Query gi|254781170|ref|YP_003065583.1| deoxyribodipyrimidine photolyase [Candidatus Liberibacter asiaticus str. psy62] Match_columns 483 No_of_seqs 261 out of 3686 Neff 8.8 Searched_HMMs 33803 Date Wed Jun 1 22:46:06 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781170.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >2j4d_A Cryptochrome 3, crypto 100.0 0 0 495.3 8.4 203 277-481 2-206 (209) 2 >2j07_A Deoxyribodipyrimidine 100.0 0 0 448.7 8.7 174 255-436 1-174 (174) 3 >1dnp_A DNA photolyase; DNA re 100.0 0 0 411.4 8.9 162 275-436 2-163 (163) 4 >1u3d_A Cryptochrome 1 apoprot 100.0 0 0 358.1 19.3 241 9-254 13-259 (259) 5 >1owl_A Photolyase, deoxyribod 100.0 0 0 356.4 6.8 139 311-450 2-140 (141) 6 >2e0i_A 432AA long hypothetica 100.0 0 0 351.6 8.2 137 310-448 1-137 (139) 7 >1u3d_A Cryptochrome 1 apoprot 100.0 0 0 346.2 7.6 129 310-438 1-129 (129) 8 >1np7_A DNA photolyase; protei 100.0 0 0 331.0 7.2 127 311-438 2-128 (128) 9 >2wq7_A RE11660P; lyase-DNA co 100.0 0 0 331.4 5.5 127 311-438 2-129 (129) 10 >3fy4_A 6-4 photolyase; DNA re 100.0 0 0 318.8 5.0 127 311-438 2-129 (129) 11 >1owl_A Photolyase, deoxyribod 100.0 3.6E-38 1.1E-42 262.1 17.8 163 7-174 1-165 (196) 12 >2j07_A Deoxyribodipyrimidine 100.0 4.5E-34 1.3E-38 236.0 13.7 148 7-170 1-148 (149) 13 >1dnp_A DNA photolyase; DNA re 100.0 1.3E-31 3.8E-36 220.4 13.2 140 8-148 1-140 (140) 14 >1np7_A DNA photolyase; protei 100.0 6.2E-31 1.8E-35 216.1 16.5 140 1-147 1-146 (146) 15 >2j4d_A Cryptochrome 3, crypto 100.0 1.8E-30 5.3E-35 213.1 16.4 141 1-147 1-150 (150) 16 >1np7_A DNA photolyase; protei 100.0 1.5E-31 4.5E-36 219.9 7.6 150 152-304 5-163 (167) 17 >3fy4_A 6-4 photolyase; DNA re 100.0 1.9E-29 5.5E-34 206.6 13.8 128 8-140 5-142 (142) 18 >2wq7_A RE11660P; lyase-DNA co 100.0 7E-29 2.1E-33 203.0 13.4 131 6-140 27-163 (163) 19 >2e0i_A 432AA long hypothetica 100.0 2.1E-30 6.2E-35 212.7 5.0 133 151-308 1-134 (135) 20 >2e0i_A 432AA long hypothetica 100.0 6.1E-28 1.8E-32 197.0 13.8 129 7-143 1-131 (132) 21 >1owl_A Photolyase, deoxyribod 99.9 1E-26 2.9E-31 189.3 2.9 103 205-308 7-110 (111) 22 >2j4d_A Cryptochrome 3, crypto 99.9 7E-24 2.1E-28 171.2 7.3 129 142-270 28-163 (166) 23 >3fy4_A 6-4 photolyase; DNA re 99.7 3.3E-18 9.8E-23 135.0 3.8 78 193-270 4-90 (95) 24 >1dnp_A DNA photolyase; DNA re 99.7 3.2E-18 9.5E-23 135.1 2.8 68 202-269 11-78 (80) 25 >2wq7_A RE11660P; lyase-DNA co 99.7 4.9E-18 1.5E-22 134.0 2.4 79 191-269 4-89 (94) 26 >3fy4_A 6-4 photolyase; DNA re 99.1 9.2E-11 2.7E-15 87.7 4.4 44 439-482 1-50 (86) 27 >2wq7_A RE11660P; lyase-DNA co 93.1 0.025 7.5E-07 34.0 0.6 23 280-302 61-83 (89) 28 >3fy4_A 6-4 photolyase; DNA re 90.3 0.1 3E-06 30.2 1.1 25 278-302 55-79 (85) 29 >3dlo_A Universal stress prote 67.6 7.9 0.00023 18.1 11.3 82 24-109 40-124 (155) 30 >3a1c_A Probable copper-export 54.1 14 0.0004 16.6 3.9 68 21-111 21-88 (165) 31 >2gvs_A Chemosensory protein C 52.8 3.2 9.6E-05 20.6 -0.1 21 415-435 87-107 (109) 32 >2gm3_A Unknown protein; AT3G0 49.9 16 0.00047 16.2 11.1 104 5-110 2-132 (175) 33 >2ewf_A Nicking endonuclease N 47.5 5.2 0.00015 19.3 0.3 32 333-364 109-148 (153) 34 >1k19_A Chemosensory protein C 45.8 4.1 0.00012 19.9 -0.4 19 415-433 85-103 (112) 35 >2izo_A FEN1, flap structure-s 41.4 22 0.00064 15.4 6.0 13 36-48 69-81 (254) 36 >1k8k_D P34, ARP2/3 complex 34 39.0 10 0.0003 17.4 0.7 15 347-361 136-150 (176) 37 >1qtq_A GLNRS, protein (glutam 38.0 24 0.00072 15.0 2.8 43 35-85 25-67 (150) 38 >3kq5_A Hypothetical cytosolic 35.9 15 0.00043 16.4 1.1 14 418-431 33-46 (70) 39 >3cdl_A Transcriptional regula 35.8 26 0.00078 14.8 2.7 24 335-358 14-37 (51) 40 >3fvv_A Uncharacterized protei 34.2 28 0.00082 14.6 4.8 46 61-110 17-62 (156) 41 >3egq_A TETR family transcript 33.7 22 0.00066 15.2 1.8 24 335-358 9-32 (69) 42 >2cy7_A Cysteine protease APG4 33.6 6.4 0.00019 18.7 -1.0 23 242-264 313-336 (365) 43 >3dwl_D Actin-related protein 33.6 14 0.00042 16.5 0.7 15 347-361 162-176 (201) 44 >1a76_A Flap endonuclease-1 pr 33.1 29 0.00086 14.5 4.2 41 64-108 131-171 (261) 45 >2rjo_A Twin-arginine transloc 32.0 30 0.00089 14.4 8.5 105 59-164 18-122 (152) 46 >2iye_A Copper-transporting AT 31.6 31 0.00091 14.4 6.2 79 14-117 10-88 (164) 47 >3l49_A ABC sugar (ribose) tra 31.3 31 0.00092 14.3 8.3 78 59-139 18-95 (150) 48 >1rxw_A Flap structure-specifi 31.0 31 0.00093 14.3 4.9 88 36-130 72-163 (268) 49 >1b43_A Protein (FEN-1); nucle 29.6 33 0.00098 14.2 4.1 12 36-47 72-83 (263) 50 >1ygr_A CD45 protein tyrosine 29.2 18 0.00052 15.9 0.6 23 328-350 70-93 (130) 51 >2zvr_A Uncharacterized protei 26.8 37 0.0011 13.9 4.8 43 62-104 40-83 (290) 52 >1q77_A Hypothetical protein A 26.6 37 0.0011 13.8 8.4 103 5-110 1-117 (138) 53 >1ub2_A Catalase-peroxidase; K 26.4 23 0.00067 15.2 0.8 32 370-401 22-56 (80) 54 >8abp_A L-arabinose-binding pr 25.7 39 0.0011 13.7 7.5 78 59-140 15-92 (138) 55 >3loq_A Universal stress prote 25.0 40 0.0012 13.6 6.2 95 16-112 29-133 (294) 56 >1nzj_A Hypothetical protein Y 23.1 43 0.0013 13.4 2.3 12 73-84 34-45 (147) 57 >2zy4_A L-aspartate beta-decar 23.1 15 0.00046 16.3 -0.6 17 321-337 80-98 (144) 58 >2hc1_A Receptor-type tyrosine 23.0 19 0.00057 15.7 -0.1 40 312-351 41-82 (120) 59 >2vfr_A Xylitol oxidase, aldit 22.9 20 0.00059 15.6 -0.1 19 414-432 21-39 (42) 60 >1tq8_A Hypothetical protein R 22.2 45 0.0013 13.3 8.3 84 24-108 32-125 (128) 61 >2z08_A Universal stress prote 22.2 45 0.0013 13.3 8.2 84 23-110 16-107 (137) 62 >1zc0_A Tyrosine-protein phosp 22.0 18 0.00053 15.9 -0.4 26 326-351 74-101 (142) 63 >3fiw_A Putative TETR-family t 21.9 46 0.0014 13.3 2.6 25 334-358 29-53 (88) 64 >1n62_A Carbon monoxide dehydr 21.7 40 0.0012 13.7 1.3 28 317-344 122-154 (166) 65 >3ljl_A Transcriptional regula 20.9 43 0.0013 13.4 1.3 24 335-358 19-42 (60) No 1 >>2j4d_A Cryptochrome 3, cryptochrome DASH; DNA-binding protein, flavoprotein, FAD, mitochondrion, plastid, chromophore, chloroplast; HET: FAD MHF; 1.9A {Arabidopsis thaliana} PDB: 2vtb_A* 2ijg_X* 2vtb_B* (A:317-525) Probab=100.00 E-value=0 Score=495.34 Aligned_cols=203 Identities=32% Similarity=0.589 Sum_probs=193.7 Q ss_pred CCHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHCCCHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHH Q ss_conf 72001023202468887888633578886153011012000104678998722788868899999999716763589999 Q gi|254781170|r 277 GAFSWLNELIWREFYRHLMAFYPSVCMGKPFIPWTEKIEWNKDSHLLQAWKQGYTGFPIIDAAMRQLNTIGWMHNRLRMI 356 (483) Q Consensus 277 ~~~~fl~eL~WRef~~~~~~~~P~~~~~~~~~~~~~~~~w~~~~~~~~aW~~G~TG~PlVDA~MR~L~~tG~mhnr~Rm~ 356 (483) |+++|++||+||||++++++++|++.. .++.+.++.++|+++++.|++|++|+||+|+||||||||++|||||||+||| T Consensus 2 ~~e~f~~eL~wRe~~~~~~~~~p~~~~-~~~~~~~~~~~~~~~~~~~~~w~~G~TG~p~vDAamr~L~~tG~lhn~~Rm~ 80 (209) T 2j4d_A 2 STYWVLFELIWRDYFRFLSIKCGNSLF-HLGGPRNVQGKWSQDQKLFESWRDAKTGYPLIDANMKELSTTGFMSNRGRQI 80 (209) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHGGGGT-STTTTTTCCCCCBCCHHHHHHHHTTCSSCHHHHHHHHHHHHHSCCCHHHHHH T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCHHH-HCCCCCCCCCCCCCCCHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHH T ss_conf 337898999998886689871761232-0222100122212231123432311368818999999999863557799999 Q ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHCCCHHCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHCCCCCEEHCCCHHHHCCC Q ss_conf 99999984104700223347766413311147456100201278984702204645898872489978330082432799 Q gi|254781170|r 357 TASFLVKDLLVDWRIGEEYFMSQLLDGDLASNNGGWQWAASTGNDSVPYFRIFNPTIQGKRFDPQGTFIRHWLPELNNVP 436 (483) Q Consensus 357 vaSfl~~~L~idWr~g~~~f~~~llD~d~~~n~~~wq~~a~~G~d~~~~~Ri~np~~q~~~~Dp~g~~ir~wvPeL~~~p 436 (483) ||||||+.