64.5 2.9 0.0001 40.9 2.4 25 230-254 166-190 (219)
24 3c65_A Uvrabc system protein C 64.4 1.4 4.8E-05 44.4 0.0 28 228-255 175-202 (226)
25 4gfj_A Topoisomerase V; helix- 57.2 6.3 0.00022 43.3 3.4 26 230-255 472-497 (685)
26 1ixr_A Holliday junction DNA h 54.2 5.7 0.0002 38.8 2.4 19 230-248 76-94 (191)
27 1cuk_A RUVA protein; DNA repai 44.4 9.5 0.00033 37.6 2.2 19 230-248 77-95 (203)
28 1s5l_U Photosystem II 12 kDa e 40.4 6.3 0.00022 36.8 0.2 24 230-253 67-92 (134)
29 3v32_B Ribonuclease ZC3H12A; r 38.3 1.6E+02 0.0054 28.6 9.7 44 25-78 25-68 (185)
30 2ziu_A MUS81 protein; helix-ha 36.1 22 0.00076 36.5 3.5 31 228-258 239-269 (311)
31 3v33_A Ribonuclease ZC3H12A; r 31.8 2.3E+02 0.0078 28.4 9.9 44 25-78 25-68 (223)
32 2w9m_A Polymerase X; SAXS, DNA 29.4 31 0.0011 38.7 3.6 29 229-257 100-129 (578)
33 2i5h_A Hypothetical protein AF 29.4 32 0.0011 34.1 3.2 46 212-257 113-168 (205)
34 1vq8_Y 50S ribosomal protein L 28.8 12 0.0004 37.9 0.0 26 228-253 17-43 (241)
35 3vdp_A Recombination protein R 28.8 45 0.0015 33.3 4.2 50 228-291 28-77 (212)
36 2duy_A Competence protein come 27.0 25 0.00087 28.5 1.7 18 229-246 30-47 (75)
37 2ztd_A Holliday junction ATP-d 27.0 23 0.00079 35.2 1.7 37 211-248 108-145 (212)
38 2bcq_A DNA polymerase lambda; 26.1 40 0.0014 35.4 3.5 28 229-256 99-127 (335)
39 3b0x_A DNA polymerase beta fam 24.9 43 0.0015 37.5 3.6 28 230-257 97-126 (575)
40 3c1y_A DNA integrity scanning 24.7 31 0.0011 37.2 2.3 26 230-255 319-344 (377)
41 3arc_U Photosystem II 12 kDa e 24.6 16 0.00054 32.1 0.0 25 229-253 29-55 (97)
42 1jms_A Terminal deoxynucleotid 24.3 43 0.0015 35.9 3.3 25 230-254 125-150 (381)
43 1vdd_A Recombination protein R 24.0 61 0.0021 32.7 4.1 50 228-291 14-63 (228)
44 2owo_A DNA ligase; protein-DNA 23.8 38 0.0013 39.1 3.0 26 230-255 516-541 (671)
45 1ixr_A Holliday junction DNA h 23.0 39 0.0013 32.9 2.4 22 226-247 107-128 (191)
46 2fmp_A DNA polymerase beta; nu 22.7 39 0.0013 35.5 2.6 27 229-255 101-128 (335)
47 2ihm_A POL MU, DNA polymerase 22.2 46 0.0016 35.4 3.0 25 229-253 105-130 (360)
48 3sgi_A DNA ligase; HET: DNA AM 22.0 19 0.00065 41.2 0.0 26 230-255 533-558 (615)
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=2.5e-76 Score=630.42 Aligned_cols=329 Identities=41% Similarity=0.708 Sum_probs=300.2
Q ss_pred CCccccHHHHhhcccccccccccCCEEEeeHHHHHHHHhccCcccccCCCcchhHHHHHHHHHHHHHHcCCeeEEEEeCC
Q 005869 1 MGIQGLLPLLKSIMIPIHIKELEGCCVAVDTYSWLHKGALSCSRELCKGLPTSRHIDYCMHRVNLLRHYGVKPILIFDGG 80 (672)
Q Consensus 1 MGIkGL~~~Lk~~~~~~~Ls~lkGk~IAIDa~~WLhRg~~sca~el~~G~pt~~~L~~~~~rI~~Ll~~gI~PIfVFDG~ 80 (672)
|||+|||++|+++.+++++++|+|++||||||+||||++++|+.++..|.++..++.+|++++++|+++||+|||||||.
T Consensus 1 MGI~GL~~~L~~~~~~~~l~~l~Gk~vaIDas~wL~~~~~~~~~~l~~G~~t~~l~~~~~r~l~~L~~~gI~PvfVFDG~ 80 (352)
T 3qe9_Y 1 MGIQGLLQFIKEASEPIHVRKYKGQVVAVDTYCWLHKGAIACAEKLAKGEPTDRYVGFCMKFVNMLLSHGIKPILVFDGC 80 (352)
T ss_dssp -CCTTHHHHTTTSEEEEEGGGGTTSEEEEETHHHHHHHHHHTHHHHHTTCCCCHHHHHHHHHHHHHHHTTCEEEEEECCS
T ss_pred CCcchHHHHHHhhCCcCCHHHhCCcEEEEecHHHHHHhhhccchhhcCCCCcHHHHHHHHHHHHHHHHcCCEEEEEECCC
Confidence 99999999999999999999999999999999999999999988788898876666777788889999999999999999
Q ss_pred CCchhhHHHHHHHHHHHHHHHHHHHHHHcCCchhhHHHHhhhcCCCHHHHHHHHHHHHHcCceEEEeccchHHHHHHHHH
Q 005869 81 LLPMKIEQENKRARSRKENLARAIECESEGNSSASYEFYQKAVDISPSIAHELIQVLKQQNVSYIVAPYEADAQMTFLAV 160 (672)
Q Consensus 81 ~lp~K~~Te~kRr~~R~e~l~kA~e~~k~G~~~eA~e~f~kai~ITp~ma~~li~lLk~~GV~yIVAPYEADAQLAyLa~ 160 (672)
++|.|+.++.+|+++|+++++++|+++++|+.++|.++|++++++||+|+..++++|+.+||+|++||||||||||+|++
T Consensus 81 ~~p~Kk~~~~~Rr~~r~~~~~~~~~~~~~g~~~~a~~~f~~~~~vt~~~~~~i~~~L~~~gIp~i~ap~EADaqiA~La~ 160 (352)
T 3qe9_Y 81 TLPSKKEVERSRRERRQANLLKGKQLLREGKVSEARECFTRSINITHAMAHKVIKAARSQGVDCLVAPYEADAQLAYLNK 160 (352)
T ss_dssp CCTTTHHHHHHHHHHHHHHHHHHHHHTTSSCCHHHHHHHGGGCCCCHHHHHHHHHHHHHTTCEEEECSSCHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCCcEEECCcchHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCeEEEEcCCCCeecccCCeEEEecccCCCceEEEeeccccccccccCC--CCHHHHHHHHHHhCCCCCCCCCCCcHHH
Q 005869 161 SKQVEAVITEDSDLIPFGCSRIIFKMDKFGQGVEFQCSMLQKNKDLSFGG--FTKQMLLEMCILSGCDYLQSLPGMGLKR 238 (672)
Q Consensus 161 ~G~VDaVISeDSDlLlFG~~kVI~kLD~~g~~vei~~~~i~~~~~L~~lG--lt~dqFidlcILsGcDYlpgIpGIG~Kt 238 (672)
+|++++|+|+|+|+|+||+++|+++++..++++++....+. +++.+| ++++||+|+|+|+||||+|||||||+||
T Consensus 161 ~g~~~~I~S~D~Dll~~~~~~v~~~~~~~~~~~~~~~~~~~---~~~~~g~~l~~~q~id~~~L~G~D~~pgv~GiG~kt 237 (352)
T 3qe9_Y 161 AGIVQAIITEDSALLAFGCKKVILKMDQFGNGLEIDQARLG---MCRQLGDVFTEEKFRYMCILSGCDYLSSLRGIGLAK 237 (352)
T ss_dssp TTSCSEEECSCGGGGGGTCSEEEESCCTTSEEEEEEGGGGT---TCCTTCSSCCHHHHHHHHHHHCCSSSCCCTTCCHHH
T ss_pred CCCeEEEEeCCcCcccccCCeEEEeccCCCCcEEEeHHHHH---HHHHhCCCCCHHHHHHHHHhcCCCCCCCCCCeeHHH
Confidence 99999999999999999999999999987776554433321 356778 9999999999999999999999999999
Q ss_pred HHHHHHHh--CCHHHHHHHhhh---CCCCCCchhHHHHHHHHHHcCCCeeeCCCCCceeecCCCCCCCCC-Cchh-----
Q 005869 239 AHALISKF--KSYDKVIKHLKY---STVSVPPFYEESFGKAVLTFQHQRVYDPKTEDIVHLSCISDNIGN-DLDF----- 307 (672)
Q Consensus 239 A~kLIkky--~sle~Il~~L~~---~~~~vP~~Y~e~FrkA~~tFkhq~VfdP~~~~lV~L~~~p~~~~~-~ldf----- 307 (672)
|++||++| ++++++++++.. .+..+|++|++.|++|+.+|+||+||||..+++|+|+|+|+++.. .++|
T Consensus 238 A~kli~~~~~~~l~~il~~~~~~l~~~~~vp~~~~~~~~~A~~~F~~q~V~dp~~~~~~~l~~~~~~~~~~~~~~~G~~~ 317 (352)
T 3qe9_Y 238 ACKVLRLANNPDIVKVIKKIGHYLKMNITVPEDYINGFIRANNTFLYQLVFDPIKRKLIPLNAYEDDVDPETLSYAGQYV 317 (352)
T ss_dssp HHHHHHHCCCSCHHHHHTTHHHHHTCCCCCCHHHHHHHHHHHHHHHHCEEEETTTTEEEESSCCCSSCCGGGCCTTCCCC
T ss_pred HHHHHHHhCCCCHHHHHHHHHhhhccCCCCCHHHHHHHHHHHHHhCCCEEECCCCCeEeeCCCCCCCCChhhhhhcCCCC
Confidence 99999999 689999998763 246899999999999999999999999999999999999988753 3344
Q ss_pred ---hhhhhhcccCCCCCCCCccccCCCc
Q 005869 308 ---LAKGIAIGDLDPFTQLPFQEVSDNS 332 (672)
Q Consensus 308 ---la~~IA~G~ldP~T~~~f~~~~~~~ 332 (672)
+|.+||.|+|||+|++||..-+|+.
T Consensus 318 ~~~~~~~ia~G~~~p~t~~~~~~~~~~~ 345 (352)
T 3qe9_Y 318 DDSIALQIALGNKDINTFEQIDDYNPDT 345 (352)
T ss_dssp CHHHHHHHHHTCBCTTTCCBCCCCCTTC
T ss_pred CHHHHHHHhCCCCCcccccccccCCCCC
Confidence 4999999999999999998766553
No 2
>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=7.4e-56 Score=470.91 Aligned_cols=293 Identities=26% Similarity=0.371 Sum_probs=259.6
Q ss_pred CccccHHHHhhc----ccccccccccCCEEEeeHHHHHHHHhccCcc---c--ccCCCcchhHHHHHHHHHHHHHHcCCe
Q 005869 2 GIQGLLPLLKSI----MIPIHIKELEGCCVAVDTYSWLHKGALSCSR---E--LCKGLPTSRHIDYCMHRVNLLRHYGVK 72 (672)
Q Consensus 2 GIkGL~~~Lk~~----~~~~~Ls~lkGk~IAIDa~~WLhRg~~sca~---e--l~~G~pt~~~L~~~~~rI~~Ll~~gI~ 72 (672)
||+|||++|++. .++.+|++|+|++|+|||++||||++++++. . ...|.+| +++.+++.++..|++++|+
T Consensus 1 GI~GL~~~l~~~~p~~~~~~~l~~l~gk~l~IDgs~~lyr~~~a~~~~~~~l~~~~G~~T-~al~g~~~~~~~ll~~~i~ 79 (341)
T 3q8k_A 1 GIQGLAKLIADVAPSAIRENDIKSYFGRKVAIDASMSIYQFLIAVRQGGDVLQNEEGETT-SHLMGMFYRTIRMMENGIK 79 (341)
T ss_dssp CCTTHHHHHHHHCGGGEEEEEGGGGTTCEEEEEHHHHHHHHHHHCEETTEECBCTTSCBC-HHHHHHHHHHHHHHTTTCE
T ss_pred CchhHHHHHHHhhhhccccccHHHhCCCEEEEecHHHHHHHHHccccccCCCCCCCCCCc-hHHHHHHHHHHHHHHCCCC
Confidence 999999999986 4789999999999999999999999887752 2 3467775 7899999999889989999
Q ss_pred eEEEEeCCCCchhhHHHHHHHHHHHHHHHHHHHHHHcCCchhhHHHHhhhcCCCHHHHHHHHHHHHHcCceEEEeccchH
Q 005869 73 PILIFDGGLLPMKIEQENKRARSRKENLARAIECESEGNSSASYEFYQKAVDISPSIAHELIQVLKQQNVSYIVAPYEAD 152 (672)
Q Consensus 73 PIfVFDG~~lp~K~~Te~kRr~~R~e~l~kA~e~~k~G~~~eA~e~f~kai~ITp~ma~~li~lLk~~GV~yIVAPYEAD 152 (672)
|++||||..+++|+++..+|+++|.++.+++.++.+.|..+++.++++++++||++|+..++++|+.+||+|++||||||
T Consensus 80 P~~VFDg~~~~~r~~~~~~yk~~R~~~~~~~~~a~r~~~pe~l~~~~~~~~~vt~~q~~~~~~lL~~~gip~i~ap~EAD 159 (341)
T 3q8k_A 80 PVYVFDGKPPQLKSGELAKRSERRAEAEKQLQQAQAAGAEQEVEKFTKRLVKVTKQHNDECKHLLSLMGIPYLDAPSEAE 159 (341)
T ss_dssp EEEEECCCCCGGGHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHTCCCCHHHHHHHHHHHHHHTCCEEECSSCHH
T ss_pred ceEEEeCCCcccchhhhHHHHHHHhHhHHHHHHHHhcCCHHHHHHHHhhcccCCHHHHHHHHHHHHHcCCCEEECCccHH
Confidence 99999999999999999999999998887777788889999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHcCCeEEEEcCCCCeecccCCeEEEecccCCCceEEEeeccccccccccCCCCHHHHHHHHHHhCCCCCCCCC
Q 005869 153 AQMTFLAVSKQVEAVITEDSDLIPFGCSRIIFKMDKFGQGVEFQCSMLQKNKDLSFGGFTKQMLLEMCILSGCDYLQSLP 232 (672)
Q Consensus 153 AQLAyLa~~G~VDaVISeDSDlLlFG~~kVI~kLD~~g~~vei~~~~i~~~~~L~~lGlt~dqFidlcILsGcDYlpgIp 232 (672)
||||+|++.|.+++|+|+|+|+|+||+++|+++++..+... .....++...+++.+|++++||+|+|+|+||||++|||
T Consensus 160 d~ia~La~~g~v~~i~s~D~D~l~~~~~~v~~~~~~~~~~~-~~~~~~~~~~v~~~~gl~~~q~id~~~L~G~D~~~gip 238 (341)
T 3q8k_A 160 ASCAALVKAGKVYAAATEDMDCLTFGSPVLMRHLTASEAKK-LPIQEFHLSRILQELGLNQEQFVDLCILLGSDYCESIR 238 (341)
T ss_dssp HHHHHHHHTTSSSEEECSCTHHHHTTCSEEEESCCCCSSCC-CEEEEEEHHHHHHHHTCCHHHHHHHHHHHCCSSSCCCT
T ss_pred HHHHHHHhcCCeEEEEcCCccccccCCcEEEEcccccccCC-CceEEEcHHHHHHHhCCCHHHHHHHHHhcCCCCCCCCC
Confidence 99999999999999999999999999999999987543211 11234667778899999999999999999999999999
Q ss_pred CCcHHHHHHHHHHhCCHHHHHHHhhhCCCCCCchhHHHHHHHHHHcCCCeeeCCCCCceeecCCCCCCC
Q 005869 233 GMGLKRAHALISKFKSYDKVIKHLKYSTVSVPPFYEESFGKAVLTFQHQRVYDPKTEDIVHLSCISDNI 301 (672)
Q Consensus 233 GIG~KtA~kLIkky~sle~Il~~L~~~~~~vP~~Y~e~FrkA~~tFkhq~VfdP~~~~lV~L~~~p~~~ 301 (672)
|||+|||++||++|+++|+|+++++..+..+|++|. |++|+.+|.|+.|.+|... .|.+-++|.