|++||+.|++||+++|||||+++|+|||||+||+|+|+.+ +|+|||++|++++||+|+|||+|||||+++| T Consensus 81 vasfl~~~l~~~w~~g~~~f~~~liD~d~a~n~~~wq~~aG~~~~~~~-~r~~~p~~q~~~~Dp~g~yi~~w~pel~~~p 159 (209) T 2j4d_A 81 VCSFLVRDMGLDWRMGAEWFETCLLDYDPCSNYGNWTYGAGVGNDPRE-DRYFSIPKQAQNYDPEGEYVAFWLQQLRRLP 159 (209) T ss_dssp HHHHHHHTSCBCHHHHHHHHHHHCTTCCHHHHHHHHHHHHTCSSCGGG-CCCCCHHHHHHHHCTTCHHHHHHSGGGTTSC T ss_pred HHHHHHHHHCCCHHHHHHHHHHHCCCCCHHHCHHHHHHHHCCCCCCCC-CCCCCHHHHHHHHCCCCCCHHHHCHHHHCCC T ss_conf 999989871668778999999873686443188887898657889998-5046988999985999756687488753699 Q ss_pred HHHHCCHHHHHHHCC--CCCCCCCCCCCHHHHHHHHHHHHHHHHHHC Q ss_conf 778049554013125--789999763189999999999999996400 Q gi|254781170|r 437 TQYIHAPHSWLDKND--LSLNYPLPIVDHKKACHHTLNQYYAAKKQS 481 (483) Q Consensus 437 ~~~ih~p~~~~~~~~--~~~~YP~pivd~~~~~~~a~~~~~~~~k~~ 481 (483) .++||+||.++.... .+.+||.||||++++|++++++|+++|++. T Consensus 160 ~~~i~~p~~~~~~~~~~~~~~yp~pivd~~~~~~~~~~~~~~~~~~~ 206 (209) T 2j4d_A 160 KEKRHWPGRLMYMDTVVPLKHGNGPMAGGSKSGGGFRGSHSGRRSRH 206 (209) T ss_dssp TTTTTSCHHHHTCCCSSCCSCCC------------------------ T ss_pred HHHHCCCCCCCCCCCCCCCCCCCHHHCCHHHHHHHHHHHHHHHHHHC T ss_conf 88806976588443415767796233189999999998888887503 No 2 >>2j07_A Deoxyribodipyrimidine photo-lyase; chromophore, DNA binding protein, flavoprotein, nucleotide- binding, antenna chromophore; HET: FAD HDF; 1.95A {Thermus thermophilus} (A:222-395) Probab=100.00 E-value=0 Score=448.67 Aligned_cols=174 Identities=44% Similarity=0.879 Sum_probs=167.5 Q ss_pred CHHHHHHHHHHHHHHHCCCCCCCCHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHCCCHHCCHHHHHHHHHCCCCCC Q ss_conf 79999999999864311123477200102320246888788863357888615301101200010467899872278886 Q gi|254781170|r 255 SPRQCWNRLKEEFVDLLIKPKSGAFSWLNELIWREFYRHLMAFYPSVCMGKPFIPWTEKIEWNKDSHLLQAWKQGYTGFP 334 (483) Q Consensus 255 S~R~v~~~~~~~~~~~~~~~~~~~~~fl~eL~WRef~~~~~~~~P~~~~~~~~~~~~~~~~w~~~~~~~~aW~~G~TG~P 334 (483) |||+|++++.+. ++++++.|++||+||||++++++++|.... .++.+.++.++|..+++.|++|++|+||+| T Consensus 1 S~R~v~~~~~~~-------~~~~~~~f~~~L~WRe~~~~~~~~~p~~~~-~~~~~~~~~~~~~~~~~~~~~w~~G~TG~p 72 (174) T 2j07_A 1 SPRLAAWEAERR-------GGEGARKWVAELLWRDFSYHLLYHFPWMAE-RPLDPRFQAFPWQEDEALFQAWYEGKTGVP 72 (174) T ss_dssp CHHHHHHHHHHH-------CSHHHHHHHHHHHHHHHHHHHHHHCGGGGT-SCSSGGGTTCCCCCCHHHHHHHHTTCSSCH T ss_pred CHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHCCCCCCCCCCCCHHHHHHHHCCCCCCH T ss_conf 699999999887-------655544445678899999989886678876-531100133333478788633431667853 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHCCCCCCCEEEECCCCCCCCCCCCCHHHH Q ss_conf 88999999997167635899999999998410470022334776641331114745610020127898470220464589 Q gi|254781170|r 335 IIDAAMRQLNTIGWMHNRLRMITASFLVKDLLVDWRIGEEYFMSQLLDGDLASNNGGWQWAASTGNDSVPYFRIFNPTIQ 414 (483) Q Consensus 335 lVDA~MR~L~~tG~mhnr~Rm~vaSfl~~~L~idWr~g~~~f~~~llD~d~~~n~~~wq~~a~~G~d~~~~~Ri~np~~q 414 (483) +||||||||++|||||||+|||||||+|+.|++||++|++||+++|||||+++|++||||+||+|+|+.|++|+|||++| T Consensus 73 ~iDAamr~L~~tG~lhn~~R~~~asfl~~~l~~~w~~g~~~f~~~liD~d~a~n~~~wq~~ag~~~~~~~~~r~~n~~~~ 152 (174) T 2j07_A 73 LVDAAMRELHATGFLSNRARMNAAQFAVKHLLLPWKRCEEAFRHLLLDGDRAVNLQGWQWAGGLGVDAAPYFRVFNPVLQ 152 (174) T ss_dssp HHHHHHHHHHHHSCCCHHHHHHHHHHHHHTSCCCHHHHHHHHHHHCTTCCHHHHHHHHHHHTTSSGGGCCTTCCCCHHHH T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCHHCCHHHHHHHHCCCCCCCCCCEEECHHHH T ss_conf 99999997554357678899999876677503342458999998764876101899988874768889976303489899 Q ss_pred HHHHCCCCCEEHCCCHHHHCCC Q ss_conf 8872489978330082432799 Q gi|254781170|r 415 GKRFDPQGTFIRHWLPELNNVP 436 (483) Q Consensus 415 ~~~~Dp~g~~ir~wvPeL~~~p 436 (483) +++|||+|+|||||||||++|. T Consensus 153 ~~~~Dp~g~yir~w~PeL~~~s 174 (174) T 2j07_A 153 GERHDPEGRWLKRWAPEYPSYA 174 (174) T ss_dssp HHHHSTTSHHHHHHCTTCSSSS T ss_pred HHHHCCCCCCHHHHCCCCCCCC T ss_conf 9987989754777481123799 No 3 >>1dnp_A DNA photolyase; DNA repair, electron transfer, excitation energy transfer, carbon-carbon; HET: DNA FAD MHF; 2.30A {Escherichia coli} (A:264-426) Probab=100.00 E-value=0 Score=411.37 Aligned_cols=162 Identities=70% Similarity=1.368 Sum_probs=156.9 Q ss_pred CCCCHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHCCCHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHH Q ss_conf 47720010232024688878886335788861530110120001046789987227888688999999997167635899 Q gi|254781170|r 275 KSGAFSWLNELIWREFYRHLMAFYPSVCMGKPFIPWTEKIEWNKDSHLLQAWKQGYTGFPIIDAAMRQLNTIGWMHNRLR 354 (483) Q Consensus 275 ~~~~~~fl~eL~WRef~~~~~~~~P~~~~~~~~~~~~~~~~w~~~~~~~~aW~~G~TG~PlVDA~MR~L~~tG~mhnr~R 354 (483) ++++++|++||+||||++++++++|...............+|+.+++.+++|++|+||+|+||||||||++||||||++| T Consensus 2 ~~~~e~f~~~L~wRe~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~w~~G~Tg~p~iDA~mr~L~~tG~lhn~~R 81 (163) T 1dnp_A 2 GGAGSVWLNELIWREFYRHLITYHPSLCKHRPFIAWTDRVQWQSNPAHLQAWQEGKTGYPIVDAAMRQLNSTGWMHNRLR 81 (163) T ss_dssp TSTTHHHHHHHHHHHHHHHHHHHCGGGGGTCCSSGGGGGSCCCCCHHHHHHHHHTCSSCHHHHHHHHHHHHHSCCCHHHH T ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCHHHCCCCCHHHHHHCCCCCHHHHHHHHCCCCCCHHHHHHHHHHHCCCCCCHHHH T ss_conf 45413555479888999998874273121143100223200147878887541487897489999998644575006799 Q ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHCCCCCCCEEEECCCCCCCCCCCCCHHHHHHHHCCCCCEEHCCCHHHHC Q ss_conf 99999999841047002233477664133111474561002012789847022046458988724899783300824327 Q gi|254781170|r 355 MITASFLVKDLLVDWRIGEEYFMSQLLDGDLASNNGGWQWAASTGNDSVPYFRIFNPTIQGKRFDPQGTFIRHWLPELNN 434 (483) Q Consensus 355 m~vaSfl~~~L~idWr~g~~~f~~~llD~d~~~n~~~wq~~a~~G~d~~~~~Ri~np~~q~~~~Dp~g~~ir~wvPeL~~ 434 (483) |+||||||+.|++||+.|++||+++|||+|+|+|++||||+||+|+|+.|++|+|||++|+++|||+|+|||||||||++ T Consensus 82 ~~va~fl~~~l~~~w~~ga~~f~~~liD~d~a~n~~~wq~~~G~~~~~~~~~r~~n~~~~~~~~d~~g~yirr~~pel~~ 161 (163) T 1dnp_A 82 MITASFLVKDLLIDWREGERYFMSQLIDGDLAANNGGWQWAASTGTDAAPYFRIFNPTTQGEKFDHEGEFIRQWLPELRD 161 (163) T ss_dssp HHHHHHHHHTSCCCHHHHHHHHHTTCTTCCHHHHHHHHHHHTTCSTTCCCTTCCCCHHHHHHHHTTTCHHHHHHCGGGTT T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHCCCCCCHHHHCHHHHC T ss_conf 99999999852534655399999761168712175877877364888998654168989999869798757773866307 Q ss_pred CC Q ss_conf 99 Q gi|254781170|r 435 VP 436 (483) Q Consensus 435 ~p 436 (483) +| T Consensus 162 ~P 163 (163) T 1dnp_A 162 VP 163 (163) T ss_dssp SC T ss_pred CC T ss_conf 99 No 4 >>1u3d_A Cryptochrome 1 apoprotein; photolyase, AMPPNP, signaling protein; HET: FAD ANP NDS; 2.45A {Arabidopsis thaliana} (A:1-259) Probab=100.00 E-value=0 Score=358.08 Aligned_cols=241 Identities=22% Similarity=0.293 Sum_probs=203.5 Q ss_pred EEEEEECCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCC Q ss_conf 26888358675567789999999579829999973837847888998999999999999999999759809999657535 Q gi|254781170|r 9 VHLVWLRNDLRITDNKALYAACHNSDAKVIAVFIATPEQWRQHGISARQSHFIYASLLQVQKSLSQKGIVFQYHQCSNFD 88 (483) Q Consensus 9 ~~IvWfRrDLRl~DN~aL~~A~~~~~~~vlpvyi~dp~~~~~~~~~~~~~~Fl~esL~~L~~~L~~~g~~L~v~~~~~~g 88 (483) ++|||||||||++||+||.+|++.+ +++||||+||.+++....|++|++|+++||.+|+++|+++|++|+++.|+ T Consensus 13 ~~i~WfrrDlRl~DN~aL~~A~~~~--~~l~v~v~d~~~~~~~~~~~~~~~fl~esL~~L~~~L~~~G~~L~v~~g~--- 87 (259) T 1u3d_A 13 CSIVWFRRDLRVEDNPALAAAVRAG--PVIALFVWAPEEEGHYHPGRVSRWWLKNSLAQLDSSLRSLGTCLITKRST--- 87 (259) T ss_dssp CEEEEESSCCCSTTCHHHHHHHHHS--CEEEEEEECGGGGTTCCCCHHHHHHHHHHHHHHHHHHHHTTCCEEEEECS--- T ss_pred EEEEEECCCCCHHHHHHHHHHHCCC--CEEEEEEECCHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEECC--- T ss_conf 5899979996541489999998499--98999997733325899668999999999999999999879967999688--- Q ss_pred CHHHHHHHHHHHCCCCCEEEECCCCCHHHHCCHHHHHHHHH-CCCCEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHH Q ss_conf 08999999998709761421001110011001026888752-00000022343455576002378644321014799886 Q gi|254781170|r 89 DSIEWLDSYCLQQRVTKLFYNRQYEINEVRRDKLLEKRLQH-RVICKSFDDSVLLPPGSILNHALQMYKVYTPFRKALIQ 167 (483) Q Consensus 89 ~~~~~L~~l~~~~~i~~v~~n~~~~~~~~~rd~~i~~~l~~-~~~~~~~~~~~l~~p~~i~~~~~~~~~vftpf~k~~~~ 167 (483) .+.++|.+++++++++.|+++.+|++++++||+.|.+.|+. ++.+..++++++++|+.+.+..+.+|++||||+++|.. T Consensus 88 ~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~~d~~i~~~~~~~~i~~~~~~~~~l~~~~~~~~~~~~~~~~f~~f~~~~~~ 167 (259) T 1u3d_A 88 DSVASLLDVVKSTGASQIFFNHLYDPLSLVRDHRAKDVLTAQGIAVRSFNADLLYEPWEVTDELGRPFSMFAAFWERCLS 167 (259) T ss_dssp CHHHHHHHHHHHHTCCEEEEECCCSHHHHHHHHHHHHHHHTTTCEEEEECCSCSSCGGGCCCSSSCCCSSHHHHHHHHHT T ss_pred CHHHHHHHHHHHHCCCEEEEECCCCHHHHHCCCCCCHHHHHCCEEEEECCCCCCCHHCCCCCCCCCCCCHHHHHHHHHHH T ss_conf 86999999999819988999332160454201011002330580799604643100002345678863025889999986 Q ss_pred HCCCCCCCCCCCCCCCCCCCCCCC-CCC---CCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCC Q ss_conf 315663221245544567766755-575---323476-434554688876433322111111101101202686545666 Q gi|254781170|r 168 NLVQADLRSLPVPAIRLTGPVTPS-NIP---RFFDYP-FQAIDPMFPIGEQNALHILRKFCKEKVYYYVEQRDIPAIQGT 242 (483) Q Consensus 168 ~~~~~~~~~~p~~~~~~~~~~~~~-~~~---~~~~~~-~~~~~~~~~gGe~~A~~~L~~Fl~~~l~~Y~~~Rn~p~~~~t 242 (483) .....++...+............. ... ...... .......|+|||.+|+++|++|+++++.+|+++||.|+.++| T Consensus 168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gge~~A~~~L~~Fl~~~l~~Y~~~Rn~p~~~~t 247 (259) T 1u3d_A 168 MPYDPESPLLPPKKIISGDVSKCVADPLVFEDDSEKGSNALLARAWSPGWSNGDKALTTFINGPLLEYSKNRRKADSATT 247 (259) T ss_dssp CSSCCCCCCCCCSCCCBTTGGGSSCCCCCCCCHHHHHHHTTHHHHCCCSHHHHHHHHHHHHTTGGGGTTTTTTCSSSTTS T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCH T ss_conf 31124666564311233443222123444332222573112455257303678876533331122201245431100000 Q ss_pred CCCCHHHCCCCC Q ss_conf 544611114648 Q gi|254781170|r 243 SQLSPYLSIGVL 254 (483) Q Consensus 243 SrLSPyL~~G~I 254 (483) |+|||||+|||| T Consensus 248 S~LSpyL~~G~I 259 (259) T 1u3d_A 248 SFLSPHLHFGEV 259 (259) T ss_dssp CCCHHHHHTTSS T ss_pred HCCCCCCCCCCC T ss_conf 002200132437 No 5 >>1owl_A Photolyase, deoxyribodipyrimidine photolyase; DNA repair, flavin enzyme, photoreactivating enzyme; HET: FAD; 1.80A {Synechococcus elongatus pcc 6301} (A:308-448) Probab=100.00 E-value=0 Score=356.35 Aligned_cols=139 Identities=53% Similarity=0.989 Sum_probs=134.2 Q ss_pred HHCCCHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHCCCC Q ss_conf 10120001046789987227888688999999997167635899999999998410470022334776641331114745 Q gi|254781170|r 311 TEKIEWNKDSHLLQAWKQGYTGFPIIDAAMRQLNTIGWMHNRLRMITASFLVKDLLVDWRIGEEYFMSQLLDGDLASNNG 390 (483) Q Consensus 311 ~~~~~w~~~~~~~~aW~~G~TG~PlVDA~MR~L~~tG~mhnr~Rm~vaSfl~~~L~idWr~g~~~f~~~llD~d~~~n~~ 390 (483) +++++|++|++.+++|++|+||+|+||||||||++|||||||+|||||||||+.|++||+.|++||+++|||||+++|++ T Consensus 2 ~d~~~~~~~~~~~~~w~~G~Tg~p~vDAamrqL~~tG~lh~~~R~~va~~l~~~l~~~w~~g~~~f~~~liD~d~~~~~~ 81 (141) T 1owl_A 2 WQQFPWENREALFTAWTQAQTGYPIVDAAMRQLTETGWMHNRCRMIVASFLTKDLIIDWRRGEQFFMQHLVDGDLAANNG 81 (141) T ss_dssp GGGCCCCCCHHHHHHHHTTCSSCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTSCCCTHHHHHHHHTTCTTCCHHHHHH T ss_pred HHCCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCCHH T ss_conf 20378644789999998376897279999999998698458999999999976579888999999998613588667977 Q ss_pred CCCEEEECCCCCCCCCCCCCHHHHHHHHCCCCCEEHCCCHHHHCCCHHHHCCHHHHHHHC Q ss_conf 610020127898470220464589887248997833008243279977804955401312 Q gi|254781170|r 391 GWQWAASTGNDSVPYFRIFNPTIQGKRFDPQGTFIRHWLPELNNVPTQYIHAPHSWLDKN 450 (483) Q Consensus 391 ~wq~~a~~G~d~~~~~Ri~np~~q~~~~Dp~g~~ir~wvPeL~~~p~~~ih~p~~~~~~~ 450 (483) +|||+||+|+|+. ++|+|||++|+.++||+|+|||||||||+++|.++||+||+++... T Consensus 82 ~wq~~aG~~~~~~-~~r~~~~~~~~~~~dp~g~~ir~~~Pel~~l~~~~i~~p~~~~~~~ 140 (141) T 1owl_A 82 GWQWSASSGMDPK-PLRIFNPASQAKKFDATATYIKRWLPELRHVHPKDLISGEITPIER 140 (141) T ss_dssp HHHHTTTCSSSCC-CCCCCCHHHHHHHHSTTCHHHHHHCGGGTTSCHHHHHHTCCCHHHH T ss_pred HHHEEEEECCCCC-CCEEECHHHHHHHHCCCCCCHHHHCHHHCCCCHHHHCCCCCCCCCC T ss_conf 7633431056999-8631078899998499976177739653279967853902065445 No 6 >>2e0i_A 432AA long hypothetical deoxyribodipyrimidine photolyase; FAD, DNA repair; HET: FAD; 2.80A {Sulfolobus tokodaii str} (A:268-406) Probab=100.00 E-value=0 Score=351.63 Aligned_cols=137 Identities=49% Similarity=0.907 Sum_probs=132.1 Q ss_pred HHHCCCHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHCCC Q ss_conf 11012000104678998722788868899999999716763589999999999841047002233477664133111474 Q gi|254781170|r 310 WTEKIEWNKDSHLLQAWKQGYTGFPIIDAAMRQLNTIGWMHNRLRMITASFLVKDLLVDWRIGEEYFMSQLLDGDLASNN 389 (483) Q Consensus 310 ~~~~~~w~~~~~~~~aW~~G~TG~PlVDA~MR~L~~tG~mhnr~Rm~vaSfl~~~L~idWr~g~~~f~~~llD~d~~~n~ 389 (483) +++.++|+++++.+++|++|+||+|+||||||||++||||||++|||||||+|+.|++||+.|+.||+++|||||++||+ T Consensus 1 ~~~~r~~~~~~~~~~~w~~G~Tg~p~idAamr~L~~tG~lh~~~R~~va~~~~~~l~~~w~~g~~~f~~~liD~d~~~n~ 80 (139) T 2e0i_A 1 EYDNISWENNESYFEAWKEGRTGYPIIDAGMRMLNSTGYINGRVRMLVAFFLVKVLFVDWRWGERYFATKLVDYDPAINN 80 (139) T ss_dssp GGGGCCCCCCHHHHHHHHHTCSSCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTSCCCHHHHHHHHHHHCTTCCHHHHH T ss_pred HHCCCCCCCCHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCH T ss_conf 20135653698987333269878549999999840304403378899999999973440555699998764138746697 Q ss_pred CCCCEEEECCCCCCCCCCCCCHHHHHHHHCCCCCEEHCCCHHHHCCCHHHHCCHHHHHH Q ss_conf 56100201278984702204645898872489978330082432799778049554013 Q gi|254781170|r 390 GGWQWAASTGNDSVPYFRIFNPTIQGKRFDPQGTFIRHWLPELNNVPTQYIHAPHSWLD 448 (483) Q Consensus 390 ~~wq~~a~~G~d~~~~~Ri~np~~q~~~~Dp~g~~ir~wvPeL~~~p~~~ih~p~~~~~ 448 (483) +||||+||++.++.+ |+|||++|++++||+|+|||+|||||+++|.++||+||.++. T Consensus 81 ~~wq~~aG~~~~~~~--~~~~~~~~~~~~D~~G~yir~~~pel~~~p~~~i~~p~~~~~ 137 (139) T 2e0i_A 81 GNWQWIASTGVDYMF--RVFNPWKQQEKFDPEAKFIKEWVEELKDVPPSIIHSIYKTKV 137 (139) T ss_dssp HHHHHHTTSSSCCSC--CCCCHHHHHHHHCTTCHHHHHHCGGGGGSCHHHHTTTTTSCC T ss_pred HHCEEHHCCCCCCCC--EEECHHHHHHHHCCCCCCHHHHCHHHHCCCHHHHCCHHHCCC T ss_conf 757001057888775--202898999985989751887485733599778479623866 No 7 >>1u3d_A Cryptochrome 1 apoprotein; photolyase, AMPPNP, signaling protein; HET: FAD ANP NDS; 2.45A {Arabidopsis thaliana} (A:318-446) Probab=100.00 E-value=0 Score=346.17 Aligned_cols=129 Identities=45% Similarity=0.933 Sum_probs=126.0 Q ss_pred HHHCCCHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHCCC Q ss_conf 11012000104678998722788868899999999716763589999999999841047002233477664133111474 Q gi|254781170|r 310 WTEKIEWNKDSHLLQAWKQGYTGFPIIDAAMRQLNTIGWMHNRLRMITASFLVKDLLVDWRIGEEYFMSQLLDGDLASNN 389 (483) Q Consensus 310 ~~~~~~w~~~~~~~~aW~~G~TG~PlVDA~MR~L~~tG~mhnr~Rm~vaSfl~~~L~idWr~g~~~f~~~llD~d~~~n~ 389 (483) +++.