T Consensus 239 GiG~KtA~kll~~~gsle~i~~~~~~~k~~~~~~~~--~~~~r~l~l~~~V~~~~~~---~l~~~~pd~ 302 (341)
T 3q8k_A 239 GIGPKRAVDLIQKHKSIEEIVRRLDPNKYPVPENWL--HKEAHQLFLEPEVLDPESV---ELKWSEPNE 302 (341)
T ss_dssp TCCHHHHHHHHHHHCSHHHHHHHSCTTTSCCCTTCC--HHHHHHHHHSCCCCCTTTS---CCCCCCCCH
T ss_pred CccHHHHHHHHHHcCCHHHHHHHHHhcCCCCCcccc--hHHHHHHhCCCCCCCCccc---ccCCCCCCH
Confidence 999999999999999999999999866678899987 8899999999999998763 344444443
No 3
>3ory_A Flap endonuclease 1; hydrolase; 2.00A {Desulfurococcus amylolyticus}
Probab=100.00 E-value=7.1e-56 Score=474.55 Aligned_cols=295 Identities=20% Similarity=0.307 Sum_probs=257.4
Q ss_pred CCccccHHHHh-hccccc-ccccccCCEEEeeHHHHHHHHhccCcc------cccCCCcchhHHHHHHHHHHHHHHcCCe
Q 005869 1 MGIQGLLPLLK-SIMIPI-HIKELEGCCVAVDTYSWLHKGALSCSR------ELCKGLPTSRHIDYCMHRVNLLRHYGVK 72 (672)
Q Consensus 1 MGIkGL~~~Lk-~~~~~~-~Ls~lkGk~IAIDa~~WLhRg~~sca~------el~~G~pt~~~L~~~~~rI~~Ll~~gI~ 72 (672)
||| |||++|+ ++.+++ +|++|+|++|+|||++||||++++|.. ....|.+| +++.+++.++..|+.+||+
T Consensus 11 MGv-~L~~ll~~~~~~~~~~l~~l~gk~l~IDg~~~l~r~~~~~~~~~g~~l~~~~G~~T-~al~gf~~r~~~ll~~~i~ 88 (363)
T 3ory_A 11 MGV-DLKDIIPGEAKTVIEDLRILHGKIIVIDGYNALYQFLAAIRQPDGTPLMDNNGRIT-SHLSGLFYRTINIVEAGIK 88 (363)
T ss_dssp CSC-CCGGGCCGGGEEECSSGGGGTTCEEEEEHHHHHHHHHHHCBCTTSCBCBCTTSCBC-HHHHHHHHHHHHHHHTTCE
T ss_pred cCc-CHHHHhhHhcccccCCHHHhCCCEEEEehHHHHHHHHHhhhccCCCccCCCCCCCc-cHHHHHHHHHHHHHHcCCC
Confidence 999 9999999 577888 999999999999999999997766642 23567776 7899999998888889999
Q ss_pred eEEEEeCCCCchhhHHHHHHHHHHHHHHHHHHHHHHcCCchhhHHHHhhhcCCCHHHHHHHHHHHHHcCceEEEeccchH
Q 005869 73 PILIFDGGLLPMKIEQENKRARSRKENLARAIECESEGNSSASYEFYQKAVDISPSIAHELIQVLKQQNVSYIVAPYEAD 152 (672)
Q Consensus 73 PIfVFDG~~lp~K~~Te~kRr~~R~e~l~kA~e~~k~G~~~eA~e~f~kai~ITp~ma~~li~lLk~~GV~yIVAPYEAD 152 (672)
|+|||||.++++|+++..+|++.|++..+...+.++.|+.++|.++|+++++||++|+..++++|+.+||+|++||||||
T Consensus 89 Pv~VFDg~~p~~K~~~~~~yK~~R~~~~e~l~~~~~~g~~~~a~~~~~~~~~vt~~~~~~i~~lL~~~GIp~i~apgEAD 168 (363)
T 3ory_A 89 PVYVFDGKPPELKAREIERRKAVKEEAAKKYEEAVQSGDLELARRYAMMSAKLTEEMVRDAKSLLDAMGIPWVQAPAEGE 168 (363)
T ss_dssp EEEEECSSCGGGCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHTCCCCCCCHHHHHHHHHHHHHHTCCEEECSSCHH
T ss_pred cEEEEcCCCccchHHHHHHHHHhhhhchHHHHHHHHcCCHHHHHHHHhccccCCHHHHHHHHHHHHHCCCCEEEeCccHH
Confidence 99999999999999999999999998888887888899999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHcCCeEEEEcCCCCeecccCCeEEEecccCCC--------ceEEEeeccccccccccCCCCHHHHHHHHHHhC
Q 005869 153 AQMTFLAVSKQVEAVITEDSDLIPFGCSRIIFKMDKFGQ--------GVEFQCSMLQKNKDLSFGGFTKQMLLEMCILSG 224 (672)
Q Consensus 153 AQLAyLa~~G~VDaVISeDSDlLlFG~~kVI~kLD~~g~--------~vei~~~~i~~~~~L~~lGlt~dqFidlcILsG 224 (672)
||||+|++.|++++|+|+|+|+|+||+++|+++++..+. ++++....++...+++.+|++++||+|+|+|+|
T Consensus 169 aqiA~La~~g~~~~I~S~D~D~l~fg~~~v~~~l~~~~~~~~p~~~~~v~~~~~~~~~~~v~~~~gl~~~q~id~~~L~G 248 (363)
T 3ory_A 169 AQAAYIVKKGDAYASASQDYDSLLFGSPKLVRNLTISGRRKLPRKNEYVEVKPELIELDKLLVQLGITLENLIDIGILLG 248 (363)
T ss_dssp HHHHHHHHTTSCSEEECSSSHHHHTTCSEEEESTTTCEEEECSSTTCEEEECCEEEEHHHHHHHHTCCHHHHHHHHHHHC
T ss_pred HHHHHHHHCCCeEEEECCCcCccccCCCeEEEEeeccccccCCccccccccceEEEcHHHHHHHhCcCHHHHHHHHHHhC
Confidence 999999999999999999999999999999999876542 223334567778888999999999999999999
Q ss_pred CCCCC-CCCCCcHHHHHHHHHHhCCHHHHHHHhhhCCCCCCchhHHHHHHHHHHcCCCeeeCCCCCceeecCCCCCCCCC
Q 005869 225 CDYLQ-SLPGMGLKRAHALISKFKSYDKVIKHLKYSTVSVPPFYEESFGKAVLTFQHQRVYDPKTEDIVHLSCISDNIGN 303 (672)
Q Consensus 225 cDYlp-gIpGIG~KtA~kLIkky~sle~Il~~L~~~~~~vP~~Y~e~FrkA~~tFkhq~VfdP~~~~lV~L~~~p~~~~~ 303 (672)
|||+| ||||||+|||++||++|+++|+|++++... .+|- .|.+++..|+++.|.|.. .|.|-.+|...
T Consensus 249 sDy~p~GVpGIG~KtA~kLl~~~gsle~il~~~~~~--~~~~----~~~~~~~~f~~p~v~~~~-----~~~w~~pd~~~ 317 (363)
T 3ory_A 249 TDYNPDGFEGIGPKKALQLVKAYGGIEKIPKPILKS--PIEV----DVIAIKKYFLQPQVTDNY-----RIEWHTPDPDA 317 (363)
T ss_dssp BTTBTTCSTTCCHHHHHHHHHHHTSSTTSCGGGCCC--SSCC----CHHHHHHHHHSCCCCSCC-----CCCCCCCCHHH
T ss_pred CCCCCCCCCCcCHHHHHHHHHHcCCHHHHHHhcccc--cCCC----CHHHHHHHhcCCCCCCCC-----CCCCCCCCHHH
Confidence 99999 999999999999999999999999998642 2332 368999999999998722 36665555544
Q ss_pred Cchhh
Q 005869 304 DLDFL 308 (672)
Q Consensus 304 ~ldfl 308 (672)
..+||
T Consensus 318 l~~fl 322 (363)
T 3ory_A 318 VKRIL 322 (363)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 44555
No 4
>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=1.3e-56 Score=475.47 Aligned_cols=271 Identities=23% Similarity=0.322 Sum_probs=242.9
Q ss_pred CCccccHHHHhhcccccccccccCCEEEeeHHHHHHHHhccCcc------cccCCCcchhHHHHHHHHHHHHHHcCCeeE
Q 005869 1 MGIQGLLPLLKSIMIPIHIKELEGCCVAVDTYSWLHKGALSCSR------ELCKGLPTSRHIDYCMHRVNLLRHYGVKPI 74 (672)
Q Consensus 1 MGIkGL~~~Lk~~~~~~~Ls~lkGk~IAIDa~~WLhRg~~sca~------el~~G~pt~~~L~~~~~rI~~Ll~~gI~PI 74 (672)
||| |||+|| +.++.++++|+|++|||||++||||++++|.. ....|.++ .++.+++.++..|++++|+||
T Consensus 1 MGI-gL~~~l--~~~~~~l~~l~g~~l~ID~~~~l~r~~~a~~~~~~~~l~~~~G~~t-~~l~g~~~~l~~ll~~~i~pv 76 (340)
T 1b43_A 1 MGV-PIGEII--PRKEIELENLYGKKIAIDALNAIYQFLSTIRQKDGTPLMDSKGRIT-SHLSGLFYRTINLMEAGIKPV 76 (340)
T ss_dssp -CC-CCGGGC--CCEECCGGGGTTCEEEEEHHHHHHHHHHHSBCTTSCBCBCTTSCBC-HHHHHHHHHHHHHHHTTCEEE
T ss_pred CCC-ChHHHh--cccccCHHHhCCCEEEEEhHHHHHHHHHHhccccCCccccccCCch-HHHHHHHHHHHHHHhCCCEEE
Confidence 999 999999 77889999999999999999999999888852 23467775 688899999888899999999
Q ss_pred EEEeCCCCchhhHHHHHHHHHHHHHHHHHHHHHHcCCchhhHHHHhhhcCCCHHHHHHHHHHHHHcCceEEEeccchHHH
Q 005869 75 LIFDGGLLPMKIEQENKRARSRKENLARAIECESEGNSSASYEFYQKAVDISPSIAHELIQVLKQQNVSYIVAPYEADAQ 154 (672)
Q Consensus 75 fVFDG~~lp~K~~Te~kRr~~R~e~l~kA~e~~k~G~~~eA~e~f~kai~ITp~ma~~li~lLk~~GV~yIVAPYEADAQ 154 (672)
|||||..++.|+++..+|+++|+++.+++.+.|++|+.+++.+++++++++++.++..++++|+.+||+|++||||||||
T Consensus 77 ~VFDG~~~~~K~~~~~~R~~~r~~~~~~~~~~yk~g~~~~~~~~~~~~~~vt~~~~~~~~~lL~~~gip~i~ap~EADa~ 156 (340)
T 1b43_A 77 YVFDGEPPEFKKKELEKRREAREEAEEKWREALEKGEIEEARKYAQRATRVNEMLIEDAKKLLELMGIPIVQAPSEGEAQ 156 (340)
T ss_dssp EEECCSCCCCSSCSSTTCCCCTTHHHHHHHHHHHHSCHHHHHHHHHTSGGGTHHHHHHHHHHHHHHTCCEEECSSCHHHH
T ss_pred EEecCCCchhhhhhHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCcEEEcChhHHHH
Confidence 99999999999999999999888888777778999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHcCCeEEEEcCCCCeecccCCeEEEecccCCCc--------eEEEeeccccccccccCCCCHHHHHHHHHHhCCC
Q 005869 155 MTFLAVSKQVEAVITEDSDLIPFGCSRIIFKMDKFGQG--------VEFQCSMLQKNKDLSFGGFTKQMLLEMCILSGCD 226 (672)
Q Consensus 155 LAyLa~~G~VDaVISeDSDlLlFG~~kVI~kLD~~g~~--------vei~~~~i~~~~~L~~lGlt~dqFidlcILsGcD 226 (672)
||+|++.|++++|+|+|+|+|+||+++|+++++..|.+ +++....++...+++.+|++++||+++|+|+|||
T Consensus 157 iA~La~~g~~~~i~S~D~D~l~~g~~~v~~~~~~~~~~~~p~~~~~v~~~~~~~~~~~v~~~~gl~~~q~id~~~L~G~D 236 (340)
T 1b43_A 157 AAYMAAKGSVYASASQDYDSLLFGAPRLVRNLTITGKRKLPGKNVYVEIKPELIILEEVLKELKLTREKLIELAILVGTD 236 (340)
T ss_dssp HHHHHHHTSSSEEECSSSHHHHTTCSEEEESTTTCEEEECTTSSCEEEECCEEEEHHHHHHHHTCCHHHHHHHHHHHCCT
T ss_pred HHHHHHcCCEEEEEccCCCcceecCcEEEEEeccCCCccCcccccccccceeEEEHHHHHHHhCCCHHHHHHHHHhcCCC
Confidence 99999999999999999999999999999999876432 2223445777888899999999999999999999
Q ss_pred CCC-CCCCCcHHHHHHHHHHhCCHHHHHHHhhhCCCCCCchhHHHHHHHHHHcCCCeeeC
Q 005869 227 YLQ-SLPGMGLKRAHALISKFKSYDKVIKHLKYSTVSVPPFYEESFGKAVLTFQHQRVYD 285 (672)
Q Consensus 227 Ylp-gIpGIG~KtA~kLIkky~sle~Il~~L~~~~~~vP~~Y~e~FrkA~~tFkhq~Vfd 285 (672)
|+| ||||||+|||++||++|+++++++++.. +|. ++++..+|+|+.|.|
T Consensus 237 y~p~gv~GiG~ktA~kli~~~gsle~il~~~~--------~~~--~~~~~~~~~~~~v~d 286 (340)
T 1b43_A 237 YNPGGIKGIGLKKALEIVRHSKDPLAKFQKQS--------DVD--LYAIKEFFLNPPVTD 286 (340)
T ss_dssp TSTTCSTTCCHHHHHHHHHTCSSGGGGTGGGC--------SSC--HHHHHHHHHSCCCCC
T ss_pred CCCCCCCCccHHHHHHHHHHcCCHHHHHcCCC--------Ccc--HHHHHHHHhCCCCCC
Confidence 999 9999999999999999999999987743 331 678999999999988
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=7.2e-54 Score=461.06 Aligned_cols=283 Identities=27% Similarity=0.388 Sum_probs=222.3
Q ss_pred CccccHHHHhhcc----cccccccccCCEEEeeHHHHHHHHhccCcc---cc--cCCCcchhHHHHHHHHHHHHHHcCCe
Q 005869 2 GIQGLLPLLKSIM----IPIHIKELEGCCVAVDTYSWLHKGALSCSR---EL--CKGLPTSRHIDYCMHRVNLLRHYGVK 72 (672)
Q Consensus 2 GIkGL~~~Lk~~~----~~~~Ls~lkGk~IAIDa~~WLhRg~~sca~---el--~~G~pt~~~L~~~~~rI~~Ll~~gI~ 72 (672)
||+|||+||++.. ++++|++|+|++|+|||++||||+++++.. .+ ..|.++ .++.+++.++..|+++||+
T Consensus 1 GI~GL~~~L~~~~~~~~~~~~l~~l~g~~l~IDg~~~lyr~~~a~~~~~~~l~~~~G~~t-~~l~g~~~~~~~ll~~~i~ 79 (379)
T 1ul1_X 1 GIQGLAKLIADVAPSAIRENDIKSYFGRKVAIDASMSIYQFLIAVRQGGDVLQNEEGETT-SHLMGMFYRTIRMMENGIK 79 (379)
T ss_dssp CCTTHHHHHHTTCTTSCCEECGGGGTTCCEEEEHHHHHHHHHSCC-------------CC-HHHHHHHHHHHHHHHTTCC
T ss_pred CcChhHHHHHHhccccceeeCHHHcCCCEEEEEchHHHHHHHHhCCCcccccCcCCCCCc-hHHHHHHHHHHHHHHCCCC
Confidence 9999999999864 688999999999999999999999888752 12 467765 7899999999999999999
Q ss_pred eEEEEeCCCCchhhHHHHHHHHHHHHHHHHHHHHHHcCCchhhHHHHhhhcCCCHHHHHHHHHHHHHcCceEEEeccchH
Q 005869 73 PILIFDGGLLPMKIEQENKRARSRKENLARAIECESEGNSSASYEFYQKAVDISPSIAHELIQVLKQQNVSYIVAPYEAD 152 (672)
Q Consensus 73 PIfVFDG~~lp~K~~Te~kRr~~R~e~l~kA~e~~k~G~~~eA~e~f~kai~ITp~ma~~li~lLk~~GV~yIVAPYEAD 152 (672)
|+|||||..+++|+++..+|++.|.+..+.+++++..|+.+++.+++++++.||++|+..++++|+.+||+|++||||||
T Consensus 80 P~~VFDG~~~~~K~~~~~~yk~~R~~~~~~~~~~~~~g~~~~~~~~~~~~~~vt~~~~~~~~~lL~~~Gi~~i~apgEAD 159 (379)
T 1ul1_X 80 PVYVFDGKPPQLKSGELAKRSERRAEAEKQLQQAQAAGAEQEVEKFTKRLVKVTKQHNDECKHLLSLMGIPYLDAPSEAE 159 (379)
T ss_dssp EEEEECCSCCSCCCCCCCCC-----------------------------CCCCCCSCHHHHHHHHHHHTCCEEECSSCHH
T ss_pred eEEEEeCCCcccccchHHHHHhhhhHHHHHHHHHHHcCCHHHHHHHHhhccCCCHHHHHHHHHHHHHcCCCeecCCCcHH
Confidence 99999999999999998889888888888888888899998888899999999999999999999999999999999999
Q ss_pred HHHHHHHHcCCeEEEEcCCCCeecccCCeEEEecccCCCceEEEeeccccccccccCCCCHHHHHHHHHHhCCCCCCCCC
Q 005869 153 AQMTFLAVSKQVEAVITEDSDLIPFGCSRIIFKMDKFGQGVEFQCSMLQKNKDLSFGGFTKQMLLEMCILSGCDYLQSLP 232 (672)
Q Consensus 153 AQLAyLa~~G~VDaVISeDSDlLlFG~~kVI~kLD~~g~~vei~~~~i~~~~~L~~lGlt~dqFidlcILsGcDYlpgIp 232 (672)
||||+|++.|.+++|+|+|+|+|+||+++|+++++..+.+. .....++...+++.+|++++||+++|+|+||||+++||
T Consensus 160 d~iA~La~~g~~~~iiS~D~Dll~~g~~~v~~~~~~~~~~k-~~~~~~~~~~v~~~~gl~~~q~id~~~L~G~D~~d~Ip 238 (379)
T 1ul1_X 160 ASCAALVKAGKVYAAATEDMDCLTFGSPVLMRHLTASEAKK-LPIQEFHLSRILQELGLNQEQFVDLCILLGSDYCESIR 238 (379)
T ss_dssp HHHHHHHHHTSSSEEECSCTHHHHTTCSEEEECSSCCC-CC-CCEEEEEHHHHHHHHTCCHHHHHHHHHHHHCSSSCCCT
T ss_pred HHHHHHHhcCCeEEEEecCcCccccccceEEEEecccccCc-CCeEEEeHHHHHHHhCCCHHHHHHHHHHhCCCcCCCCC
Confidence 99999999999999999999999999999999987543211 11234666778889999999999999999999999999
Q ss_pred CCcHHHHHHHHHHhCCHHHHHHHhhhCCCCCCchhHHHHHHHHHHcCCCeeeCCCC
Q 005869 233 GMGLKRAHALISKFKSYDKVIKHLKYSTVSVPPFYEESFGKAVLTFQHQRVYDPKT 288 (672)
Q Consensus 233 GIG~KtA~kLIkky~sle~Il~~L~~~~~~vP~~Y~e~FrkA~~tFkhq~VfdP~~ 288 (672)
|||+|||++||++|+++|+|+++++.....+|++|. |.+|+.+|.|+.|.++..
T Consensus 239 GIG~KtA~kLl~~~gsle~i~~~~~~~k~~~~~~~~--~~~ar~l~l~~~v~~~~~ 292 (379)
T 1ul1_X 239 GIGPKRAVDLIQKHKSIEEIVRRLDPNKYPVPENWL--HKEAHQLFLEPEVLDPES 292 (379)
T ss_dssp TCCHHHHHHHHHHSSSHHHHHTTCCCTTSCCCSSCC--HHHHHHHHHSCCCCCGGG
T ss_pred CcCHHHHHHHHHHcCCHHHHHHHHHhhcccCCCcCC--HHHHHHHhcCCeeCCCCC
Confidence 999999999999999999999999865567888884 557999999999988753
No 6
>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=1e-51 Score=437.17 Aligned_cols=271 Identities=23% Similarity=0.345 Sum_probs=233.7
Q ss_pred CCccccHHHHhhcccccccccccCCEEEeeHHHHHHHHhccCcc------cccCCCcchhHHHHHHHHHHHHHHcCCeeE
Q 005869 1 MGIQGLLPLLKSIMIPIHIKELEGCCVAVDTYSWLHKGALSCSR------ELCKGLPTSRHIDYCMHRVNLLRHYGVKPI 74 (672)
Q Consensus 1 MGIkGL~~~Lk~~~~~~~Ls~lkGk~IAIDa~~WLhRg~~sca~------el~~G~pt~~~L~~~~~rI~~Ll~~gI~PI 74 (672)
||| |||++| ..++.++++|+|++|+|||++||||++++++. ....|.++ .++.+++.++..|++++|+|+
T Consensus 1 MGI-~L~~~l--~~~~~~l~~l~~~~l~IDg~~~l~r~~~a~~~~~~~~l~~~~G~~t-~a~~g~~~~l~~ll~~~i~Pv 76 (336)
T 1rxw_A 1 MGA-DIGDLF--EREEVELEYFSGKKIAVDAFNTLYQFISIIRQPDGTPLKDSQGRIT-SHLSGILYRVSNMVEVGIRPV 76 (336)
T ss_dssp --C-TGGGGC--CCEECCGGGGTTCEEEEEHHHHHHHHHHHSBCTTSCBCBCTTSCBC-HHHHHHHHHHHHHHHHTCEEE
T ss_pred CCC-ChHHHH--hcceeCHHHhCCCEEEEEhHHHHHHHHHhhccccCCcccccCCCcc-HHHHHHHHHHHHHHHCCCEEE
Confidence 999 999999 67899999999999999999999999888752 23567775 788999999999999999999
Q ss_pred EEEeCCCCchhhHHHHHHHHHHHHHHHHHHHHHHcCCchhhHHHHhhhcCCCHHHHHHHHHHHHHcCceEEEeccchHHH
Q 005869 75 LIFDGGLLPMKIEQENKRARSRKENLARAIECESEGNSSASYEFYQKAVDISPSIAHELIQVLKQQNVSYIVAPYEADAQ 154 (672)
Q Consensus 75 fVFDG~~lp~K~~Te~kRr~~R~e~l~kA~e~~k~G~~~eA~e~f~kai~ITp~ma~~li~lLk~~GV~yIVAPYEADAQ 154 (672)
|||||..++.|+++..+|++.|.+..+.+.+..+.|+ +++..++++++.||++++..++++|+.+||+|++||||||||
T Consensus 77 ~vFDg~~~~~R~~~~~~yk~~R~~~~~~~~~~~~~g~-~~l~~~~~~~~~vt~~~~~~~~~lL~~~gi~~i~apgeAEA~ 155 (336)
T 1rxw_A 77 FVFDGEPPEFKKAEIEERKKRRAEAEEMWIAALQAGD-KDAKKYAQAAGRVDEYIVDSAKTLLSYMGIPFVDAPSEGEAQ 155 (336)
T ss_dssp EEECCSCCGGGHHHHHHHHHHHHHHHHHHHHHHHHTC-TTHHHHHHHHCCCCHHHHHHHHHHHHHTTCCEEECSSCHHHH
T ss_pred EEEcCCCCcccccchHHHHHHHHHHHHHHHHHHHhch-HHHHHHHHhhccCCHHHHHHHHHHHHhCCCCEEEcCchHHHH
Confidence 9999999999999999999999887777777778888 788888999999999999999999999999999999999999
Q ss_pred HHHHHHcCCeEEEEcCCCCeecccCCeEEEecccCCCc------e--EEEeeccccccccccCCCCHHHHHHHHHHhCCC
Q 005869 155 MTFLAVSKQVEAVITEDSDLIPFGCSRIIFKMDKFGQG------V--EFQCSMLQKNKDLSFGGFTKQMLLEMCILSGCD 226 (672)
Q Consensus 155 LAyLa~~G~VDaVISeDSDlLlFG~~kVI~kLD~~g~~------v--ei~~~~i~~~~~L~~lGlt~dqFidlcILsGcD 226 (672)
||+|++.|++++|+|+|+|+++||+++|+++++..+.+ + ++....++...+++.+|++++||+++|+|+|||
T Consensus 156 lA~la~~g~~~~I~S~D~Dllql~~~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~gl~~~q~id~~~L~GsD 235 (336)
T 1rxw_A 156 AAYMAAKGDVEYTGSQDYDSLLFGSPRLARNLAITGKRKLPGKNVYVDVKPEIIILESNLKRLGLTREQLIDIAILVGTD 235 (336)
T ss_dssp HHHHHHTTSSSEEECSSSHHHHTTCSEEEESCCC-------------CCCCEEEEHHHHHHHHTCCHHHHHHHHHHHCBT
T ss_pred HHHHHHcCCeeEEEcCCCCcceecCCeEEEeccccccccCCccccccccceEEeEHHHHHHHcCCCHHHHHHHHhhcCCC
Confidence 99999999999999999999999999999998865432 0 112335677788899999999999999999999
Q ss_pred CCCCCCCCcHHHHHHHHHHhCCHHHHHHHhhhCCCCCCchhHHHHHHHHHHcCCCeee
Q 005869 227 YLQSLPGMGLKRAHALISKFKSYDKVIKHLKYSTVSVPPFYEESFGKAVLTFQHQRVY 284 (672)
Q Consensus 227 YlpgIpGIG~KtA~kLIkky~sle~Il~~L~~~~~~vP~~Y~e~FrkA~~tFkhq~Vf 284 (672)
|+|||||||+|||++||++|+++|+|++++.. ++. .+.+...+|.+.+|-
T Consensus 236 ~ipGv~GiG~KtA~kLl~~~gsle~i~~~~~~-------~l~-~~~~l~~i~~~~~v~ 285 (336)
T 1rxw_A 236 YNEGVKGVGVKKALNYIKTYGDIFRALKALKV-------NID-HVEEIRNFFLNPPVT 285 (336)
T ss_dssp TBCCCTTCCHHHHHHHHHHHSSHHHHHHHHTC------------CHHHHHHHHSCCCC
T ss_pred CCCCCCCcCHHHHHHHHHHcCCHHHHHHhCCC-------CCc-cHHHHHHHHhCCCCC
Confidence 99999999999999999999999999999862 121 223667788887775
No 7
>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=2.6e-53 Score=447.71 Aligned_cols=264 Identities=21% Similarity=0.314 Sum_probs=229.2
Q ss_pred CCccccHHHHhhcccccccccccCCEEEeeHHHHHHHHhccCcc------cccCCCcchhHHHHHHHHHHHHHHcCCeeE
Q 005869 1 MGIQGLLPLLKSIMIPIHIKELEGCCVAVDTYSWLHKGALSCSR------ELCKGLPTSRHIDYCMHRVNLLRHYGVKPI 74 (672)
Q Consensus 1 MGIkGL~~~Lk~~~~~~~Ls~lkGk~IAIDa~~WLhRg~~sca~------el~~G~pt~~~L~~~~~rI~~Ll~~gI~PI 74 (672)
||| |||++| +.++.++++|+|++|+|||++||||++++|+. ....|.++ .++.+++.++..|+.++|+|+
T Consensus 1 MGI-gL~~~l--~~~~~~l~~l~~~~l~IDg~~~l~r~~~a~~~~~~~~l~~~~G~~t-~~l~g~~~~l~~ll~~~i~Pv 76 (326)
T 1a76_A 1 MGV-QFGDFI--PKNIISFEDLKGKKVAIDGMNALYQFLTSIRLRDGSPLRNRKGEIT-SAYNGVFYKTIHLLENDITPI 76 (326)
T ss_dssp -CC-CCGGGS--CCEECCSGGGTTCEEEEEHHHHHHHHHHHSBCTTSCBCBCTTSCBC-HHHHHHHHHHHHHHHTTCEEE
T ss_pred CCC-ChHHHH--hhcccCHHHhCCCEEEEEhHHHHHHHHHhhccccccccccccCCcc-HHHHHHHHHHHHHHHCCCeEE
Confidence 999 999999 77889999999999999999999999988851 23467775 688888888888888999999
Q ss_pred EEEeCCCCchhhHHHHHHHHHHHHHHHHHHHHHHcCCchhhHHHHhhhcCCCHHHHHHHHHHHHHcCceEEEeccchHHH
Q 005869 75 LIFDGGLLPMKIEQENKRARSRKENLARAIECESEGNSSASYEFYQKAVDISPSIAHELIQVLKQQNVSYIVAPYEADAQ 154 (672)
Q Consensus 75 fVFDG~~lp~K~~Te~kRr~~R~e~l~kA~e~~k~G~~~eA~e~f~kai~ITp~ma~~li~lLk~~GV~yIVAPYEADAQ 154 (672)
|||||..++.|+++..+|++.|.+..+...++++.|+.++|.+++++++++|+.++..++++|+.+||+|++||||||||
T Consensus 77 ~vFDG~~~~~k~~~~~~yk~~R~~~~~~l~~~~~~g~~~~a~~~~~~~~~vt~~~~~~~~~lL~~~gi~~i~apgEAD~~ 156 (326)
T 1a76_A 77 WVFDGEPPKLKEKTRKVRREMKEKAELKMKEAIKKEDFEEAAKYAKRVSYLTPKMVENCKYLLSLMGIPYVEAPSEGEAQ 156 (326)