++|+++++.+++|++|+||+|+||||||||++||||||++|||||||||+.|++|||+|+.||+++|||||+++|+ T Consensus 1 ~~~~~~~~~~~~~~e~w~~G~Tg~p~idAamrqL~~tG~~h~~~R~~va~~l~~~l~~~w~~g~~~f~~~liD~d~a~n~ 80 (129) T 1u3d_A 1 HLKFFPWAVDENYFKAWRQGRTGYPLVDAGMRELWATGWLHDRIRVVVSSFFVKVLQLPWRWGMKYFWDTLLDADLESDA 80 (129) T ss_dssp TTTTCCCCCCHHHHHHHHHTCSSCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTSCCCHHHHHHHHHHHCTTCCHHHHH T ss_pred CCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCH T ss_conf 00345333687999988500028866999999999851146899999998989871611667678899996536747585 Q ss_pred CCCCEEEECCCCCCCCCCCCCHHHHHHHHCCCCCEEHCCCHHHHCCCHH Q ss_conf 5610020127898470220464589887248997833008243279977 Q gi|254781170|r 390 GGWQWAASTGNDSVPYFRIFNPTIQGKRFDPQGTFIRHWLPELNNVPTQ 438 (483) Q Consensus 390 ~~wq~~a~~G~d~~~~~Ri~np~~q~~~~Dp~g~~ir~wvPeL~~~p~~ 438 (483) +||||++|+|+|+.|++|+|||++|++++||+|+|||+|||||+++|.+ T Consensus 81 ~~w~w~~G~~~~~~~~~r~~~~i~~~~~~d~~g~yi~~~~pel~~~P~e 129 (129) T 1u3d_A 81 LGWQYITGTLPDSREFDRIDNPQFEGYKFDPNGEYVRRWLPELSRLPTD 129 (129) T ss_dssp HHHHHHHTCSTTCCCSSCCCCHHHHHHHHCTTSHHHHHHCGGGTTCCHH T ss_pred HHHHHHHCCCCCCCCCCEECCHHHHHHHHCCCCCHHHHHCHHHHCCCHH T ss_conf 8677362378888883013598899998688975188849241149977 No 8 >>1np7_A DNA photolyase; protein with FAD cofactor; HET: DNA FAD; 1.90A {Synechocystis SP} (A:314-441) Probab=100.00 E-value=0 Score=330.99 Aligned_cols=127 Identities=48% Similarity=0.936 Sum_probs=122.9 Q ss_pred HHCCCHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHCCCC Q ss_conf 10120001046789987227888688999999997167635899999999998410470022334776641331114745 Q gi|254781170|r 311 TEKIEWNKDSHLLQAWKQGYTGFPIIDAAMRQLNTIGWMHNRLRMITASFLVKDLLVDWRIGEEYFMSQLLDGDLASNNG 390 (483) Q Consensus 311 ~~~~~w~~~~~~~~aW~~G~TG~PlVDA~MR~L~~tG~mhnr~Rm~vaSfl~~~L~idWr~g~~~f~~~llD~d~~~n~~ 390 (483) ++.++|++|.+.+++|++|+||+|+||||||||++||||||++|||||||+++.|++|||.|++||+++|||||+++|++ T Consensus 2 ~~~~~~~~~~~~~~~w~~G~Tg~p~idaamr~L~~~G~~H~~~R~~va~~~~~~l~~~w~~g~~~f~~~liD~d~~~~~~ 81 (128) T 1np7_A 2 NKNFPWQEDQVRFELWRSGQTGYPLVDANMRELNLTGFMSNRGRQNVASFLCKNLGIDWRWGAEWFESCLIDYDVCSNWG 81 (128) T ss_dssp TCCCCCBCCHHHHHHHHTTCSSCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCBCHHHHHHHHHHHCTTCCHHHHHH T ss_pred CCCCCCCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCHHHCHH T ss_conf 43466535545556523489999457999999998788268999999999985678790789999998714765532888 Q ss_pred CCCEEEECCCCCCCCCCCCCHHHHHHHHCCCCCEEHCCCHHHHCCCHH Q ss_conf 610020127898470220464589887248997833008243279977 Q gi|254781170|r 391 GWQWAASTGNDSVPYFRIFNPTIQGKRFDPQGTFIRHWLPELNNVPTQ 438 (483) Q Consensus 391 ~wq~~a~~G~d~~~~~Ri~np~~q~~~~Dp~g~~ir~wvPeL~~~p~~ 438 (483) +|||++|+|++..+ +|+|||++|++++||+|+|||+|||||+++|.+ T Consensus 82 ~wq~~~G~~~~~~~-~r~~~~~~~~~~~dp~g~y~~~~~pel~~~P~e 128 (128) T 1np7_A 82 NWNYTAGIGNDARD-FRYFNIPKQSQQYDPQGTYLRHWLPELKNLPGD 128 (128) T ss_dssp HHHHHHTSSCCTTS-CCCCCHHHHHHHHSTTSHHHHHHCGGGTTCCSG T ss_pred HHHHHHCCCCCCCC-CEECCHHHHHHHHCCCCCCHHHHCHHHHCCCHH T ss_conf 77888547889998-611388899998698976578748764169977 No 9 >>2wq7_A RE11660P; lyase-DNA complex, DNA repair, DNA lesion, lyase; HET: TDY Z FAD; 2.00A {Drosophila melanogaster} PDB: 2wb2_A* 2wq6_A* 3cvu_A* 3cvv_A* 3cvy_A* 3cvw_A* 3cvx_A* (A:347-475) Probab=100.00 E-value=0 Score=331.41 Aligned_cols=127 Identities=42% Similarity=0.862 Sum_probs=121.2 Q ss_pred HHCCCHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHH-HHCCCHHHHHHHHHHHHHCCCHHCCC Q ss_conf 10120001046789987227888688999999997167635899999999998-41047002233477664133111474 Q gi|254781170|r 311 TEKIEWNKDSHLLQAWKQGYTGFPIIDAAMRQLNTIGWMHNRLRMITASFLVK-DLLVDWRIGEEYFMSQLLDGDLASNN 389 (483) Q Consensus 311 ~~~~~w~~~~~~~~aW~~G~TG~PlVDA~MR~L~~tG~mhnr~Rm~vaSfl~~-~L~idWr~g~~~f~~~llD~d~~~n~ 389 (483) .+..+|+++++.+++|++|+||+|+||||||||++|||||||+|||||||+++ .+++|||.|+.||+++|+|||+++|+ T Consensus 2 ~~~~~~~~~~~~~~~w~~G~Tg~p~vdaamr~L~~tG~lh~~~R~~~as~l~~~~~~~~w~~g~~~~~~~l~D~d~a~~~ 81 (129) T 2wq7_A 2 CMQIPWQEHPDHLEAWTHGRTGYPFIDAIMRQLRQEGWIHHLARHAVACFLTRGDLWISWEEGQRVFEQLLLDQDWALNA 81 (129) T ss_dssp CCCCCCCCCHHHHHHHHTTCSSCHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTTTTCCCHHHHHHHHHHHCTTCCHHHHH T ss_pred HHCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCH T ss_conf 32257200045778741599998079999999999768418999999999998640888689999999877696711489 Q ss_pred CCCCEEEECCCCCCCCCCCCCHHHHHHHHCCCCCEEHCCCHHHHCCCHH Q ss_conf 5610020127898470220464589887248997833008243279977 Q gi|254781170|r 390 GGWQWAASTGNDSVPYFRIFNPTIQGKRFDPQGTFIRHWLPELNNVPTQ 438 (483) Q Consensus 390 ~~wq~~a~~G~d~~~~~Ri~np~~q~~~~Dp~g~~ir~wvPeL~~~p~~ 438 (483) ++|||+||+|.|.. ++|+|||++|+++|||+|+|||||+|||+++|+. T Consensus 82 ~~wq~~aG~~~~~~-~~r~~n~~~~~~~~d~~g~yi~rw~pel~~~P~~ 129 (129) T 2wq7_A 82 GNWMWLSASAFFHQ-YFRVYSPVAFGKKTDPQGHYIRKYVPELSKYPAG 129 (129) T ss_dssp HHHHHHTTSSSCCC-TTCCCCTTTGGGGTCTTCHHHHHHSGGGTTSCHH T ss_pred HHHHHHHCCCCCCC-CCCCCCHHHHHHHHCCCCCCHHHHCHHHHCCCHH T ss_conf 99999864888998-6722388899998599986617738773269977 No 10 >>3fy4_A 6-4 photolyase; DNA repair, clock cryptochrome; HET: MES FAD; 2.70A {Arabidopsis thaliana} (A:323-451) Probab=100.00 E-value=0 Score=318.78 Aligned_cols=127 Identities=43% Similarity=0.861 Sum_probs=121.3 Q ss_pred HHCCCHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHCCCHHCCC Q ss_conf 10120001046789987227888688999999997167635899999999998410-47002233477664133111474 Q gi|254781170|r 311 TEKIEWNKDSHLLQAWKQGYTGFPIIDAAMRQLNTIGWMHNRLRMITASFLVKDLL-VDWRIGEEYFMSQLLDGDLASNN 389 (483) Q Consensus 311 ~~~~~w~~~~~~~~aW~~G~TG~PlVDA~MR~L~~tG~mhnr~Rm~vaSfl~~~L~-idWr~g~~~f~~~llD~d~~~n~ 389 (483) ++..+|+++.+.+++|++|+||+|+||||||||++||||||++|||||||+|+.|. +||+.|++||+++|||||+++|+ T Consensus 2 t~~~~~~~~~~~~~~~~~G~Tg~p~vdaa~r~L~~tG~~h~~~R~~~a~~~~~~l~~~~w~~g~~~f~~~~iD~~~~~n~ 81 (129) T 3fy4_A 2 CKQIPWNEDHAMLAAWRDGKTGYPWIDAIMVQLLKWGWMHHLARHCVACFLTRGDLFIHWEQGRDVFERLLIDSDWAINN 81 (129) T ss_dssp SCCCCCBCCHHHHHHHHTTCSSCHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTTTTCBCHHHHHHHHHHHCTTCCHHHHH T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCCH T ss_conf 23454335630012332234688289999999754154242889999999987413887666299988547586703677 Q ss_pred CCCCEEEECCCCCCCCCCCCCHHHHHHHHCCCCCEEHCCCHHHHCCCHH Q ss_conf 5610020127898470220464589887248997833008243279977 Q gi|254781170|r 390 GGWQWAASTGNDSVPYFRIFNPTIQGKRFDPQGTFIRHWLPELNNVPTQ 438 (483) Q Consensus 390 ~~wq~~a~~G~d~~~~~Ri~np~~q~~~~Dp~g~~ir~wvPeL~~~p~~ 438 (483) +||||+||+|.|.. ++|+|||++|+++|||+|+|||||+|||+.