T ss_dssp EEECCCSSCCCCSSCCSSCSSSCSSCSCCCCCCSHHHHHTTSTTGGGGCSSCHHHHHHHHHHHHHHTCCEEECSSCHHHH
T ss_pred EEEeCcCcccchhhHHHHHHHHHhhHHHHHHHHHcCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCCeEECCccHHHH
Confidence 99999999999998888877665432222223344566677788899999999999999999999999999999999999
Q ss_pred HHHHHHcCCeEEEEcCCCCeecccCCeEEEecccCCCceEEEeeccccccccccCCCCHHHHHHHHHHhCCCCCC-CCCC
Q 005869 155 MTFLAVSKQVEAVITEDSDLIPFGCSRIIFKMDKFGQGVEFQCSMLQKNKDLSFGGFTKQMLLEMCILSGCDYLQ-SLPG 233 (672)
Q Consensus 155 LAyLa~~G~VDaVISeDSDlLlFG~~kVI~kLD~~g~~vei~~~~i~~~~~L~~lGlt~dqFidlcILsGcDYlp-gIpG 233 (672)
||+|++.|++++|+|+|+|+|+||+++|+++++..+..+ ..++...+++.+|++++||+++|+|+||||+| ||||
T Consensus 157 ia~La~~g~~~~I~S~D~Dll~~~~~~v~~~~~~~~~~~----~~~~~~~v~~~~gl~~~q~id~~~L~GsD~~p~GvpG 232 (326)
T 1a76_A 157 ASYMAKKGDVWAVVSQDYDALLYGAPRVVRNLTTTKEMP----ELIELNEVLEDLRISLDDLIDIAIFMGTDYNPGGVKG 232 (326)
T ss_dssp HHHHHHTTSSSEEECSSSGGGGGTCSEEEESSSSCSSCC----EEEEHHHHHHHHTCCHHHHHHHHHHHCCTTSTTTTTT
T ss_pred HHHHHHCCCEEEEecCCcccceecCCEEEEeecCCCCce----EEEEHHHHHHHcCCCHHHHHHHHHHcCCCCCCCCCCC
Confidence 999999999999999999999999999999998765432 23566778889999999999999999999999 9999
Q ss_pred CcHHHHHHHHHHhCCHHHHH-HHhhhCCCCCCchhHHHHHHHHHHcCCCeeeC
Q 005869 234 MGLKRAHALISKFKSYDKVI-KHLKYSTVSVPPFYEESFGKAVLTFQHQRVYD 285 (672)
Q Consensus 234 IG~KtA~kLIkky~sle~Il-~~L~~~~~~vP~~Y~e~FrkA~~tFkhq~Vfd 285 (672)
||+|||++||++ +++++++ +++. .|++++.+|+|+.|.+
T Consensus 233 iG~ktA~kli~~-gsle~i~~~~~~------------~~~~~~~~~l~~~l~~ 272 (326)
T 1a76_A 233 IGFKRAYELVRS-GVAKDVLKKEVE------------YYDEIKRIFKEPKVTD 272 (326)
T ss_dssp CCHHHHHHHHHH-TCHHHHHHHHST------------THHHHHHHHHSCCCCC
T ss_pred cCHHHHHHHHHc-CCHHHHHHHHHh------------HHHHHHHHHhCCCCCC
Confidence 999999999999 9999999 8874 3468889999999987
No 8
>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=3.3e-52 Score=442.98 Aligned_cols=274 Identities=24% Similarity=0.340 Sum_probs=187.6
Q ss_pred HHhhcccccccccccCCEEEeeHHHHHHHHhccCcc------cccCCCcchhHHHHHHHHHHHHHHcCCeeEEEEeCCCC
Q 005869 9 LLKSIMIPIHIKELEGCCVAVDTYSWLHKGALSCSR------ELCKGLPTSRHIDYCMHRVNLLRHYGVKPILIFDGGLL 82 (672)
Q Consensus 9 ~Lk~~~~~~~Ls~lkGk~IAIDa~~WLhRg~~sca~------el~~G~pt~~~L~~~~~rI~~Ll~~gI~PIfVFDG~~l 82 (672)
+++++.++++|++|+|++|+|||++||||++++++. ....|.++ .++.+++.++..|+++||+|+|||||..+
T Consensus 3 ~~~~~~~~~~l~~l~~~~l~IDg~~~l~r~~~a~~~~~g~~l~~~~G~~t-~al~g~~~~~~~ll~~~i~Pv~vFDG~~~ 81 (346)
T 2izo_A 3 LVKDVKRELSFSELKGKRVSIDGYNALYQFLAAIRQPDGTPLMDSQGRVT-SHLSGLFYRTINILEEGVIPIYVFDGKPP 81 (346)
T ss_dssp CCCCCCEECCHHHHTTEEEEEEHHHHHHHHHHSCCCC---CCBCSSSCBC-HHHHHHHHHHHHHHHHTEEEEEEECC---
T ss_pred cCCCCcccCCHHHhCCCEEEEEhHHHHHHHHHhccccccccccccCCCcc-HHHHHHHHHHHHHHHCCCcEEEEECCCCc
Confidence 456788899999999999999999999999998852 23467775 78899999998899999999999999999
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHcCCchhhHHHHhhhcCCCHHHHHHHHHHHHHcCceEEEeccchHHHHHHHHHcC
Q 005869 83 PMKIEQENKRARSRKENLARAIECESEGNSSASYEFYQKAVDISPSIAHELIQVLKQQNVSYIVAPYEADAQMTFLAVSK 162 (672)
Q Consensus 83 p~K~~Te~kRr~~R~e~l~kA~e~~k~G~~~eA~e~f~kai~ITp~ma~~li~lLk~~GV~yIVAPYEADAQLAyLa~~G 162 (672)
++|+++..+|++.|.+..+...+++..|+.++|.+++++++++|+.++..++++|+.+||+|++||||||||||+|++.|
T Consensus 82 ~~r~~~~~~yk~~R~~~~~~l~~~~~~g~~~~a~~~~~~~~~vt~~~~~~~~~lL~~~gi~~i~ap~EADa~ia~La~~g 161 (346)
T 2izo_A 82 EQKSEELERRRKAKEEAERKLERAKSEGKIEELRKYSQAILRLSNIMVEESKKLLRAMGIPIVQAPSEGEAEAAYLNKLG 161 (346)
T ss_dssp -------------------------------------------CHHHHHHHHHHHHHHTCCEEECSSCHHHHHHHHHHTT
T ss_pred chhhhHHHHHHHHHHHhHHHHHHHHhcCCHHHHHHHHhhccCCCHHHHHHHHHHHHHCCCCEEEcCCcHHHHHHHHHhCC
Confidence 99999999999988877666666788899999999999999999999999999999999999999999999999999999
Q ss_pred CeEEEEcCCCCeecccCCeEEEecccCCCce--------EEEeeccccccccccCCCCHHHHHHHHHHhCCCCCC-CCCC
Q 005869 163 QVEAVITEDSDLIPFGCSRIIFKMDKFGQGV--------EFQCSMLQKNKDLSFGGFTKQMLLEMCILSGCDYLQ-SLPG 233 (672)
Q Consensus 163 ~VDaVISeDSDlLlFG~~kVI~kLD~~g~~v--------ei~~~~i~~~~~L~~lGlt~dqFidlcILsGcDYlp-gIpG 233 (672)
++++|+|+|+|+|+||+++|+++++..|.+. ++....++...+++.+|++++||+++|+|+||||+| ||||
T Consensus 162 ~~~~I~S~D~D~l~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~v~~~~gl~~~q~id~~~L~G~D~~p~Gv~G 241 (346)
T 2izo_A 162 LSWAAASQDYDAILFGAKRLVRNLTITGKRKLPNKDVYVEIKPELIETEILLKKLGITREQLIDIGILIGTDYNPDGIRG 241 (346)
T ss_dssp SSSEEECSSSHHHHTTCSEEEESSCC-----------CCCCCCEEEEHHHHHHHHTCCHHHHHHHHHHHCCSSSTTCSTT
T ss_pred CeEEEECCCCCcceecCCeEEEEecccccccCcccccccccceEEEEHHHHHHHcCCCHHHHHHHHHHcCCCCCCCCCCC
Confidence 9999999999999999999999997654321 112334677788899999999999999999999999 9999
Q ss_pred CcHHHHHHHHHHhCCHHHHHHHhhhCCCCCCchhHHHHHHHHHHcCCCeeeCCC
Q 005869 234 MGLKRAHALISKFKSYDKVIKHLKYSTVSVPPFYEESFGKAVLTFQHQRVYDPK 287 (672)
Q Consensus 234 IG~KtA~kLIkky~sle~Il~~L~~~~~~vP~~Y~e~FrkA~~tFkhq~VfdP~ 287 (672)
||+|||++||++|+++++|+++++.. .+|++|. |+++..+|+|++|.++.
T Consensus 242 IG~KtA~kLi~~~gsle~i~~~~~~~--k~~~~~~--~~~l~~i~~~~~v~~~~ 291 (346)
T 2izo_A 242 IGPERALKIIKKYGKIEKAMEYGEIS--KKDINFN--IDEIRGLFLNPQVVKPE 291 (346)
T ss_dssp CCHHHHHHHHHHSSCC---------------------CTTHHHHHHSCCCCCCC
T ss_pred cCHHHHHHHHHHcCCHHHHHHHHHhc--cCCCCcc--HHHHHHHhhCCCCCCcc
Confidence 99999999999999999999998754 4777875 89999999999998773
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=99.97 E-value=2.2e-32 Score=284.93 Aligned_cols=221 Identities=13% Similarity=0.167 Sum_probs=159.2
Q ss_pred cccHHHHhhcccccccccccCCEEEeeHHHHHHHHhccCcccccCCCcchhHHHHHHHHHHHHHHc-CC-eeEEEEeCCC
Q 005869 4 QGLLPLLKSIMIPIHIKELEGCCVAVDTYSWLHKGALSCSRELCKGLPTSRHIDYCMHRVNLLRHY-GV-KPILIFDGGL 81 (672)
Q Consensus 4 kGL~~~Lk~~~~~~~Ls~lkGk~IAIDa~~WLhRg~~sca~el~~G~pt~~~L~~~~~rI~~Ll~~-gI-~PIfVFDG~~ 81 (672)
+||-.+|.. +...++. .++.++|||++|+||++++ ..|.| ++.+|++++..|+.. +. .+++||||..
T Consensus 2 ~~~~~~~~~--~~~~~~~-~~~lllIDg~~llyRa~~~-----~~G~p---av~Gf~~~l~~ll~~~~p~~~vvvFD~~~ 70 (290)
T 1exn_A 2 KSWGKFIEE--EEAEMAS-RRNLMIVDGTNLGFRFKHN-----NSKKP---FASSYVSTIQSLAKSYSARTTIVLGDKGK 70 (290)
T ss_dssp --------------------CEEEEEEHHHHHHHHHHH-----CSSSC---CHHHHHHHHHHHHHHTTEEEEEEECCBSC
T ss_pred cchHHHhhh--ccccccc-CCCEEEEECcHHHHHHHhC-----CCCch---HHHHHHHHHHHHHHHcCCCeEEEEEcCCC
Confidence 467777733 4455666 7889999999999998772 45766 788999998877654 32 2489999887
Q ss_pred CchhhHHHHHHHHHHHHHHHHHHHHHHcCCchhhHHHHhhhcCCCHHHHHHHHHHHHH--cCceEEEec-cchHHHHHHH
Q 005869 82 LPMKIEQENKRARSRKENLARAIECESEGNSSASYEFYQKAVDISPSIAHELIQVLKQ--QNVSYIVAP-YEADAQMTFL 158 (672)
Q Consensus 82 lp~K~~Te~kRr~~R~e~l~kA~e~~k~G~~~eA~e~f~kai~ITp~ma~~li~lLk~--~GV~yIVAP-YEADAQLAyL 158 (672)
+.++++...+++..|.+.-+ ... .+.+ ++.++|+..++++|+. +||+++.+| ||||++||+|
T Consensus 71 ~tfR~~~~~~YKa~R~~~p~--------~~~-~~~e------~L~~q~~~~ikell~~~~~gip~i~~~g~EADDviatL 135 (290)
T 1exn_A 71 SVFRLEHLPEYKGNRDEKYA--------QRT-EEEK------ALDEQFFEYLKDAFELCKTTFPTFTIRGVEADDMAAYI 135 (290)
T ss_dssp CHHHHHHCTTTTHHHHHHHH--------TSC-HHHH------HHHHHHHHHHHHHHHHHTTTSCEECCTTBCHHHHHHHH
T ss_pred chhhhhCcHHHHcCCCCCCc--------ccc-ccch------hHHHhhHHHHHHHHHhhCCCCcEEEECCcCHHHHHHHH
Confidence 77776655555444433110 011 1111 1223446789999999 999999999 6999999999
Q ss_pred HHc----CCeEEEEcCCCCeecccCCeE-EEecccCCCceEEEeeccccccccccCCCCH-HHHHHHHHHhC--CCCCCC
Q 005869 159 AVS----KQVEAVITEDSDLIPFGCSRI-IFKMDKFGQGVEFQCSMLQKNKDLSFGGFTK-QMLLEMCILSG--CDYLQS 230 (672)
Q Consensus 159 a~~----G~VDaVISeDSDlLlFG~~kV-I~kLD~~g~~vei~~~~i~~~~~L~~lGlt~-dqFidlcILsG--cDYlpg 230 (672)
++. |....|+|+|+|+++|++++| +++.. . ...++...+++.+|+++ +||+|+|+|+| |||+||
T Consensus 136 a~~~~~~G~~v~IvS~DkDl~Qlv~~~v~v~~~~---~-----~~~~~~~~v~ek~Gv~p~~q~iD~~~L~GD~sDniPG 207 (290)
T 1exn_A 136 VKLIGHLYDHVWLISTDGDWDTLLTDKVSRFSFT---T-----RREYHLRDMYEHHNVDDVEQFISLKAIMGDLGDNIRG 207 (290)
T ss_dssp HHHHGGGSSCEEEECSCGGGGGGCCSSEEEEETT---T-----TEEECGGGHHHHHSSSSHHHHHHHHHHHCBGGGTBCC
T ss_pred HHHHHHCCCcEEEEeCCCChhhcCCCCEEEEECC---C-----CEEEcHHHHHHHcCCCHHHHHHHHHHhcCCCcCCCCC
Confidence 985 777789999999999999877 33321 1 12355667788899999 99999999999 999999
Q ss_pred CCCCcHHHHHHHHHHhCCHHHHHHHhhh
Q 005869 231 LPGMGLKRAHALISKFKSYDKVIKHLKY 258 (672)
Q Consensus 231 IpGIG~KtA~kLIkky~sle~Il~~L~~ 258 (672)
|||||+|||.+||++|+++|+|++++..