+|++ T Consensus 82 ~~w~~~aG~~~~~~-~~r~~n~~~~~~~~d~~g~yi~~~~pel~~~P~e 129 (129) T 3fy4_A 82 GNWMWLSCSSFFYQ-FNRIYSPISFGKKYDPDGKYIRHFLPVLKDMPKQ 129 (129) T ss_dssp HHHHHHTTSSSCCC-TTCCCCTTTTGGGTCTTCHHHHHHCGGGTTCCTT T ss_pred HHHHHHHCCCCCCC-CCCCCCHHHHHHHHCCCCCCHHHHCHHHHCCCHH T ss_conf 87645421478776-5542689899998599975299859664269977 No 11 >>1owl_A Photolyase, deoxyribodipyrimidine photolyase; DNA repair, flavin enzyme, photoreactivating enzyme; HET: FAD; 1.80A {Synechococcus elongatus pcc 6301} (A:1-196) Probab=100.00 E-value=3.6e-38 Score=262.10 Aligned_cols=163 Identities=24% Similarity=0.366 Sum_probs=153.5 Q ss_pred CC-EEEEEECCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECC Q ss_conf 64-26888358675567789999999579829999973837847888998999999999999999999759809999657 Q gi|254781170|r 7 MS-VHLVWLRNDLRITDNKALYAACHNSDAKVIAVFIATPEQWRQHGISARQSHFIYASLLQVQKSLSQKGIVFQYHQCS 85 (483) Q Consensus 7 M~-~~IvWfRrDLRl~DN~aL~~A~~~~~~~vlpvyi~dp~~~~~~~~~~~~~~Fl~esL~~L~~~L~~~g~~L~v~~~~ 85 (483) |+ ..|||||||||++||+||.+|++.++ +|+||||+||.+++.+..|.+|.+|+++||.+|+++|+++|++|+++. T Consensus 1 M~~~vi~WfrrDLRl~DN~aL~~A~~~~~-~v~~v~v~dp~~~~~~~~~~~r~~fl~~sL~~L~~~L~~~g~~L~v~~-- 77 (196) T 1owl_A 1 MAAPILFWHRRDLRLSDNIGLAAARAQSA-QLIGLFCLDPQILQSADMAPARVAYLQGCLQELQQRYQQAGSRLLLLQ-- 77 (196) T ss_dssp --CCEEEEESSCCCSSSCHHHHHHHHHCS-CEEEEEEECHHHHTCTTCCHHHHHHHHHHHHHHHHHHHHHTSCEEEEE-- T ss_pred CCCCEEEEECCCCCHHHHHHHHHHHHCCC-CEEEEEEECHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEE-- T ss_conf 99878999789853505899999996699-799999987667518997899999999999999999997899579999-- Q ss_pred CCCCHHHHHHHHHHHCCCCCEEEECCCCCHHHHCCHHHHHHHHH-CCCCEECCCCCCCCCCCCCCCCCCCCCCCHHHHHH Q ss_conf 53508999999998709761421001110011001026888752-00000022343455576002378644321014799 Q gi|254781170|r 86 NFDDSIEWLDSYCLQQRVTKLFYNRQYEINEVRRDKLLEKRLQH-RVICKSFDDSVLLPPGSILNHALQMYKVYTPFRKA 164 (483) Q Consensus 86 ~~g~~~~~L~~l~~~~~i~~v~~n~~~~~~~~~rd~~i~~~l~~-~~~~~~~~~~~l~~p~~i~~~~~~~~~vftpf~k~ 164 (483) |++.++|.+++++++|+.|++|++|+++++++|..|++.|+. ++.+..+++++|++|+.+.++.+.+|+|||||+|+ T Consensus 78 --g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~~~~~i~~~l~~~~i~~~~~~~~~l~~~~~~~~~~~~~~~vftpf~k~ 155 (196) T 1owl_A 78 --GDPQHLIPQLAQQLQAEAVYWNQDIEPYGRDRDGQVAAALKTAGIRAVQLWDQLLHSPDQILSGSGNPYSVYGPFWKN 155 (196) T ss_dssp --SCHHHHHHHHHHHTTCSEEEEECCCSHHHHHHHHHHHHHHHHTTCEEEEECCSSSSCTTTCCCTTSCCCSSHHHHHHH T ss_pred --ECHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCEECCCEEECCCCCCCCCCCHHHHH T ss_conf --478999999999849988999601464045666554333311583001035652026762133799975322188999 Q ss_pred HHHHCCCCCC Q ss_conf 8863156632 Q gi|254781170|r 165 LIQNLVQADL 174 (483) Q Consensus 165 ~~~~~~~~~~ 174 (483) |.+...+.+. T Consensus 156 ~~~~~~~~~~ 165 (196) T 1owl_A 156 WQAQPKPTPV 165 (196) T ss_dssp HHHSCCCCCC T ss_pred HHHCCCCCCC T ss_conf 9855555666 No 12 >>2j07_A Deoxyribodipyrimidine photo-lyase; chromophore, DNA binding protein, flavoprotein, nucleotide- binding, antenna chromophore; HET: FAD HDF; 1.95A {Thermus thermophilus} (A:1-149) Probab=100.00 E-value=4.5e-34 Score=235.99 Aligned_cols=148 Identities=19% Similarity=0.274 Sum_probs=135.8 Q ss_pred CCEEEEEECCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCC Q ss_conf 64268883586755677899999995798299999738378478889989999999999999999997598099996575 Q gi|254781170|r 7 MSVHLVWLRNDLRITDNKALYAACHNSDAKVIAVFIATPEQWRQHGISARQSHFIYASLLQVQKSLSQKGIVFQYHQCSN 86 (483) Q Consensus 7 M~~~IvWfRrDLRl~DN~aL~~A~~~~~~~vlpvyi~dp~~~~~~~~~~~~~~Fl~esL~~L~~~L~~~g~~L~v~~~~~ 86 (483) |++.|||||||||++||+||.+|++. +++++|||++|.++ +.|++|.+|++|||.+|+++|+++|++|+++. T Consensus 1 m~~~i~Wfr~DLRl~DN~aL~~A~~~--~~~i~v~~~~~~~~---~~~~~r~~Fl~esl~~L~~~L~~~g~~L~v~~--- 72 (149) T 2j07_A 1 MGPLLVWHRGDLRLHDHPALLEALAR--GPVVGLVVLDPNNL---KTTPRRRAWFLENVRALREAYRARGGALWVLE--- 72 (149) T ss_dssp -CCEEEEESSCCCSTTCHHHHHHHTT--SCEEEEEEECHHHH---SSCHHHHHHHHHHHHHHHHHHHHTTCCEEEEE--- T ss_pred CCCEEEEECCCCCHHHHHHHHHHHCC--CCEEEEEEECCCCC---CCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEE--- T ss_conf 99889998998534136999999847--99899999867332---34999999999999999999996899779999--- Q ss_pred CCCHHHHHHHHHHHCCCCCEEEECCCCCHHHHCCHHHHHHHHHCCCCEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHHH Q ss_conf 35089999999987097614210011100110010268887520000002234345557600237864432101479988 Q gi|254781170|r 87 FDDSIEWLDSYCLQQRVTKLFYNRQYEINEVRRDKLLEKRLQHRVICKSFDDSVLLPPGSILNHALQMYKVYTPFRKALI 166 (483) Q Consensus 87 ~g~~~~~L~~l~~~~~i~~v~~n~~~~~~~~~rd~~i~~~l~~~~~~~~~~~~~l~~p~~i~~~~~~~~~vftpf~k~~~ 166 (483) |++.++|.+++++++|+.||+|++|++++.++|+.|++.|+.. +.++++|+.++++.+++|++||||+|+|. T Consensus 73 -g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~~~~i~~~l~~~-------~~~l~~~~~i~~~~~~~~~vft~F~k~~~ 144 (149) T 2j07_A 73 -GLPWEKVPEAARRLKAKAVYALTSHTPYGRYRDGRVREALPVP-------LHLLPAPHLLPPDLPRAYRVYTPFSRLYR 144 (149) T ss_dssp -SCHHHHHHHHHHHTTCSEEEEECCCSHHHHHHHHHHHHHCSSC-------EEEECCCCSSCTTCSSCCSSHHHHHTTCC T ss_pred -ECHHHHHHHHHHHHHCCHHHCCCCHHHHHHHHHHHHHHHHHCC-------CEEECCCCEEEECCCCCCCCCHHHHHHHH T ss_conf -6879999999997411012203100013556677776654301-------11211120353026885323227888876 Q ss_pred HHCC Q ss_conf 6315 Q gi|254781170|r 167 QNLV 170 (483) Q Consensus 167 ~~~~ 170 (483) +.+. T Consensus 145 ~~l~ 148 (149) T 2j07_A 145 GAAP 148 (149) T ss_dssp CCCC T ss_pred HCCC T ss_conf 4137 No 13 >>1dnp_A DNA photolyase; DNA repair, electron transfer, excitation energy transfer, carbon-carbon; HET: DNA FAD MHF; 2.30A {Escherichia coli} (A:1-140) Probab=99.97 E-value=1.3e-31 Score=220.38 Aligned_cols=140 Identities=49% Similarity=0.880 Sum_probs=132.0 Q ss_pred CEEEEEECCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCC Q ss_conf 42688835867556778999999957982999997383784788899899999999999999999975980999965753 Q gi|254781170|r 8 SVHLVWLRNDLRITDNKALYAACHNSDAKVIAVFIATPEQWRQHGISARQSHFIYASLLQVQKSLSQKGIVFQYHQCSNF 87 (483) Q Consensus 8 ~~~IvWfRrDLRl~DN~aL~~A~~~~~~~vlpvyi~dp~~~~~~~~~~~~~~Fl~esL~~L~~~L~~~g~~L~v~~~~~~ 87 (483) |++|||||||||++||+||.+|++.++.+++||||++|.+++.+..|++|++|+++||.+|+++|+++|++|+++.|... T Consensus 1 s~~l~Wfr~DLRl~DN~aL~~A~~~~~~~~~~v~v~~~~~~~~~~~~~~~~~Fl~esL~~L~~~L~~~g~~L~v~~g~~~ 80 (140) T 1dnp_A 1 TTHLVWFRQDLRLHDNLALAAACRNSSARVLALYIATPRQWATHNMSPRQAELINAQLNGLQIALAEKGIPLLFREVDDF 80 (140) T ss_dssp CEEEEECSSCCCSTTCHHHHHHSSSTTSEEEEEEEECHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHTTCCEEEEECSSH T ss_pred CCEEEECCCCCCCCHHHHHHHHHHCCCCCEEEEEEECCHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCC T ss_conf 94899828985444589999999749996899999872564489968999999999999999999977996799976754 Q ss_pred CCHHHHHHHHHHHCCCCCEEEECCCCCHHHHCCHHHHHHHHHCCCCEECCCCCCCCCCCCC Q ss_conf 5089999999987097614210011100110010268887520000002234345557600 Q gi|254781170|r 88 DDSIEWLDSYCLQQRVTKLFYNRQYEINEVRRDKLLEKRLQHRVICKSFDDSVLLPPGSIL 148 (483) Q Consensus 88 g~~~~~L~~l~~~~~i~~v~~n~~~~~~~~~rd~~i~~~l~~~~~~~~~~~~~l~~p~~i~ 148 (483) ++..++|.+++++++|+.||+|++|++++++||..+++.++ ++.+..+++++|++|++|. T Consensus 81 ~~~~~~l~~l~~~~~i~~V~~~~~~~~~~~~~d~~i~~~l~-~i~~~~~~~~~L~~~~~i~ 140 (140) T 1dnp_A 81 VASVEIVKQVCAENSVTHLFYNYQYEVNERARDVEVERALR-NVVCEGFDDSVILPPGAVM 140 (140) T ss_dssp HHHHHHHHHHHHHHTCCEEEEECCCSHHHHHHHHHHHHHCT-TSEEEEECCSSSSCTTSSC T ss_pred CCHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHHHC-CCCEEECCCCEEEEECEEC T ss_conf 26899999999983970899832432145568999998742-6845634882785302010 No 14 >>1np7_A DNA photolyase; protein with FAD cofactor; HET: DNA FAD; 1.90A {Synechocystis SP} (A:1-146) Probab=99.97 E-value=6.2e-31 Score=216.05 Aligned_cols=140 Identities=25% Similarity=0.373 Sum_probs=127.5 Q ss_pred CCCCCCCCEEEEEECCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHCC-----CCCCHHHHHHHHHHHHHHHHHHHHC Q ss_conf 99888864268883586755677899999995798299999738378478-----8899899999999999999999975 Q gi|254781170|r 1 MKATTAMSVHLVWLRNDLRITDNKALYAACHNSDAKVIAVFIATPEQWRQ-----HGISARQSHFIYASLLQVQKSLSQK 75 (483) Q Consensus 1 m~~~~~M~~~IvWfRrDLRl~DN~aL~~A~~~~~~~vlpvyi~dp~~~~~-----~~~~~~~~~Fl~esL~~L~~~L~~~ 75 (483) |++.. ...|||||||||++||+||.+|++.++ +++||||+||.++.. ...|++|.+|++|||.+|+++|+++ T Consensus 1 m~~~~--~~vl~WfrrDLRl~DN~aL~~A~~~~~-~v~~v~v~~~~~~~~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~ 77 (146) T 1np7_A 1 MKHVP--PTVLVWFRNDLRLHDHEPLHRALKSGL-AITAVYCYDPRQFAQTHQGFAKTGPWRSNFLQQSVQNLAESLQKV 77 (146) T ss_dssp CCCCC--CEEEEEESSCCCSTTCHHHHHHHHTTS-EEEEEEEECGGGGSBCTTSCBSSCHHHHHHHHHHHHHHHHHHHHT T ss_pred CCCCC--CCEEEEECCCCCHHHHHHHHHHHHCCC-CEEEEEEECHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHC T ss_conf 99899--988998389853747899999995799-299999987378504574422024999999999999999999977 Q ss_pred CCEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEECCCCCHHHHCCHHHHHHHH-HCCCCEECCCCCCCCCCCC Q ss_conf 98099996575350899999999870976142100111001100102688875-2000000223434555760 Q gi|254781170|r 76 GIVFQYHQCSNFDDSIEWLDSYCLQQRVTKLFYNRQYEINEVRRDKLLEKRLQ-HRVICKSFDDSVLLPPGSI 147 (483) Q Consensus 76 g~~L~v~~~~~~g~~~~~L~~l~~~~~i~~v~~n~~~~~~~~~rd~~i~~~l~-~~~~~~~~~~~~l~~p~~i 147 (483) |++|+++. |++.++|.+++++++|+.||+|.+|+++++++|+.|.+.|+ .++.+..+++++|++|++| T Consensus 78 g~~L~v~~----g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~~d~~i~~~l~~~gi~~~~~~~~~l~~~~~i 146 (146) T 1np7_A 78 GNKLLVTT----GLPEQVIPQIAKQINAKTIYYHREVTQEELDVERNLVKQLTILGIEAKGYWGSTLCHPEDL 146 (146) T ss_dssp TCCEEEEE----SCHHHHHHHHHHHTTEEEEEEECCCSHHHHHHHHHHHHHHHHHTCEEEEECCSSSSCGGGS T ss_pred CCCEEEEE----CCHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEE T ss_conf 99669997----8999999999998599689993664640144679999988741732012332123576413 No 15 >>2j4d_A Cryptochrome 3, cryptochrome DASH; DNA-binding protein, flavoprotein, FAD, mitochondrion, plastid, chromophore, chloroplast; HET: FAD MHF; 1.9A {Arabidopsis thaliana} PDB: 2vtb_A* 2ijg_X* 2vtb_B* (A:34-183) Probab=99.97 E-value=1.8e-30 Score=213.10 Aligned_cols=141 Identities=23% Similarity=0.399 Sum_probs=126.1 Q ss_pred CCCCCCCCEEEEEECCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHCC------CCCCHHHHHHHHHHHHHHHHHHHH Q ss_conf 99888864268883586755677899999995798299999738378478------889989999999999999999997 Q gi|254781170|r 1 MKATTAMSVHLVWLRNDLRITDNKALYAACHNSDAKVIAVFIATPEQWRQ------HGISARQSHFIYASLLQVQKSLSQ 74 (483) Q Consensus 1 m~~~~~M~~~IvWfRrDLRl~DN~aL~~A~~~~~~~vlpvyi~dp~~~~~------~~~~~~~~~Fl~esL~~L~~~L~~ 74 (483) |+.+.+ .+.|||||||||++||+||.+|++.++ +++||||+||.++.. +..|++|.+|+++||.+|+++|++ T Consensus 1 ~~~~~~-~~~l~Wfr~DLRl~DN~aL~~A~~~~~-~~~~vyv~~p~~~~~~~~~~~~~~~~~r~~fl~~sL~~L~~~L~~ 78 (150) T 2j4d_A 1 VKRKGK-GVTILWFRNDLRVLDNDALYKAWSSSD-TILPVYCLDPRLFHTTHFFNFPKTGALRGGFLMECLVDLRKNLMK 78 (150) T ss_dssp CCCTTC-CEEEEEESSCCCSTTCHHHHHHHHTCS-EEEEEEEECGGGGSBCTTTCCBSSCHHHHHHHHHHHHHHHHHHHH T ss_pred HCCCCC-CEEEEEECCCCCHHHHHHHHHHHHCCC-CEEEEEEECHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH T ss_conf 105899-418999899843515799999996499-799999985457344432358775799999999999999999997 Q ss_pred CCCEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEECCCCCHHHHCCHHHHHHHHH-CC--CCEECCCCCCCCCCCC Q ss_conf 5980999965753508999999998709761421001110011001026888752-00--0000223434555760 Q gi|254781170|r 75 KGIVFQYHQCSNFDDSIEWLDSYCLQQRVTKLFYNRQYEINEVRRDKLLEKRLQH-RV--ICKSFDDSVLLPPGSI 147 (483) Q Consensus 75 ~g~~L~v~~~~~~g~~~~~L~~l~~~~~i~~v~~n~~~~~~~~~rd~~i~~~l~~-~~--~~~~~~~~~l~~p~~i 147 (483) +|++|+++. |++.+++.+++++++|+.||+|.+++++++++|.+|.+.|+. ++ .+.++++++|++|+++ T Consensus 79 ~g~~L~v~~----g~~~~~~~~l~~~~~i~~V~~~~~~~~~~~~~d~~i~~~l~~~gi~v~~~~~~~~~l~~p~~l 150 (150) T 2j4d_A 79 RGLNLLIRS----GKPEEILPSLAKDFGARTVFAHKETCSEEVDVERLVNQGLKRVGNSTKLELIWGSTMYHKDDL 150 (150) T ss_dssp TTCCCEEEE----SCHHHHHHHHHHHHTCSEEEEECCCSHHHHHHHHHHHHHHHTTCSSCEEEEECCSCSSCGGGS T ss_pred CCCCEEEEE----CCHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCEEECCCEEEEECCC T ss_conf 799679998----988999999999678758982465677999999999999876236554201057501210222 No 16 >>1np7_A DNA photolyase; protein with FAD cofactor; HET: DNA FAD; 1.90A {Synechocystis SP} (A:147-313) Probab=99.97 E-value=1.5e-31 Score=219.93 Aligned_cols=150 Identities=22% Similarity=0.338 Sum_probs=110.9 Q ss_pred CCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCC--CCCCCCC---CCCC-CCCCCCCCCCCCCCCCCCCCCCCCC Q ss_conf 86443210147998863156632212455445677667--5557532---3476-4345546888764333221111111 Q gi|254781170|r 152 LQMYKVYTPFRKALIQNLVQADLRSLPVPAIRLTGPVT--PSNIPRF---FDYP-FQAIDPMFPIGEQNALHILRKFCKE 225 (483) Q Consensus 152 ~~~~~vftpf~k~~~~~~~~~~~~~~p~~~~~~~~~~~--~~~~~~~---~~~~-~~~~~~~~~gGe~~A~~~L~~Fl~~ 225 (483) .++|+|||||+++|.+...+... ..+.+......... ...+... ...+ .......|+|||++|+++|++||++ T Consensus 5 ~~~y~vftpf~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ge~~A~~~L~~Fl~~ 83 (167) T 1np7_A 5 QDLPDLFTKFRKDIEKKKISIRP-CFFAPSQLLPSPNIKLELTAPPPEFFPQINFDHRSVLAFQGGETAGLARLQDYFWH 83 (167) T ss_dssp GGCCSSHHHHHHHHHTTTCCCCC-CCCCCSCCCCCCCCCCCCCCCCGGGSCCCCCCTTSSCCCCCSHHHHHHHHHHHHTT T ss_pred CCCCCCCHHHHHHHHHCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHC T ss_conf 88764100889999862134565-54542014776444312367843444322544343324686346787754444320 Q ss_pred C--CCHHHHCCC-CCCCCCCCCCCHHHCCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHCCCCCHHHHHHHHHHHHHHHH Q ss_conf 0--110120268-6545666544611114648799999999998643111234772001023202468887888633578 Q gi|254781170|r 226 K--VYYYVEQRD-IPAIQGTSQLSPYLSIGVLSPRQCWNRLKEEFVDLLIKPKSGAFSWLNELIWREFYRHLMAFYPSVC 302 (483) Q Consensus 226 ~--l~~Y~~~Rn-~p~~~~tSrLSPyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~~~fl~eL~WRef~~~~~~~~P~~~ 302 (483) + +.+|...|| .|+.++||+|||||+|||||+|+|++++.+.... ....++.++|++||+|||||+++++++|++. T Consensus 84 ~~~~~~y~~~r~~~p~~~~tS~LSpyL~fG~iS~r~v~~~~~~~~~~--~~~~~~~~~f~~eL~wRef~~~~~~~~P~~~ 161 (167) T 1np7_A 84 GDRLKDYKETRNGMVGADYSSKFSPWLALGCLSPRFIYQEVKRYEQE--RVSNDSTHWLIFELLWRDFFRFVAQKYGNKL 161 (167) T ss_dssp SCCGGGHHHHTTCCSSSTTSCCCHHHHHTTSSCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHHHHHHHHHHHGGGG T ss_pred CCCCCCHHHHCCCCCCCCCCCCCCHHHHCCCCCHHHHHHHHHHHHHC--CCCCCCHHHHHHHHHHHHHHHHHHHHCCCHH T ss_conf 12213554410465334554325977717867899999999998631--1234305889877999999999998674188 Q ss_pred HH Q ss_conf 88 Q gi|254781170|r 303 MG 304 (483) Q Consensus 303 ~~ 304 (483) +. T Consensus 162 ~~ 163 (167) T 1np7_A 162 FN 163 (167) T ss_dssp GS T ss_pred HH T ss_conf 76 No 17 >>3fy4_A 6-4 photolyase; DNA repair, clock cryptochrome; HET: MES FAD; 2.70A {Arabidopsis thaliana} (A:1-142) Probab=99.97 E-value=1.9e-29 Score=206.63 Aligned_cols=128 Identities=22% Similarity=0.251 Sum_probs=118.3 Q ss_pred CEEEEEECCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHC---------CCCCCHHHHHHHHHHHHHHHHHHHHCCCE Q ss_conf 426888358675567789999999579829999973837847---------88899899999999999999999975980 Q gi|254781170|r 8 SVHLVWLRNDLRITDNKALYAACHNSDAKVIAVFIATPEQWR---------QHGISARQSHFIYASLLQVQKSLSQKGIV 78 (483) Q Consensus 8 ~~~IvWfRrDLRl~DN~aL~~A~~~~~~~vlpvyi~dp~~~~---------~~~~~~~~~~Fl~esL~~L~~~L~~~g~~ 78 (483) .