T Consensus 208 VpGIG~KTA~kLL~~~gsle~i~~~~~~ 235 (290)
T 1exn_A 208 VEGIGAKRGYNIIREFGNVLDIIDQLPL 235 (290)
T ss_dssp CTTCCHHHHHHHHHHHCSHHHHHHHCSC
T ss_pred CCcCCHhHHHHHHHHcCCHHHHHHHHHH
Confidence 9999999999999999999999999863
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=99.97 E-value=8e-34 Score=331.19 Aligned_cols=211 Identities=19% Similarity=0.219 Sum_probs=175.2
Q ss_pred ccccccccCCEEEeeHHHHHHHHhccCcc-cccCCCcchhHHHHHHHHHHHHH-HcCCeeEEEEeCCCCchhhHHHHHHH
Q 005869 16 PIHIKELEGCCVAVDTYSWLHKGALSCSR-ELCKGLPTSRHIDYCMHRVNLLR-HYGVKPILIFDGGLLPMKIEQENKRA 93 (672)
Q Consensus 16 ~~~Ls~lkGk~IAIDa~~WLhRg~~sca~-el~~G~pt~~~L~~~~~rI~~Ll-~~gI~PIfVFDG~~lp~K~~Te~kRr 93 (672)
+++|++|+|++|+|||++|+||++++|+. ....|.|| .++.+|++++..|+ .+++.|+|||||..+++|+++..
T Consensus 4 ~~~l~~~~~~~llIDg~~~l~ra~~a~~~l~~~~G~~t-~av~gf~~~l~~ll~~~~~~~v~vFDg~~~tfR~~~~~--- 79 (832)
T 1bgx_T 4 MLPLFEPKGRVLLVDGHHLAYRTFHALKGLTTSRGEPV-QAVYGFAKSLLKALKEDGDAVIVVFDAKAPSFRHEAYG--- 79 (832)
T ss_dssp SSCCCCCCTTSCCCCCSTHHHHTTSSCTTCBCSSSCBC-SSSTTHHHHHHHGGGTCCSCCCCCCCCSSSCSSSGGGG---
T ss_pred ccCHHHhCCCEEEEEChHHHHHHHhcCCccccCCCcEe-hHHHHHHHHHHHHHHHcCCeEEEEEcCCCccccccchH---
Confidence 57899999999999999999999999863 34578886 67888888887665 45699999999988888776533
Q ss_pred HHHHHHHHHHHHHHHcCCchhhHHHHhhhcCCCHHHHHHHHHHHHHcCceEEEec-cchHHHHHHHHH----cCCeEEEE
Q 005869 94 RSRKENLARAIECESEGNSSASYEFYQKAVDISPSIAHELIQVLKQQNVSYIVAP-YEADAQMTFLAV----SKQVEAVI 168 (672)
Q Consensus 94 ~~R~e~l~kA~e~~k~G~~~eA~e~f~kai~ITp~ma~~li~lLk~~GV~yIVAP-YEADAQLAyLa~----~G~VDaVI 168 (672)
.|+.++.+.+.++. .++..++++|+.+||+|+++| ||||+|||+|++ .|+.++|+
T Consensus 80 ------------~YKa~R~~~pe~l~--------~q~~~i~~~l~~~gi~~i~~pg~EADD~iatLa~~~~~~G~~v~Iv 139 (832)
T 1bgx_T 80 ------------GYKAGRAPTPEDFP--------RQLALIKELVDLLGLARLEVPGYEADDVLASLAKKAEKEGYEVRIL 139 (832)
T ss_dssp ------------TTTSCCCCCCTTST--------TGGGTHHHHHHHTTCCCCCCSSSCHHHHHHHHHHHHHHHTCCBCCC
T ss_pred ------------HHHhccccChHHHH--------HHHHHHHHHHHHCCCCEEEeCCccHHHHHHHHHHHHHHcCCeEEEE
Confidence 35555544332221 235678999999999999999 699999999988 68888999
Q ss_pred cCCCCeecccCCeEEEecccCCCceEEEeeccccccccccCCCCHHHHHHHHHHhC--CCCCCCCCCCcHHHHHHHHHHh
Q 005869 169 TEDSDLIPFGCSRIIFKMDKFGQGVEFQCSMLQKNKDLSFGGFTKQMLLEMCILSG--CDYLQSLPGMGLKRAHALISKF 246 (672)
Q Consensus 169 SeDSDlLlFG~~kVI~kLD~~g~~vei~~~~i~~~~~L~~lGlt~dqFidlcILsG--cDYlpgIpGIG~KtA~kLIkky 246 (672)
|+|+|+++|++++|...+. .| ..++...+++.+|++++||+|+|+|+| |||+|||||||+|||++||++|
T Consensus 140 S~DkDllql~~~~v~~~~~-~g-------~~~~~~~v~~~~gv~p~q~id~~~L~GD~sDnipGVpGIG~KtA~kLl~~~ 211 (832)
T 1bgx_T 140 TADKDLYQLLSDRIHVLHP-EG-------YLITPAWLWEKYGLRPDQWADYRALTGDESDNLPGVKGIGEKTARKLLEEW 211 (832)
T ss_dssp CSSTTCCTTCCTTBCBCCS-SS-------CCBCSTTHHHHTCCCGGGTTTTTTSSCCSSSCCCCCCCSSSCTTTTTGGGT
T ss_pred eCCCChhhcCcCCEEEEeC-CC-------cEEcHHHHHHHHCcCHHHHHHHHHhcCCccccCCCCCCcCchHHHHHHHHC
Confidence 9999999999998876554 33 235666778899999999999999999 9999999999999999999999
Q ss_pred CCHHHHHHHhhh
Q 005869 247 KSYDKVIKHLKY 258 (672)
Q Consensus 247 ~sle~Il~~L~~ 258 (672)
+++|+|+.++..
T Consensus 212 gsle~i~~~~~~ 223 (832)
T 1bgx_T 212 GSLEALLKNLDR 223 (832)
T ss_dssp TSSCSSSSSCCC
T ss_pred CCHHHHHHHHHH
Confidence 999999988863
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=99.69 E-value=1e-16 Score=167.43 Aligned_cols=185 Identities=12% Similarity=0.012 Sum_probs=124.0
Q ss_pred cCCEEEeeHHHHHHHHhccCcccccCCCcchhHHHH-HHHHHHHHHH----cCCe-eEEEEeCC-CCchhhHHHHHHHHH
Q 005869 23 EGCCVAVDTYSWLHKGALSCSRELCKGLPTSRHIDY-CMHRVNLLRH----YGVK-PILIFDGG-LLPMKIEQENKRARS 95 (672)
Q Consensus 23 kGk~IAIDa~~WLhRg~~sca~el~~G~pt~~~L~~-~~~rI~~Ll~----~gI~-PIfVFDG~-~lp~K~~Te~kRr~~ 95 (672)
+.+.+.|||++.++|+++.. .....|.++ ..+.+ |++.|..|+. ++-+ .+++||+. ...++++..
T Consensus 12 ~~~llLIDgssl~~ra~~~~-f~~~~g~~t-nav~ggf~~~L~~ll~~~k~~~P~~iavaFD~~~~~tfR~ely------ 83 (305)
T 3h7i_A 12 KEGICLIDFSQIALSTALVN-FPDKEKINL-SMVRHLILNSIKFNVKKAKTLGYTKIVLCIDNAKSGYWRRDFA------ 83 (305)
T ss_dssp SCCEEEEEHHHHHHHHHHHH-SCSSSCCCH-HHHHHHHHHHHHHHHHHHHHTTCCEEEEECCCCTTCCHHHHHS------
T ss_pred CCCEEEEeccHHHHHHHHHh-cCCCCCcch-HHHHHHHHHHHHHHHHhhhccCCCEEEEEecCCCCcchHhhhC------
Confidence 44689999999999976521 223457775 56655 7787776654 3543 47889976 355544332
Q ss_pred HHHHHHHHHHHHHcCCchhhHHHHhhhcCCCHHHHHHHHHHHHHcCceEEEec-cchHHHHHHHHH----cCCeEEEEcC
Q 005869 96 RKENLARAIECESEGNSSASYEFYQKAVDISPSIAHELIQVLKQQNVSYIVAP-YEADAQMTFLAV----SKQVEAVITE 170 (672)
Q Consensus 96 R~e~l~kA~e~~k~G~~~eA~e~f~kai~ITp~ma~~li~lLk~~GV~yIVAP-YEADAQLAyLa~----~G~VDaVISe 170 (672)
..|++++...+.++..+--.+..++-..+.++|+.+||+++..| ||||+.||.|++ .|.-..|+|.
T Consensus 84 ---------p~YKanR~~~PeeL~~Q~~~l~~Qi~p~ike~l~a~gi~~l~~~G~EADDiIgTLA~~a~~~g~~V~IvSg 154 (305)
T 3h7i_A 84 ---------YYYKKNRGKAREESTWDWEGYFESSHKVIDELKAYMPYIVMDIDKYEANDHIAVLVKKFSLEGHKILIISS 154 (305)
T ss_dssp ---------TTTTHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHSSSEEECCTTCCHHHHHHHHHHHHHHTTCCEEEECS
T ss_pred ---------HHhccCCCCCCHHHHHHHHHhhhhhHHHHHHHHHHCCCCEEccCCccHHHHHHHHHHHHHHCCCcEEEEeC
Confidence 23333333222221111000011222568889999999999887 799999999987 4666689999
Q ss_pred CCCeecccC-CeEEEecccCCCceEEEeeccccccccccCCCCHHHHHHHHHHhC--CCCCCCCCCCcHH
Q 005869 171 DSDLIPFGC-SRIIFKMDKFGQGVEFQCSMLQKNKDLSFGGFTKQMLLEMCILSG--CDYLQSLPGMGLK 237 (672)
Q Consensus 171 DSDlLlFG~-~kVI~kLD~~g~~vei~~~~i~~~~~L~~lGlt~dqFidlcILsG--cDYlpgIpGIG~K 237 (672)
|.|++++.. +.|. -++. .....+.+.+|+ ++|++|+++|+| +|.+|||||||+.
T Consensus 155 DKDl~QLv~~~~V~-~~~~-----------~~~~~V~ek~Gv-P~q~iD~~aL~GDsSDNIPGVpGIG~~ 211 (305)
T 3h7i_A 155 DGDFTQLHKYPNVK-QWSP-----------MHKKWVKIKSGS-AEIDCMTKILKGDKKDNVASVKVRSDF 211 (305)
T ss_dssp SCCCGGGGGSSSEE-EEET-----------TTTEEECSSCSC-HHHHHHHHHHHCBGGGTBCCTTSCTTH
T ss_pred CCCccccccCCCeE-EEec-----------CCHHHHHHHhCC-HHHHhhHHheeCccccCCCCCCcCCcc
Confidence 999999976 4442 1111 122345677898 999999999999 9999999999985
No 12
>2y35_A LD22664P; hydrolase-DNA complex, RNA degradation, exonuclease 5'-3', R interference; 3.20A {Drosophila melanogaster}
Probab=98.74 E-value=7.8e-08 Score=115.58 Aligned_cols=232 Identities=19% Similarity=0.227 Sum_probs=125.6
Q ss_pred CCccccHHHHhhccc-------ccccccccCCEEEeeHHHHHHHHhccCcccccCCCcchhHHHHHHHHHHHHHHcCCee
Q 005869 1 MGIQGLLPLLKSIMI-------PIHIKELEGCCVAVDTYSWLHKGALSCSRELCKGLPTSRHIDYCMHRVNLLRHYGVKP 73 (672)
Q Consensus 1 MGIkGL~~~Lk~~~~-------~~~Ls~lkGk~IAIDa~~WLhRg~~sca~el~~G~pt~~~L~~~~~rI~~Ll~~gI~P 73 (672)
|||.||..||...-- ...+-++- -+.||..+.+|.+..........-.........++..|..|.. -|+|
T Consensus 1 MGVp~ffrwl~~ryP~~~~~~~~~~~~e~D--nLYlDmNgIIH~c~h~~~~~~~~~~~e~e~~~~if~yid~l~~-~vrP 77 (1140)
T 2y35_A 1 MGVPKFFRYISERYPCLSELAREHCIPEFD--NLYLDMNGIVHNCSHPDDNNIHFHLEEEQIFQEIFNYVDKLFY-LIKP 77 (1140)
T ss_dssp CCSCHHHHHHHHHSGGGEEEEETTTSCCCS--EEEEEHHHHHHHHHCC------CCCCHHHHHHHHHHHHHHHHH-HHCC
T ss_pred CChhHHHHHHHHHCCchhhhccccCCCcCC--eEEEecchhhhhhcCCCCCCCCCCCCHHHHHHHHHHHHHHHHh-eecc
Confidence 999999999986211 00111222 5999999999997554321110000112344556666766654 2443
Q ss_pred ----EEEEeCCCCchhhHHHHHHHHHHHHHHHHH-HHHHHcCCchhhHHHHhhhcCCCH---HHH---HHHHHHHHH---
Q 005869 74 ----ILIFDGGLLPMKIEQENKRARSRKENLARA-IECESEGNSSASYEFYQKAVDISP---SIA---HELIQVLKQ--- 139 (672)
Q Consensus 74 ----IfVFDG~~lp~K~~Te~kRr~~R~e~l~kA-~e~~k~G~~~eA~e~f~kai~ITp---~ma---~~li~lLk~--- 139 (672)
++.+||..|-+|..+...||-+.....+.+ .+....|...+ .+.|. ...||| -|. ..|...++.
T Consensus 78 rkll~iAiDGvAPrAKmnqQR~RRfrsa~~~~~~~~~~~~~g~~~~-~~~fd-sn~ITPGT~FM~~l~~~L~~~i~~k~~ 155 (1140)
T 2y35_A 78 QRLFFLSVDGVAPRAKMNQQRSRRFRTAREAEQQEAKAAQRGELRE-HERFD-SNCITPGTEFMVRLQEGLRAFLKTKIS 155 (1140)
T ss_dssp SSEEEEECCCSCCHHHHHHHHHHHHHHHHHHHHHHHHHHHC--------CCC-SGGGSTTSHHHHHHHHHHHHHHHHHHH
T ss_pred ceeEEEEecCCCchhHHHHHHHHHhhhhhhhhhhHHHHhhcCCccc-cccCC-ccccCCCcHHHHHHHHHHHHHHHHHhc
Confidence 788999999888876655554322111111 11223343211 12232 234554 332 233333321
Q ss_pred -----cCceEEEe----ccchHHHHHHHHHc---------CCeEEEEcCCCCeecccC----C--eEEEecccCCC----
Q 005869 140 -----QNVSYIVA----PYEADAQMTFLAVS---------KQVEAVITEDSDLIPFGC----S--RIIFKMDKFGQ---- 191 (672)
Q Consensus 140 -----~GV~yIVA----PYEADAQLAyLa~~---------G~VDaVISeDSDlLlFG~----~--kVI~kLD~~g~---- 191 (672)
.++.+|++ |+|++--|.-+.+. ..-++|++.|+||+++|- + .|++.--..|.
T Consensus 156 ~d~~w~~~~Vi~S~~~vPGEGEhKIm~~IR~~~~~p~~~pn~~HciyG~DADLImL~L~the~~f~ilRe~v~f~~~~~~ 235 (1140)
T 2y35_A 156 TDPLWQRCTVILSGQEAPGEGEHKIMDYIRYMKTQPDYDPNTRHCLYGLDAALIILGLCTHELHFVVLREEVKFGRNVKR 235 (1140)
T ss_dssp HCGGGSSSEEEEECSSSCSCHHHHHHHHHHHHHHSTTCCTTCCEEEECCSHHHHHHHHHTTCSSEEEEEESSCTTCCTTC
T ss_pred cCccccceEEEEeCCCCCCchHHHHHHHHHHHhhCCCCCCCCeEEEEccCHhHHHHHHccCCCcEEEeeccccccccccc
Confidence 36888886 89999987766552 357899999999999872 3 24553211121
Q ss_pred ----ceEEEeecccccc--------ccc--cCCCC----HHHHHHHHHHhCCCCCCCCCCCcHH
Q 005869 192 ----GVEFQCSMLQKNK--------DLS--FGGFT----KQMLLEMCILSGCDYLQSLPGMGLK 237 (672)
Q Consensus 192 ----~vei~~~~i~~~~--------~L~--~lGlt----~dqFidlcILsGcDYlpgIpGIG~K 237 (672)
...+.+-.+..-+ .++ ...++ -+.|+.||.|+|+||+|++|++.+.
T Consensus 236 ~~~~~~~f~~l~i~~lReyL~~ef~~~~~~~~~~d~eriidDfVfl~fl~GNDFLP~lp~l~I~ 299 (1140)
T 2y35_A 236 TSVEETRFFLLHLGLLREYLELEFDALRTDEHKLDIAQLIDDWVLMGFLVGNDFIPHLPCLHIS 299 (1140)
T ss_dssp CCGGGCEEEEEEHHHHHHHHHHHGGGGCCSSSCCCHHHHHHHHHHHHHHHCCTTSCCCTTCCTT
T ss_pred ccccccceEEEEehHHHHHHHHHhhhhccccccccHHHHHHHHHHHHHHhCCccCCCCCccccC
Confidence 0122221111100 011 12344 4578889999999999999998754
No 13
>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=98.66 E-value=4.3e-08 Score=116.97 Aligned_cols=233 Identities=21% Similarity=0.283 Sum_probs=127.2
Q ss_pred CCccccHHHHhhccc-------ccccccccCCEEEeeHHHHHHHHhccCcccccCCCcchhHHHHHHHHHHHHHHcCCee
Q 005869 1 MGIQGLLPLLKSIMI-------PIHIKELEGCCVAVDTYSWLHKGALSCSRELCKGLPTSRHIDYCMHRVNLLRHYGVKP 73 (672)
Q Consensus 1 MGIkGL~~~Lk~~~~-------~~~Ls~lkGk~IAIDa~~WLhRg~~sca~el~~G~pt~~~L~~~~~rI~~Ll~~gI~P 73 (672)
|||.++..||...-- ...+-++- -+-||..+.+|.+..........-......+..++..|..|.. -|+|
T Consensus 1 MGVP~ffrwl~~ryP~i~~~~~~~~~pe~D--nLYlDmNgIIH~c~h~~~~~~~~~~te~e~~~~if~yid~l~~-~vrP 77 (1155)
T 3pie_A 1 MGIPKFFHFISERWPQISQLIDGSQIPEFD--NLYLDMNSILHNCTHGDGSEVNSRLSEEEVYSKIFSYIDHLFH-TIKP 77 (1155)
T ss_pred CChHHHHHHHHHhCcchhhcccCCCCCcCC--eEEEecccceeeeecCCCCccccCCCHHHHHHHHHHHHHHHHH-hcCc
Confidence 999999999986211 11111222 4889999999986443221110001113345566677777654 3655
Q ss_pred ----EEEEeCCCCchhhHHHHHHHHHHHHHHHHHH-HHHHcCCchhhHHHHhhhcCCCH---HHHH---HHHHHHHH---
Q 005869 74 ----ILIFDGGLLPMKIEQENKRARSRKENLARAI-ECESEGNSSASYEFYQKAVDISP---SIAH---ELIQVLKQ--- 139 (672)
Q Consensus 74 ----IfVFDG~~lp~K~~Te~kRr~~R~e~l~kA~-e~~k~G~~~eA~e~f~kai~ITp---~ma~---~li~lLk~--- 139 (672)
++.+||..|-+|..+...||-+.....+.+. +....|..-...+.|. ...||| -|.. .|...+..
T Consensus 78 rkllyiAiDGVAPrAKmnqQR~RRfrsa~~~~~~~~~~~~~g~~~~~~~~fd-sn~ITPGT~FM~~L~~~L~~~i~~k~~ 156 (1155)
T 3pie_A 78 KQTFYMAIDGVAPRAKMNQQRARRFRTAMDAEKALQKAIENGDELPKGEPFD-SNAITPGTEFMAKLTENLKYFIHDKIT 156 (1155)
T ss_pred ceEEEEEecCCCChhHHHHHHHHHHHhhhhhhHHHHHHHhcCCcCCcccccc-cccccCCcHHHHHHHHHHHHHHHHHhh
Confidence 6889999998888766555543321111111 2233443211112232 234554 2221 22222211
Q ss_pred -----cCceEEEe----ccchHHHHHHHHHc---------CCeEEEEcCCCCeecccC----C--eEEEecccCCCc---
Q 005869 140 -----QNVSYIVA----PYEADAQMTFLAVS---------KQVEAVITEDSDLIPFGC----S--RIIFKMDKFGQG--- 192 (672)
Q Consensus 140 -----~GV~yIVA----PYEADAQLAyLa~~---------G~VDaVISeDSDlLlFG~----~--kVI~kLD~~g~~--- 192 (672)
.++.+|++ |+|++--|.-+.+. ..-++|+|.|+||+++|- + .||+.--..+..
T Consensus 157 ~d~~w~~~~vi~S~~~vPGEGEhKIm~~IR~~r~~p~y~pn~~H~IyG~DADLImL~L~thep~f~iLRe~v~f~~~~~~ 236 (1155)
T 3pie_A 157 NDTRWQNVKVIFSGHEVPGEGQHKIMDYIRAIRAQEDYNPNTRHCIYGLDADLIILGLSTHDHHFCLLREEVTFGKRSSS 236 (1155)
T ss_pred CCcCccccEEEEeCCCCCCccHHHHHHHHHHhccCCCCCCCCeEEEeccChhHHHhhhccCCCcEEEEeeccccCccccc
Confidence 26778876 89999988776553 347899999999999973 2 245532111110
Q ss_pred ------eEEEeecccccc-----cc----cc--CCCC----HHHHHHHHHHhCCCCCCCCCCCcHH
Q 005869 193 ------VEFQCSMLQKNK-----DL----SF--GGFT----KQMLLEMCILSGCDYLQSLPGMGLK 237 (672)
Q Consensus 193 ------vei~~~~i~~~~-----~L----~~--lGlt----~dqFidlcILsGcDYlpgIpGIG~K 237 (672)
..|.+-.+..-+ .+ .. +.++ -+.|+.||.|+|+||+|.+|.+.+.
T Consensus 237 ~~~~~~~~f~~l~i~~LREyL~~ef~~~~~~~~~~~d~ERiiDDfVflcf~vGNDFLPhlP~l~I~ 302 (1155)
T 3pie_A 237 VKTLETQNFFLLHLSILREYLALEFEEITDSVQFEYDFERVLDDFIFVLFTIGNDFLPNLPDLHLK 302 (1155)
T ss_pred ccccccCCeEEEEHHHHHHHHHHHHHhhccccCCCccHhHhhcceeeehhhhCcccCCCCCccCcC
Confidence 011111111100 00 11 1233 2467889999999999999998754
No 14
>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=98.33 E-value=4.4e-06 Score=97.51 Aligned_cols=150 Identities=19% Similarity=0.235 Sum_probs=85.6
Q ss_pred EEEeeHHHHHHHHhccCcccccCCCcchhHHHHHHHHHHHHHHcCCee----EEEEeCCCCchhhHHHHHHHHHHHHHHH
Q 005869 26 CVAVDTYSWLHKGALSCSRELCKGLPTSRHIDYCMHRVNLLRHYGVKP----ILIFDGGLLPMKIEQENKRARSRKENLA 101 (672)
Q Consensus 26 ~IAIDa~~WLhRg~~sca~el~~G~pt~~~L~~~~~rI~~Ll~~gI~P----IfVFDG~~lp~K~~Te~kRr~~R~e~l~ 101 (672)
-+-||..+.||.+....... . -......+..++..|..|.. -|+| ++.+||..|-+|..+...||-+.....+
T Consensus 54 nLYlDmNgIIH~c~h~~~~~-~-~~te~e~~~~If~yid~l~~-~vrPrklly~AiDGVAPrAKmnQQRsRRfrsa~~~~ 130 (899)
T 3fqd_A 54 NLYLDMNGIVHPCSHPEDRP-A-PETEDEMMVAVFEYTDRILA-MVRPRQLLFIAIDGVAPRAKMNQQRSRRFRSSREAA 130 (899)
T ss_dssp EEEEETHHHHHHHHSCSSSC-C-CCSHHHHHHHHHHHHHHHHH-HHCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHH
T ss_pred eEEEecchhhhhhcCCCCCC-C-CCCHHHHHHHHHHHHHHHHH-HcCcceeEEEeecCCCCchHHHHHHHHHHHhhhhhh
Confidence 47789999999975532111 0 00113345566677776653 3555 6889999999998776666543321111
Q ss_pred HH-------H-HHHHcCCchhh----HHHHhhhcCCCH---HHHH---HHHHHHHH--------cCceEEEe----ccch
Q 005869 102 RA-------I-ECESEGNSSAS----YEFYQKAVDISP---SIAH---ELIQVLKQ--------QNVSYIVA----PYEA 151 (672)
Q Consensus 102 kA-------~-e~~k~G~~~eA----~e~f~kai~ITp---~ma~---~li~lLk~--------~GV~yIVA----PYEA 151 (672)
.+ . .+..+|..... .+.|. +..||| -|.. .|+..+.. .++.+|++ |+|.
T Consensus 131 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~fD-sN~ITPGT~FM~~L~~~L~~~i~~kl~~dp~W~~~~VIlSd~~vPGEG 209 (899)
T 3fqd_A 131 LKEEELQAFIEEAKQQGIPIDENATKKKSWD-SNCITPGTPFMDTLAKSLRYYIINKLNSDPCWRNVRFILSDASVPGEG 209 (899)
T ss_dssp HHHHHHHHHHHHHHHHTCCBCHHHHSCCCCC-GGGSSTTSHHHHHHHHHHHHHHHHHHTSCGGGTTCEEEEECTTSCSCH
T ss_pred hhHHHHHHHHHHHHhcCCCCccccccccCCC-cCccCCccHHHHHHHHHHHHHHHHHhhcCcccccceEEEeCCCCCCcc
Confidence 11 1 12233422110 01121 234555 2322 23222221 27888886 8999
Q ss_pred HHHHHHHHHc---------CCeEEEEcCCCCeecccC
Q 005869 152 DAQMTFLAVS---------KQVEAVITEDSDLIPFGC 179 (672)
Q Consensus 152 DAQLAyLa~~---------G~VDaVISeDSDlLlFG~ 179 (672)
+--|.-+.+. ...++|++.|+||+++|-
T Consensus 210 EHKIm~fIR~~r~~p~ydpN~~HcIyGlDADLImL~L 246 (899)
T 3fqd_A 210 EHKIMEFIRSQRVKPEYDPNTHHVVYGLDADLIMLGL 246 (899)
T ss_dssp HHHHHHHHHHHHTSTTSCTTCCEEEECCCTTHHHHHH
T ss_pred HHHHHHHHHHHhcCCCCCCCCeEEEEccCccHhHHhh
Confidence 9998876652 357899999999999973
No 15
>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=91.42 E-value=0.11 Score=42.17 Aligned_cols=28 Identities=21% Similarity=0.430 Sum_probs=24.4
Q ss_pred CCCCCCCcHHHHHHHHHHhCCHHHHHHH
Q 005869 228 LQSLPGMGLKRAHALISKFKSYDKVIKH 255 (672)
Q Consensus 228 lpgIpGIG~KtA~kLIkky~sle~Il~~ 255 (672)
+..|||||+|++..|++.|+|+++|..+
T Consensus 6 L~~IpGIG~kr~~~LL~~Fgs~~~i~~A 33 (63)
T 2a1j_A 6 LLKMPGVNAKNCRSLMHHVKNIAELAAL 33 (63)
T ss_dssp HHTSTTCCHHHHHHHHHHCSSHHHHHTC
T ss_pred HHcCCCCCHHHHHHHHHHcCCHHHHHHC
Confidence 3479999999999999999999888644
No 16
>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A*
Probab=89.62 E-value=0.23 Score=42.73 Aligned_cols=27 Identities=19% Similarity=0.396 Sum_probs=24.2
Q ss_pred CCCCCCcHHHHHHHHHHhCCHHHHHHH
Q 005869 229 QSLPGMGLKRAHALISKFKSYDKVIKH 255 (672)
Q Consensus 229 pgIpGIG~KtA~kLIkky~sle~Il~~ 255 (672)
..|||||+|++..|++.|+++++|..+
T Consensus 21 ~~IpGIG~kr~~~LL~~FgSl~~i~~A 47 (84)
T 1z00_B 21 LKMPGVNAKNCRSLMHHVKNIAELAAL 47 (84)
T ss_dssp HTCSSCCHHHHHHHHHHSSCHHHHHHS
T ss_pred HhCCCCCHHHHHHHHHHcCCHHHHHHC
Confidence 369999999999999999999988655
No 17
>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=85.84 E-value=0.49 Score=38.24 Aligned_cols=27 Identities=26% Similarity=0.458 Sum_probs=24.2
Q ss_pred CCCCCCcHHHHHHHHHHhCCHHHHHHH
Q 005869 229 QSLPGMGLKRAHALISKFKSYDKVIKH 255 (672)
Q Consensus 229 pgIpGIG~KtA~kLIkky~sle~Il~~ 255 (672)
.+|||||+++|..|+..|++++.++..