++|||||||||++||+||.+|++.++ +|+||||+||.++. .+..|++|.+|++|||.+|+++|+++|++ T Consensus 5 ~~~i~WfrrDLRi~DN~aL~~A~~~~~-~v~~vyv~~~~~~~~~~~~~~~~~~~~g~~~~~Fl~esL~~L~~~L~~~g~~ 83 (142) T 3fy4_A 5 SGSLIWFRKGLRVHDNPALEYASKGSE-FMYPVFVIDPHYMESDPSAFSPGSSRAGVNRIRFLLESLKDLDSSLKKLGSR 83 (142) T ss_dssp CEEEEEESSCCCSTTCHHHHHHHTTCS-CEEEEEEECHHHHSCCTTSSSSBCSSCBHHHHHHHHHHHHHHHHHHHHTTCC T ss_pred CCEEEEECCCCCHHHHHHHHHHHCCCC-EEEEEEEECHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCC T ss_conf 988999789865516899999980799-1999999864784446321344565436999999999999999999988994 Q ss_pred EEEEECCCCCCHHHHHHHHHHHCCCCCEEEECCCCCHHHHCCHHHHHHHHH-CCCCEECCCCC Q ss_conf 999965753508999999998709761421001110011001026888752-00000022343 Q gi|254781170|r 79 FQYHQCSNFDDSIEWLDSYCLQQRVTKLFYNRQYEINEVRRDKLLEKRLQH-RVICKSFDDSV 140 (483) Q Consensus 79 L~v~~~~~~g~~~~~L~~l~~~~~i~~v~~n~~~~~~~~~rd~~i~~~l~~-~~~~~~~~~~~ 140 (483) |+++. |++.++|++++++++|+.||+|++|+++++++|..|.+.|+. ++.++++++++ T Consensus 84 L~v~~----g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~i~~~l~~~~I~~~~~~~ht 142 (142) T 3fy4_A 84 LLVFK----GEPGEVLVRCLQEWKVKRLCFEYDTDPYYQALDVKVKDYASSTGVEVFSPVSHT 142 (142) T ss_dssp CEEEE----SCHHHHHHHHHTTSCEEEEEECCCCSHHHHHHHHHHHHHHHHTTCEEECCCCSS T ss_pred EEEEE----CCHHHHHHHHHHHCCCCEEEEEECCCHHHHHHHHHHHHHHHHCCCCCCCCCCCC T ss_conf 79997----888999999999759998999613578999998876666652388532233321 No 18 >>2wq7_A RE11660P; lyase-DNA complex, DNA repair, DNA lesion, lyase; HET: TDY Z FAD; 2.00A {Drosophila melanogaster} PDB: 2wb2_A* 2wq6_A* 3cvu_A* 3cvv_A* 3cvy_A* 3cvw_A* 3cvx_A* (A:1-163) Probab=99.96 E-value=7e-29 Score=202.96 Aligned_cols=131 Identities=21% Similarity=0.254 Sum_probs=121.3 Q ss_pred CCCEEEEEECCCCCCCCCHHHHHHHHHCCC-----CEEEEEEECHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEE Q ss_conf 864268883586755677899999995798-----299999738378478889989999999999999999997598099 Q gi|254781170|r 6 AMSVHLVWLRNDLRITDNKALYAACHNSDA-----KVIAVFIATPEQWRQHGISARQSHFIYASLLQVQKSLSQKGIVFQ 80 (483) Q Consensus 6 ~M~~~IvWfRrDLRl~DN~aL~~A~~~~~~-----~vlpvyi~dp~~~~~~~~~~~~~~Fl~esL~~L~~~L~~~g~~L~ 80 (483) .++..|||||||||++||+||.+|++.++. .|+|+||+||.+++.+..|++|.+|+++||.+|+++|+++|++|+ T Consensus 27 ~~~~~l~Wfr~DLRi~DN~aL~~A~~~~~~~~~~~~v~~~~i~~~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~ 106 (163) T 2wq7_A 27 QRSTLVHWFRKGLRLHDNPALSHIFTAANAAPGRYFVRPIFILDPGILDWMQVGANRWRFLQQTLEDLDNQLRKLNSRLF 106 (163) T ss_dssp TCEEEEEEESSCCCSTTCHHHHHHHHHHHHSTTTEEEEEEEEECTTGGGCTTSCHHHHHHHHHHHHHHHHHHHHTTCCCE T ss_pred CCCCEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEEEEECCHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEE T ss_conf 99838987899965615799999999733046897399999989143246887889999999999999999997799879 Q ss_pred EEECCCCCCHHHHHHHHHHHCCCCCEEEECCCCCHHHHCCHHHHHHHHH-CCCCEECCCCC Q ss_conf 9965753508999999998709761421001110011001026888752-00000022343 Q gi|254781170|r 81 YHQCSNFDDSIEWLDSYCLQQRVTKLFYNRQYEINEVRRDKLLEKRLQH-RVICKSFDDSV 140 (483) Q Consensus 81 v~~~~~~g~~~~~L~~l~~~~~i~~v~~n~~~~~~~~~rd~~i~~~l~~-~~~~~~~~~~~ 140 (483) ++. |++.++|.+++++++|+.||+|++|+++++++|+.|.+.|+. ++.++++++++ T Consensus 107 v~~----g~~~~~l~~l~~~~~i~~V~~~~~~~~~~~~~d~~i~~~l~~~~i~~~~~~~ht 163 (163) T 2wq7_A 107 VVR----GKPAEVFPRIFKSWRVEMLTFETDIEPYSVTRDAAVQKLAKAEGVRVETHCSHT 163 (163) T ss_dssp EEE----SCHHHHHHHHHHHTTEEEEEEECCCSHHHHHHHHHHHHHHHHHTCEEEEECCSS T ss_pred EEE----CCHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHHHHHCCCEEEEECCCE T ss_conf 997----899999999999769978999513579999999999999875487579968987 No 19 >>2e0i_A 432AA long hypothetical deoxyribodipyrimidine photolyase; FAD, DNA repair; HET: FAD; 2.80A {Sulfolobus tokodaii str} (A:133-267) Probab=99.96 E-value=2.1e-30 Score=212.67 Aligned_cols=133 Identities=26% Similarity=0.389 Sum_probs=105.6 Q ss_pred CCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCH Q ss_conf 7864432101479988631566322124554456776675557532347643-455468887643332211111110110 Q gi|254781170|r 151 ALQMYKVYTPFRKALIQNLVQADLRSLPVPAIRLTGPVTPSNIPRFFDYPFQ-AIDPMFPIGEQNALHILRKFCKEKVYY 229 (483) Q Consensus 151 ~~~~~~vftpf~k~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~gGe~~A~~~L~~Fl~~~l~~ 229 (483) +|++|+|||||+|+|.+...+.+....+.. ......++.+.+.+.. .....++|||++|+++|++|+ T Consensus 1 sG~~y~vftpf~k~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl------ 68 (135) T 2e0i_A 1 SLFHHRNFTSFYNEVSKVKVREPETMEGSF------DVTDSSMNVDFLLTFKKIESPLFRGGRREGLYLLHRNV------ 68 (135) T ss_dssp GGCCCSSHHHHHHHHTTSCCCCCCCCCCCB------CCCSSSBCGGGGGGTCCCCCTTCCCSHHHHHHHHTCCC------ T ss_pred CCCCCCCHHHHHHHHHHHCCCCCCCCCCCC------CCCCCCCCHHCCCCCCCCCCCCCHHHHHHHHHHHHHHH------ T ss_conf 332221003888988752025741133445------65411110010232134577423079999999987532------ Q ss_pred HHHCCCCCCCCCCCCCCHHHCCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHCCCCCHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 1202686545666544611114648799999999998643111234772001023202468887888633578886153 Q gi|254781170|r 230 YVEQRDIPAIQGTSQLSPYLSIGVLSPRQCWNRLKEEFVDLLIKPKSGAFSWLNELIWREFYRHLMAFYPSVCMGKPFI 308 (483) Q Consensus 230 Y~~~Rn~p~~~~tSrLSPyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~~~fl~eL~WRef~~~~~~~~P~~~~~~~~~ 308 (483) |+..||+|+.++||+|||||+|||||+|+||++++ +.++|++||+|||||+++++++|++.. .+++ T Consensus 69 y~~~r~~p~~~~tS~LSpyL~~G~iS~r~v~~~~~------------~~~~fi~eL~WRef~~~~~~~~P~~~~-~~~~ 134 (135) T 2e0i_A 69 DFRRRDYPAENNNYRLSPHLKFGTISMREAYYTQK------------GKEEFVRELYWRDFFTLLAYYNPHVFG-HCYR 134 (135) T ss_dssp CGGGTTCTTTTCCCCCHHHHHTTSSCHHHHHHHST------------TCHHHHHHHHHHHHHHHHHHHCGGGTT-SCSS T ss_pred HHCCCCCCCCHHHHCCCCCCCCCCCCHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHCCCHHH-CCCH T ss_conf 30258987400210213020027666999988621------------268788888878999999996882032-0210 No 20 >>2e0i_A 432AA long hypothetical deoxyribodipyrimidine photolyase; FAD, DNA repair; HET: FAD; 2.80A {Sulfolobus tokodaii str} (A:1-132) Probab=99.96 E-value=6.1e-28 Score=197.00 Aligned_cols=129 Identities=27% Similarity=0.432 Sum_probs=117.6 Q ss_pred CCEEEEEECCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHCCC-CCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECC Q ss_conf 642688835867556778999999957982999997383784788-8998999999999999999999759809999657 Q gi|254781170|r 7 MSVHLVWLRNDLRITDNKALYAACHNSDAKVIAVFIATPEQWRQH-GISARQSHFIYASLLQVQKSLSQKGIVFQYHQCS 85 (483) Q Consensus 7 M~~~IvWfRrDLRl~DN~aL~~A~~~~~~~vlpvyi~dp~~~~~~-~~~~~~~~Fl~esL~~L~~~L~~~g~~L~v~~~~ 85 (483) |++ |||||||||++||+||.+|++.++ +++|+||++|.++... ..|++|.+|++|||.+|+++|+++|++|+++. T Consensus 1 M~~-l~Wfr~DLRl~DN~aL~~A~~~~~-~~~~~~i~~~~~~~~~~~~~~~~~~Fl~esL~~L~~~L~~~gi~L~v~~-- 76 (132) T 2e0i_A 1 MDC-IFIFRRDLRLEDNTGLNYALSECD-RVIPVFIADPRQLINNPYKSEFAVSFMINSLLELDDELRKKGSRLNVFF-- 76 (132) T ss_dssp CEE-EEEESSCCCSSSCHHHHHHHHHSS-EEEEEEEECHHHHSSCTTCCHHHHHHHHHHHHHHHHHHHTTTCCCEEEE-- T ss_pred CCE-EEEECCCCCHHHHHHHHHHHHCCC-CEEEEEEECCHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEE-- T ss_conf 988-999689854606899999996699-7999999871887329865899999999999999999997799679997-- Q ss_pred CCCCHHHHHHHHHHHCCCCCEEEECCCCCHHHHCCHHHHHHHH-HCCCCEECCCCCCCC Q ss_conf 5350899999999870976142100111001100102688875-200000022343455 Q gi|254781170|r 86 NFDDSIEWLDSYCLQQRVTKLFYNRQYEINEVRRDKLLEKRLQ-HRVICKSFDDSVLLP 143 (483) Q Consensus 86 ~~g~~~~~L~~l~~~~~i~~v~~n~~~~~~~~~rd~~i~~~l~-~~~~~~~~~~~~l~~ 143 (483) |++.