T Consensus 17 ~~i~giG~~~a~~Ll~~fgs~~~l~~a 43 (75)
T 1x2i_A 17 EGLPHVSATLARRLLKHFGSVERVFTA 43 (75)
T ss_dssp TTSTTCCHHHHHHHHHHHCSHHHHHHC
T ss_pred cCCCCCCHHHHHHHHHHcCCHHHHHhC
Confidence 479999999999999999999888654
No 18
>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=85.80 E-value=0.27 Score=40.84 Aligned_cols=28 Identities=21% Similarity=0.414 Sum_probs=24.7
Q ss_pred CCCCCCCcHHHHHHHHHHhCCHHHHHHH
Q 005869 228 LQSLPGMGLKRAHALISKFKSYDKVIKH 255 (672)
Q Consensus 228 lpgIpGIG~KtA~kLIkky~sle~Il~~ 255 (672)
+.+|||||+++|.+|++.|+++++++..
T Consensus 26 L~~I~gIG~~~A~~Ll~~fgsl~~l~~a 53 (78)
T 1kft_A 26 LETIEGVGPKRRQMLLKYMGGLQGLRNA 53 (78)
T ss_dssp GGGCTTCSSSHHHHHHHHHSCHHHHHHC
T ss_pred HhcCCCCCHHHHHHHHHHcCCHHHHHHC
Confidence 3479999999999999999999888755
No 19
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5
Probab=84.35 E-value=0.63 Score=39.47 Aligned_cols=27 Identities=15% Similarity=0.384 Sum_probs=24.1
Q ss_pred CCCCCCcHHHHHHHHHHhCCHHHHHHH
Q 005869 229 QSLPGMGLKRAHALISKFKSYDKVIKH 255 (672)
Q Consensus 229 pgIpGIG~KtA~kLIkky~sle~Il~~ 255 (672)
.+|||||+++|.+|++.|+++++++..
T Consensus 22 ~~IpgIG~~~A~~Ll~~fgsl~~l~~a 48 (89)
T 1z00_A 22 TTVKSVNKTDSQTLLTTFGSLEQLIAA 48 (89)
T ss_dssp TTSSSCCHHHHHHHHHHTCBHHHHHHC
T ss_pred HcCCCCCHHHHHHHHHHCCCHHHHHhC
Confidence 479999999999999999999888654
No 20
>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=82.13 E-value=0.95 Score=38.62 Aligned_cols=27 Identities=15% Similarity=0.384 Sum_probs=23.6
Q ss_pred CCCCCCcHHHHHHHHHHhCCHHHHHHH
Q 005869 229 QSLPGMGLKRAHALISKFKSYDKVIKH 255 (672)
Q Consensus 229 pgIpGIG~KtA~kLIkky~sle~Il~~ 255 (672)
.+|||||+++|.+|+..|+++++++..
T Consensus 35 ~~IpgIG~~~A~~Ll~~fgs~~~l~~a 61 (91)
T 2a1j_B 35 TTVKSVNKTDSQTLLTTFGSLEQLIAA 61 (91)
T ss_dssp TTSTTCCHHHHHHHHHHHSSHHHHHSC
T ss_pred HcCCCCCHHHHHHHHHHCCCHHHHHhC
Confidence 468999999999999999999887643
No 21
>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=76.66 E-value=1.2 Score=44.84 Aligned_cols=27 Identities=30% Similarity=0.586 Sum_probs=24.2
Q ss_pred CCCCCCcHHHHHHHHHHhCCHHHHHHH
Q 005869 229 QSLPGMGLKRAHALISKFKSYDKVIKH 255 (672)
Q Consensus 229 pgIpGIG~KtA~kLIkky~sle~Il~~ 255 (672)
.+|||||+++|..|++.|++++++..+
T Consensus 171 dgIpGIG~k~ak~Ll~~FgSl~~i~~A 197 (220)
T 2nrt_A 171 DNVPGIGPIRKKKLIEHFGSLENIRSA 197 (220)
T ss_dssp TTSTTCCHHHHHHHHHHHCSHHHHHTS
T ss_pred cCCCCcCHHHHHHHHHHcCCHHHHHhC
Confidence 689999999999999999999887543
No 22
>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=65.96 E-value=3.8 Score=40.82 Aligned_cols=54 Identities=17% Similarity=0.312 Sum_probs=33.9
Q ss_pred CCceEEEeeccccccccccCCCCHHHHHHHHHHhCCCCCCCCCCCcHHHHHHHHHHhCC
Q 005869 190 GQGVEFQCSMLQKNKDLSFGGFTKQMLLEMCILSGCDYLQSLPGMGLKRAHALISKFKS 248 (672)
Q Consensus 190 g~~vei~~~~i~~~~~L~~lGlt~dqFidlcILsGcDYlpgIpGIG~KtA~kLIkky~s 248 (672)
|..+.+...++-++.....+||....-..+..++. +|+|||||+|..++..|+.
T Consensus 57 Ge~v~l~t~~~vRED~~~LyGF~~~~Er~lf~~L~-----sv~GIGpk~A~~Ils~~~~ 110 (212)
T 2ztd_A 57 GTEARLITAMIVREDSMTLYGFPDGETRDLFLTLL-----SVSGVGPRLAMAALAVHDA 110 (212)
T ss_dssp TSEEEEEEEEEEETTEEEEEEESSHHHHHHHHHHH-----TSTTCCHHHHHHHHHHSCH
T ss_pred CCEEEEEEEEEEecCCcceEecCcHHHHHHHHHhc-----CcCCcCHHHHHHHHHhCCH
Confidence 44344443344444456678886554444444322 2999999999999998874
No 23
>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=64.51 E-value=2.9 Score=40.91 Aligned_cols=25 Identities=28% Similarity=0.709 Sum_probs=22.8
Q ss_pred CCCCCcHHHHHHHHHHhCCHHHHHH
Q 005869 230 SLPGMGLKRAHALISKFKSYDKVIK 254 (672)
Q Consensus 230 gIpGIG~KtA~kLIkky~sle~Il~ 254 (672)
+|||||+++|..|++.|+++++++.
T Consensus 166 ~i~gVg~~~a~~Ll~~fgs~~~l~~ 190 (219)
T 2bgw_A 166 SFPGIGRRTAERILERFGSLERFFT 190 (219)
T ss_dssp TSTTCCHHHHHHHHHHHSSHHHHTT
T ss_pred cCCCCCHHHHHHHHHHcCCHHHHHh
Confidence 6999999999999999999888754
No 24
>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=64.37 E-value=1.4 Score=44.43 Aligned_cols=28 Identities=39% Similarity=0.649 Sum_probs=0.0
Q ss_pred CCCCCCCcHHHHHHHHHHhCCHHHHHHH
Q 005869 228 LQSLPGMGLKRAHALISKFKSYDKVIKH 255 (672)
Q Consensus 228 lpgIpGIG~KtA~kLIkky~sle~Il~~ 255 (672)
+.+|||||+++|..|++.|+|++++..+
T Consensus 175 L~~IpGIG~k~ak~Ll~~FGSl~~i~~A 202 (226)
T 3c65_A 175 LDDIPGVGEKRKKALLNYFGSVKKMKEA 202 (226)
T ss_dssp ----------------------------
T ss_pred ccccCCCCHHHHHHHHHHhCCHHHHHhC
Confidence 4689999999999999999999887654
No 25
>4gfj_A Topoisomerase V; helix-hairpin-helix, DNA repair enzyme, DNA B isomerase; 2.91A {Methanopyrus kandleri AV19}
Probab=57.18 E-value=6.3 Score=43.27 Aligned_cols=26 Identities=35% Similarity=0.598 Sum_probs=23.8
Q ss_pred CCCCCcHHHHHHHHHHhCCHHHHHHH
Q 005869 230 SLPGMGLKRAHALISKFKSYDKVIKH 255 (672)
Q Consensus 230 gIpGIG~KtA~kLIkky~sle~Il~~ 255 (672)
.|||||+++|.+|+.+||+++.|..+
T Consensus 472 AIaGIGp~tAeRLLEkFGSVe~Vm~A 497 (685)
T 4gfj_A 472 SIRGIDRERAERLLKKYGGYSKVREA 497 (685)
T ss_dssp TSTTCCHHHHHHHHHHHTSHHHHHHS
T ss_pred ccCCCCHHHHHHHHHHhcCHHHHHhC
Confidence 69999999999999999999988654
No 26
>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=54.21 E-value=5.7 Score=38.82 Aligned_cols=19 Identities=42% Similarity=0.552 Sum_probs=17.7
Q ss_pred CCCCCcHHHHHHHHHHhCC
Q 005869 230 SLPGMGLKRAHALISKFKS 248 (672)
Q Consensus 230 gIpGIG~KtA~kLIkky~s 248 (672)
+|+|||+|+|..++..|++
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 4999999999999999987
No 27
>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=44.44 E-value=9.5 Score=37.56 Aligned_cols=19 Identities=32% Similarity=0.419 Sum_probs=17.6
Q ss_pred CCCCCcHHHHHHHHHHhCC
Q 005869 230 SLPGMGLKRAHALISKFKS 248 (672)
Q Consensus 230 gIpGIG~KtA~kLIkky~s 248 (672)
+|+|||+|+|..++..|++
T Consensus 77 ~V~GIGpk~A~~iL~~f~~ 95 (203)
T 1cuk_A 77 KTNGVGPKLALAILSGMSA 95 (203)
T ss_dssp HSSSCCHHHHHHHHHHSCH
T ss_pred cCCCcCHHHHHHHHhhCCh
Confidence 3999999999999999986
No 28
>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=40.40 E-value=6.3 Score=36.75 Aligned_cols=24 Identities=17% Similarity=0.358 Sum_probs=19.7
Q ss_pred CCCCCcHHHHHHHHHH--hCCHHHHH
Q 005869 230 SLPGMGLKRAHALISK--FKSYDKVI 253 (672)
Q Consensus 230 gIpGIG~KtA~kLIkk--y~sle~Il 253 (672)
.+||||+++|-++|.. |.++|+++
T Consensus 67 ~LpGiGp~~A~~II~~GpF~svedL~ 92 (134)
T 1s5l_U 67 QYRGLYPTLAKLIVKNAPYESVEDVL 92 (134)
T ss_dssp GSTTCTHHHHHHHHHTCCCSSGGGGG
T ss_pred HCCCCCHHHHHHHHHcCCCCCHHHHH
Confidence 5899999999999964 66777764
No 29
>3v32_B Ribonuclease ZC3H12A; rossmann-like sandwich fold, RNAse, cytoplastic, hydrolase; 2.00A {Homo sapiens} PDB: 3v34_A
Probab=38.30 E-value=1.6e+02 Score=28.62 Aligned_cols=44 Identities=18% Similarity=0.070 Sum_probs=28.5
Q ss_pred CEEEeeHHHHHHHHhccCcccccCCCcchhHHHHHHHHHHHHHHcCCeeEEEEe
Q 005869 25 CCVAVDTYSWLHKGALSCSRELCKGLPTSRHIDYCMHRVNLLRHYGVKPILIFD 78 (672)
Q Consensus 25 k~IAIDa~~WLhRg~~sca~el~~G~pt~~~L~~~~~rI~~Ll~~gI~PIfVFD 78 (672)
+.|+|||+.-.+.. +. .+.. -..++..-|+.|+..|.++|.||+
T Consensus 25 R~IVIDGsNVA~~~--g~-----~~~F---s~rgI~~aV~yf~~rGh~~v~Vfv 68 (185)
T 3v32_B 25 RPVVIDGSNVAMSH--GN-----KEVF---SCRGILLAVNWFLERGHTDITVFV 68 (185)
T ss_dssp CCEEEEHHHHHHHH--TT-----TTSE---EHHHHHHHHHHHHHTTCCCEEEEE
T ss_pred CeEEEeCHHHHhhh--CC-----CCCc---CHHHHHHHHHHHHHcCCCceEEEe
Confidence 57999999877653 11 0111 123334456778899999999997
No 30
>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=36.06 E-value=22 Score=36.50 Aligned_cols=31 Identities=13% Similarity=0.357 Sum_probs=27.7
Q ss_pred CCCCCCCcHHHHHHHHHHhCCHHHHHHHhhh
Q 005869 228 LQSLPGMGLKRAHALISKFKSYDKVIKHLKY 258 (672)
Q Consensus 228 lpgIpGIG~KtA~kLIkky~sle~Il~~L~~ 258 (672)
+-.||||++++|..++.+|+|+..++++.+.
T Consensus 239 L~~IpGVs~~~A~~I~~~ypTp~~L~~Ay~~ 269 (311)
T 2ziu_A 239 LMQISGVSGDKAAAVLEHYSTVSSLLQAYDK 269 (311)
T ss_dssp HTTBTTCCHHHHHHHHHHCSSHHHHHHHHHH
T ss_pred HHhccCCCHHHHHHHHHHCCCHHHHHHHHHh
Confidence 3479999999999999999999999988864
No 31
>3v33_A Ribonuclease ZC3H12A; rossmann-like sandwich fold, RNAse, cytoplastic, hydrolase; 2.00A {Homo sapiens}
Probab=31.76 E-value=2.3e+02 Score=28.38 Aligned_cols=44 Identities=18% Similarity=0.070 Sum_probs=28.9
Q ss_pred CEEEeeHHHHHHHHhccCcccccCCCcchhHHHHHHHHHHHHHHcCCeeEEEEe
Q 005869 25 CCVAVDTYSWLHKGALSCSRELCKGLPTSRHIDYCMHRVNLLRHYGVKPILIFD 78 (672)
Q Consensus 25 k~IAIDa~~WLhRg~~sca~el~~G~pt~~~L~~~~~rI~~Ll~~gI~PIfVFD 78 (672)
+.|+|||+.-.+.. +. .+.. -+.++..-|+.|+..|.++|.||+
T Consensus 25 R~IVIDGsNVA~~~--g~-----~~~F---s~rgI~~aV~yF~~RGh~~V~Vfv 68 (223)
T 3v33_A 25 RPVVIDGSNVAMSH--GN-----KEVF---SCRGILLAVNWFLERGHTDITVFV 68 (223)
T ss_dssp CCEEEEHHHHHHHS--SS-----TTSE---EHHHHHHHHHHHHTTTCCCEEEEE
T ss_pred CeEEEeCHHHHhhh--CC-----CCCc---CHHHHHHHHHHHHHcCCCceEEEe
Confidence 57999999877652 11 0111 123444457778899999999995
No 32
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=29.42 E-value=31 Score=38.72 Aligned_cols=29 Identities=17% Similarity=0.332 Sum_probs=24.4
Q ss_pred CCCCCCcHHHHHHHHHH-hCCHHHHHHHhh
Q 005869 229 QSLPGMGLKRAHALISK-FKSYDKVIKHLK 257 (672)
Q Consensus 229 pgIpGIG~KtA~kLIkk-y~sle~Il~~L~ 257 (672)
-+|+|||+|+|.+++.. +.+++++.+++.
T Consensus 100 ~~v~GVGpk~A~~i~~~G~~s~edL~~a~~ 129 (578)
T 2w9m_A 100 LGVRGLGPKKIRSLWLAGIDSLERLREAAE 129 (578)
T ss_dssp TTSTTCCHHHHHHHHHTTCCSHHHHHHHHH
T ss_pred hCCCCcCHHHHHHHHHcCCCCHHHHHHHHh
Confidence 48999999999999986 578998887654
No 33
>2i5h_A Hypothetical protein AF1531; PFAM:DUF655, PSI-2, structural genomics, protein structure initiative; 1.74A {Archaeoglobus fulgidus} SCOP: e.71.1.1
Probab=29.42 E-value=32 Score=34.12 Aligned_cols=46 Identities=24% Similarity=0.486 Sum_probs=30.7
Q ss_pred CHHHHHHHHHHhC---CC--CCCCCCCCcHHHHHHHHHH-----hCCHHHHHHHhh
Q 005869 212 TKQMLLEMCILSG---CD--YLQSLPGMGLKRAHALISK-----FKSYDKVIKHLK 257 (672)
Q Consensus 212 t~dqFidlcILsG---cD--YlpgIpGIG~KtA~kLIkk-----y~sle~Il~~L~ 257 (672)
..+.|+++.--++ .+ =+..|||||+++|.++|.. |.+++++.+.+.
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 3466666643333 12 2347999999999999953 778888876664
No 34
>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=28.82 E-value=12 Score=37.92 Aligned_cols=26 Identities=31% Similarity=0.537 Sum_probs=0.0
Q ss_pred CCCCCCCcHHHHHHHHHH-hCCHHHHH
Q 005869 228 LQSLPGMGLKRAHALISK-FKSYDKVI 253 (672)
Q Consensus 228 lpgIpGIG~KtA~kLIkk-y~sle~Il 253 (672)
+..|||||+++|..|+.. |++++.|.
T Consensus 17 L~~IpGIGpk~a~~Ll~~gf~sve~L~ 43 (241)
T 1vq8_Y 17 LTDISGVGPSKAESLREAGFESVEDVR 43 (241)
T ss_dssp ---------------------------
T ss_pred HhcCCCCCHHHHHHHHHcCCCCHHHHH
Confidence 447999999999999998 88888774
No 35
>3vdp_A Recombination protein RECR; zinc finger, DNA repair, DNA binding; 2.45A {Thermoanaerobacter tengcongensis} PDB: 3vdu_A 3ve5_D
Probab=28.81 E-value=45 Score=33.26 Aligned_cols=50 Identities=26% Similarity=0.315 Sum_probs=34.2
Q ss_pred CCCCCCCcHHHHHHHHHHhCCHHHHHHHhhhCCCCCCchhHHHHHHHHHHcCCCeeeCCCCCce
Q 005869 228 LQSLPGMGLKRAHALISKFKSYDKVIKHLKYSTVSVPPFYEESFGKAVLTFQHQRVYDPKTEDI 291 (672)
Q Consensus 228 lpgIpGIG~KtA~kLIkky~sle~Il~~L~~~~~~vP~~Y~e~FrkA~~tFkhq~VfdP~~~~l 291 (672)
+..+||||+|+|.++.-. -| ..+++..+.+-+|....+...-+|..-+-+
T Consensus 28 l~~LPGIG~KsA~RlA~h---------LL-----~~~~~~~~~La~al~~~~~~i~~C~~C~nl 77 (212)
T 3vdp_A 28 LSKLPGIGPKTAQRLAFF---------II-----NMPLDEVRSLSQAIIEAKEKLRYCKICFNI 77 (212)
T ss_dssp HHTSTTCCHHHHHHHHHH---------HT-----TSCHHHHHHHHHHHHHHHHHCEECTTTCCE
T ss_pred HHHCCCCCHHHHHHHHHH---------HH-----cCCHHHHHHHHHHHHHHHHhCCcCCCCCCC
Confidence 457899999999887522 12 234566667777777777777777776544
No 36
>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus} SCOP: a.60.2.7
Probab=26.99 E-value=25 Score=28.45 Aligned_cols=18 Identities=28% Similarity=0.471 Sum_probs=15.3
Q ss_pred CCCCCCcHHHHHHHHHHh
Q 005869 229 QSLPGMGLKRAHALISKF 246 (672)
Q Consensus 229 pgIpGIG~KtA~kLIkky 246 (672)
..|||||+++|.+++..+
T Consensus 30 ~~ipGIG~~~A~~Il~~r 47 (75)
T 2duy_A 30 MALPGIGPVLARRIVEGR 47 (75)
T ss_dssp TTSTTCCHHHHHHHHHTC
T ss_pred HhCCCCCHHHHHHHHHHc
Confidence 358999999999999764
No 37
>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=26.95 E-value=23 Score=35.16 Aligned_cols=37 Identities=19% Similarity=0.444 Sum_probs=24.3
Q ss_pred CCHHHHHHHHHHhC-CCCCCCCCCCcHHHHHHHHHHhCC
Q 005869 211 FTKQMLLEMCILSG-CDYLQSLPGMGLKRAHALISKFKS 248 (672)
Q Consensus 211 lt~dqFidlcILsG-cDYlpgIpGIG~KtA~kLIkky~s 248 (672)
|+++.|.. +++.+ -+.+..+||||+|+|-+++..++.
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 44554432 23333 344568999999999999877653
No 38
>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=26.05 E-value=40 Score=35.41 Aligned_cols=28 Identities=21% Similarity=0.385 Sum_probs=23.1
Q ss_pred CCCCCCcHHHHHHHHHH-hCCHHHHHHHh
Q 005869 229 QSLPGMGLKRAHALISK-FKSYDKVIKHL 256 (672)
Q Consensus 229 pgIpGIG~KtA~kLIkk-y~sle~Il~~L 256 (672)
..|+|||+|||.+|..+ +.|++++.++.
T Consensus 99 ~~v~GiG~k~a~~l~~~Gi~tledL~~a~ 127 (335)
T 2bcq_A 99 SNIWGAGTKTAQMWYQQGFRSLEDIRSQA 127 (335)
T ss_dssp HTSTTCCHHHHHHHHHTTCCSHHHHHHHC
T ss_pred hcCCCcCHHHHHHHHHcCCCCHHHHHHHh
Confidence 47999999999999876 45899887654
No 39
>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=24.85 E-value=43 Score=37.54 Aligned_cols=28 Identities=32% Similarity=0.500 Sum_probs=23.3
Q ss_pred CCCCCcHHHHHHHHHH--hCCHHHHHHHhh
Q 005869 230 SLPGMGLKRAHALISK--FKSYDKVIKHLK 257 (672)
Q Consensus 230 gIpGIG~KtA~kLIkk--y~sle~Il~~L~ 257 (672)
+|+|||||+|..++.. +.+++++.+++.
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 6899999999999986 478888877664
No 40
>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=24.72 E-value=31 Score=37.20 Aligned_cols=26 Identities=19% Similarity=0.361 Sum_probs=24.1
Q ss_pred CCCCCcHHHHHHHHHHhCCHHHHHHH
Q 005869 230 SLPGMGLKRAHALISKFKSYDKVIKH 255 (672)
Q Consensus 230 gIpGIG~KtA~kLIkky~sle~Il~~ 255 (672)
+||+||++.|-+|+.+|+++++++.+
T Consensus 319 ~IPrl~~~iae~Lv~~FGsLq~Il~A 344 (377)
T 3c1y_A 319 TVARIPLSIGYNVVRMFKTLDQISKA 344 (377)
T ss_dssp HTSCCCHHHHHHHHHHHCSHHHHTTC
T ss_pred hCCCCCHHHHHHHHHHhCCHHHHHhC
Confidence 48999999999999999999999866
No 41
>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=24.59 E-value=16 Score=32.11 Aligned_cols=25 Identities=16% Similarity=0.319 Sum_probs=19.2
Q ss_pred CCCCCCcHHHHHHHHHH--hCCHHHHH
Q 005869 229 QSLPGMGLKRAHALISK--FKSYDKVI 253 (672)
Q Consensus 229 pgIpGIG~KtA~kLIkk--y~sle~Il 253 (672)
..|||||++.|.++|.. |.+++++.
T Consensus 29 ~~lpGIG~~~A~~IV~~GpF~s~edL~ 55 (97)
T 3arc_U 29 IQYRGLYPTLAKLIVKNAPYESVEDVL 55 (97)
T ss_dssp GGSTTCTTHHHHHHHHHCCCSSGGGGG
T ss_pred hHCCCCCHHHHHHHHHcCCCCCHHHHH
Confidence 46899999999999974 55666553
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=24.34 E-value=43 Score=35.89 Aligned_cols=25 Identities=32% Similarity=0.525 Sum_probs=21.3
Q ss_pred CCCCCcHHHHHHHHHH-hCCHHHHHH
Q 005869 230 SLPGMGLKRAHALISK-FKSYDKVIK 254 (672)
Q Consensus 230 gIpGIG~KtA~kLIkk-y~sle~Il~ 254 (672)
.|+|||+|||.+|.++ +.|++++.+
T Consensus 125 ~I~GvGpk~a~~ly~~Gi~tledL~~ 150 (381)
T 1jms_A 125 SVFGVGLKTAEKWFRMGFRTLSKIQS 150 (381)
T ss_dssp TSTTCCHHHHHHHHHTTCCSHHHHHH
T ss_pred ccCCCCHHHHHHHHHcCCCcHHHHHh
Confidence 7899999999999877 458888875
No 43
>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=23.98 E-value=61 Score=32.69 Aligned_cols=50 Identities=28% Similarity=0.306 Sum_probs=33.6
Q ss_pred CCCCCCCcHHHHHHHHHHhCCHHHHHHHhhhCCCCCCchhHHHHHHHHHHcCCCeeeCCCCCce
Q 005869 228 LQSLPGMGLKRAHALISKFKSYDKVIKHLKYSTVSVPPFYEESFGKAVLTFQHQRVYDPKTEDI 291 (672)
Q Consensus 228 lpgIpGIG~KtA~kLIkky~sle~Il~~L~~~~~~vP~~Y~e~FrkA~~tFkhq~VfdP~~~~l 291 (672)
+..+||||+|+|.++.-. -| ..+++..+.+-+|....+...-+|..-+.+
T Consensus 14 l~~LPGIG~KSA~RlA~h---------LL-----~~~~~~~~~La~al~~~~~~i~~C~~C~nl 63 (228)
T 1vdd_A 14 LSRLPGIGPKSAQRLAFH---------LF-----EQPREDIERLASALLEAKRDLHVCPICFNI 63 (228)
T ss_dssp HHTSTTCCHHHHHHHHHH---------HS-----SSCHHHHHHHHHHHHHHHHHCEECSSSCCE
T ss_pred HhHCCCCCHHHHHHHHHH---------HH-----cCCHHHHHHHHHHHHHHHhcCeEcCCCCCC
Confidence 357899999999887532 12 234555666777777776777777776554
No 44
>2owo_A DNA ligase; protein-DNA complex, ligase-DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli}
Probab=23.85 E-value=38 Score=39.10 Aligned_cols=26 Identities=15% Similarity=0.235 Sum_probs=22.3
Q ss_pred CCCCCcHHHHHHHHHHhCCHHHHHHH
Q 005869 230 SLPGMGLKRAHALISKFKSYDKVIKH 255 (672)
Q Consensus 230 gIpGIG~KtA~kLIkky~sle~Il~~ 255 (672)
||||||.++|..|.+.|++++++..+
T Consensus 516 gi~~VG~~~Ak~La~~Fgsl~~l~~A 541 (671)
T 2owo_A 516 GIREVGEATAAGLAAYFGTLEALEAA 541 (671)
T ss_dssp TCTTCCHHHHHHHHHHHCSHHHHHTC
T ss_pred cccCccHHHHHHHHHHcCCHHHHHhC
Confidence 78999999999999999998887544
No 45
>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=22.97 E-value=39 Score=32.91 Aligned_cols=22 Identities=27% Similarity=0.406 Sum_probs=18.1
Q ss_pred CCCCCCCCCcHHHHHHHHHHhC
Q 005869 226 DYLQSLPGMGLKRAHALISKFK 247 (672)
Q Consensus 226 DYlpgIpGIG~KtA~kLIkky~ 247 (672)
+.+..+||||.|+|-+++..++
T Consensus 107 ~~L~~vpGIG~K~A~rI~~~lk 128 (191)
T 1ixr_A 107 RLLTSASGVGRRLAERIALELK 128 (191)
T ss_dssp HHHTTSTTCCHHHHHHHHHHHT
T ss_pred HHHHhCCCCCHHHHHHHHHHHH
Confidence 4557899999999999887654
No 46
>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=22.70 E-value=39 Score=35.51 Aligned_cols=27 Identities=19% Similarity=0.458 Sum_probs=22.5
Q ss_pred CCCCCCcHHHHHHHHHH-hCCHHHHHHH
Q 005869 229 QSLPGMGLKRAHALISK-FKSYDKVIKH 255 (672)
Q Consensus 229 pgIpGIG~KtA~kLIkk-y~sle~Il~~ 255 (672)
-.|+|||+|||.+|..+ +.|++++.++
T Consensus 101 ~~V~GiGpk~a~~l~~~Gi~tledL~~a 128 (335)
T 2fmp_A 101 TRVSGIGPSAARKFVDEGIKTLEDLRKN 128 (335)
T ss_dssp TTSTTCCHHHHHHHHHTTCCSHHHHHTC
T ss_pred hCCCCCCHHHHHHHHHcCCCCHHHHHHh
Confidence 47999999999999877 4588888763
No 47
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus}
Probab=22.18 E-value=46 Score=35.36 Aligned_cols=25 Identities=20% Similarity=0.432 Sum_probs=20.9
Q ss_pred CCCCCCcHHHHHHHHHH-hCCHHHHH
Q 005869 229 QSLPGMGLKRAHALISK-FKSYDKVI 253 (672)
Q Consensus 229 pgIpGIG~KtA~kLIkk-y~sle~Il 253 (672)
-+|+|||+|||.+|.++ +.|++++.
T Consensus 105 ~~I~GvG~kta~~l~~~Gi~tledL~ 130 (360)
T 2ihm_A 105 TQVFGVGVKTANRWYQEGLRTLDELR 130 (360)
T ss_dssp HTSTTCCHHHHHHHHHTTCCSHHHHH
T ss_pred hCCCCCCHHHHHHHHHcCCCCHHHHH
Confidence 37899999999999877 44888876
No 48
>3sgi_A DNA ligase; HET: DNA AMP; 3.50A {Mycobacterium tuberculosis}
Probab=21.96 E-value=19 Score=41.19 Aligned_cols=26 Identities=31% Similarity=0.423 Sum_probs=0.0
Q ss_pred CCCCCcHHHHHHHHHHhCCHHHHHHH
Q 005869 230 SLPGMGLKRAHALISKFKSYDKVIKH 255 (672)
Q Consensus 230 gIpGIG~KtA~kLIkky~sle~Il~~ 255 (672)
||||||+++|..|++.|++++++..+
T Consensus 533 GIp~VG~~~ak~La~~Fgsle~L~~A 558 (615)
T 3sgi_A 533 SIRHVGPTAARALATEFGSLDAIAAA 558 (615)
T ss_dssp --------------------------
T ss_pred CCCCCCHHHHHHHHHHcCCHHHHHhC
Confidence 79999999999999999999887655
Done!