+++.+++++. +.|+++++++|+++.||+.|++.|+ .++.+.++++++|+| T Consensus 77 --g~~~~~l~~l~~~~--~~v~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~l~p 131 (132) T 2e0i_A 77 --GEAEKVVSRFFNKV--DAIYVNEDYTPFSISRDEKIRKVCEENGIEFKAYEDYLLTP 131 (132) T ss_dssp --SCHHHHHHHHCTTC--SEEEEECCCSHHHHHHHHHHHHHHHTTTCEEEEECCSCSSC T ss_pred --CCHHHHHHHHHHHH--HCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCEECCCCCCCC T ss_conf --89999999999862--12344567784156699999999986288602136766777 No 21 >>1owl_A Photolyase, deoxyribodipyrimidine photolyase; DNA repair, flavin enzyme, photoreactivating enzyme; HET: FAD; 1.80A {Synechococcus elongatus pcc 6301} (A:197-307) Probab=99.92 E-value=1e-26 Score=189.28 Aligned_cols=103 Identities=33% Similarity=0.590 Sum_probs=90.7 Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCHHHCCCCCCHHHHHHHHHHHHHHHCC-CCCCCCHHHCC Q ss_conf 54688876433322111111101101202686545666544611114648799999999998643111-23477200102 Q gi|254781170|r 205 DPMFPIGEQNALHILRKFCKEKVYYYVEQRDIPAIQGTSQLSPYLSIGVLSPRQCWNRLKEEFVDLLI-KPKSGAFSWLN 283 (483) Q Consensus 205 ~~~~~gGe~~A~~~L~~Fl~~~l~~Y~~~Rn~p~~~~tSrLSPyL~~G~IS~R~v~~~~~~~~~~~~~-~~~~~~~~fl~ 283 (483) ...|+|||++|+++|++||++++..|.+.||.|+.++||+|||||+||+||||+|++++.+...+... ...+++++|++ T Consensus 7 ~~~~~~Ge~~A~~~L~~Fl~~~l~~Y~~~r~~p~~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~~~~~~~~~~~~~fi~ 86 (111) T 1owl_A 7 GFPVEPGETAAIARLQEFCDRAIADYDPQRNFPAEAGTSGLSPALKFGAIGIRQAWQAASAAHALSRSDEARNSIRVWQQ 86 (111) T ss_dssp CCSSCSSHHHHHHHHHHHHHTGGGGHHHHTTCTTSCCSCCCHHHHHTTSSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHH T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHH T ss_conf 78879629999999999877787631000368666775643854427745599999999998644211221035899999 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 3202468887888633578886153 Q gi|254781170|r 284 ELIWREFYRHLMAFYPSVCMGKPFI 308 (483) Q Consensus 284 eL~WRef~~~~~~~~P~~~~~~~~~ 308 (483) ||+|||||+++++++|++.. .+|+ T Consensus 87 eL~WRef~~~~~~~~p~~~~-~~~~ 110 (111) T 1owl_A 87 ELAWREFYQHALYHFPSLAD-GPYR 110 (111) T ss_dssp HHHHHHHHHHHHHHCGGGGG-SCCS T ss_pred HHHHHHHHHHHHHCCCHHHH-HHCC T ss_conf 99989999878750840544-3202 No 22 >>2j4d_A Cryptochrome 3, cryptochrome DASH; DNA-binding protein, flavoprotein, FAD, mitochondrion, plastid, chromophore, chloroplast; HET: FAD MHF; 1.9A {Arabidopsis thaliana} PDB: 2vtb_A* 2ijg_X* 2vtb_B* (A:1-33,A:184-316) Probab=99.90 E-value=7e-24 Score=171.16 Aligned_cols=129 Identities=19% Similarity=0.254 Sum_probs=101.9 Q ss_pred CCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC----CCCCCCCCCCCCCCC Q ss_conf 5557600237864432101479988631566322124554456776675557532347643----455468887643332 Q gi|254781170|r 142 LPPGSILNHALQMYKVYTPFRKALIQNLVQADLRSLPVPAIRLTGPVTPSNIPRFFDYPFQ----AIDPMFPIGEQNALH 217 (483) Q Consensus 142 ~~p~~i~~~~~~~~~vftpf~k~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~gGe~~A~~ 217 (483) ++...-+++.|++|+|||||+++|.+......+...|.+............++.+.+.+.. .....|+|||++|++ T Consensus 28 ~~~~~~~~~~g~~y~vfTpF~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~~~gGe~~A~~ 107 (166) T 2j4d_A 28 LPSSSSPFDVFDLPDVYTQFRKSVEAKCSIRSSTRIPLSLGPTPSVDDWGDVPTLEKLGVEPQEVTRGMRFVGGESAGVG 107 (166) T ss_dssp CSCCTTSSCGGGCCSSHHHHHHHHHHHCCCCCCCCBCSCCCCCCCCSCCCCCCCTTTTTCCCCCCCSEEEECCSHHHHHH T ss_pred CCCCHHCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCHHCCCHHHHCCCCCCCCCCCCCCCCHHHHHHH T ss_conf 87750245457753100467777775303455410013457766632000001055405564223443346755677765 Q ss_pred CCCCCCCCCCC--HHHHCCCC-CCCCCCCCCCHHHCCCCCCHHHHHHHHHHHHHHH Q ss_conf 21111111011--01202686-5456665446111146487999999999986431 Q gi|254781170|r 218 ILRKFCKEKVY--YYVEQRDI-PAIQGTSQLSPYLSIGVLSPRQCWNRLKEEFVDL 270 (483) Q Consensus 218 ~L~~Fl~~~l~--~Y~~~Rn~-p~~~~tSrLSPyL~~G~IS~R~v~~~~~~~~~~~ 270 (483) +|++||++++. +|.+.|+. |+.++||+|||||+|||||||+||+++.+...+. T Consensus 108 ~L~~Fl~~~l~~y~y~~~r~~~~~~~~tS~LSPYL~fG~ISpR~v~~~~~~~~~~~ 163 (166) T 2j4d_A 108 RVFEYFWKKDLLKVYKETRNGMLGPDYSTKFSPWLAFGCISPRFIYEEVQRYEKER 163 (166) T ss_dssp HHHHHHTTSCCGGGHHHHTTCCSSSTTSCCCHHHHHTTSSCHHHHHHHHHHHHHHT T ss_pred HHHHHHHHHCCHHHHHCCCCCCCCCCCCHHHHHHHCCCCCCHHHHHHHHHHHHHHC T ss_conf 44555653122011101135777766314577642100147999999999876520 No 23 >>3fy4_A 6-4 photolyase; DNA repair, clock cryptochrome; HET: MES FAD; 2.70A {Arabidopsis thaliana} (A:196-290) Probab=99.71 E-value=3.3e-18 Score=135.04 Aligned_cols=78 Identities=29% Similarity=0.443 Sum_probs=64.2 Q ss_pred CCCCCCCCCC----CCCCCCCCCCCCCCCCCCCCCCCC--CCHHHHCCCCCC---CCCCCCCCHHHCCCCCCHHHHHHHH Q ss_conf 7532347643----455468887643332211111110--110120268654---5666544611114648799999999 Q gi|254781170|r 193 IPRFFDYPFQ----AIDPMFPIGEQNALHILRKFCKEK--VYYYVEQRDIPA---IQGTSQLSPYLSIGVLSPRQCWNRL 263 (483) Q Consensus 193 ~~~~~~~~~~----~~~~~~~gGe~~A~~~L~~Fl~~~--l~~Y~~~Rn~p~---~~~tSrLSPyL~~G~IS~R~v~~~~ 263 (483) +|.+.+++.. .....|+|||.+|+++|++|+.++ +.+|.+.||.|+ .++||+|||||+|||||||+||+++ T Consensus 4 iP~l~~l~~~~~~~~~~~~~~gGe~~A~~rL~~Fl~~~~~~~~Y~~~R~~p~~~~~~~tS~LSpyL~~G~IS~r~~~~~~ 83 (95) T 3fy4_A 4 VPSLEELGYKDDEQADWTPFRGGESEALKRLTKSISDKAWVANFEKPKGDPSAFLKPATTVMSPYLKFGCLSSRYFYQCL 83 (95) T ss_dssp CCCTTTTTCCGGGSSCCCSCCCSHHHHHHHHHHHTCCHHHHHTCCGGGCCTTCCSSCSSCCCHHHHHTTSSCHHHHHHHH T ss_pred CCCHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHH T ss_conf 44355506765332334767761556666666665555456654101357543357887510022566656699999999 Q ss_pred HHHHHHH Q ss_conf 9986431 Q gi|254781170|r 264 KEEFVDL 270 (483) Q Consensus 264 ~~~~~~~ 270 (483) .+...+. T Consensus 84 ~~~~~~~ 90 (95) T 3fy4_A 84 QNIYKDV 90 (95) T ss_dssp HHHHHTT T ss_pred HHHHHHH T ss_conf 9987751 No 24 >>1dnp_A DNA photolyase; DNA repair, electron transfer, excitation energy transfer, carbon-carbon; HET: DNA FAD MHF; 2.30A {Escherichia coli} (A:184-263) Probab=99.71 E-value=3.2e-18 Score=135.15 Aligned_cols=68 Identities=44% Similarity=0.693 Sum_probs=62.4 Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCHHHCCCCCCHHHHHHHHHHHHHH Q ss_conf 34554688876433322111111101101202686545666544611114648799999999998643 Q gi|254781170|r 202 QAIDPMFPIGEQNALHILRKFCKEKVYYYVEQRDIPAIQGTSQLSPYLSIGVLSPRQCWNRLKEEFVD 269 (483) Q Consensus 202 ~~~~~~~~gGe~~A~~~L~~Fl~~~l~~Y~~~Rn~p~~~~tSrLSPyL~~G~IS~R~v~~~~~~~~~~ 269 (483) ......|+|||++|+++|+.|+++++.+|.++||.|+.++||+|||||+|||||||+||+++.+.+.+ T Consensus 11 ~~~~~~~~~Ge~~A~~~L~~Fl~~~l~~Y~~~rd~p~~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~ 78 (80) T 1dnp_A 11 SFDTAHFPVEEKAAIAQLRQFCQNGAGEYEQQRDFPAVEGTSRLSASLATGGLSPRQCLHRLLAEQPQ 78 (80) T ss_dssp CCCTTTSCCSHHHHHHHHHHHHHTHHHHHHHHTTCTTSCCSCCCHHHHHHTSSCHHHHHHHHHHHCGG T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCC T ss_conf 32111222456889999999998410456664022124776654012345455642234655654010 No 25 >>2wq7_A RE11660P; lyase-DNA complex, DNA repair, DNA lesion, lyase; HET: TDY Z FAD; 2.00A {Drosophila melanogaster} PDB: 2wb2_A* 2wq6_A* 3cvu_A* 3cvv_A* 3cvy_A* 3cvw_A* 3cvx_A* (A:220-313) Probab=99.69 E-value=4.9e-18 Score=133.95 Aligned_cols=79 Identities=29% Similarity=0.365 Sum_probs=65.1 Q ss_pred CCCCCCCCCCC---CCCCCCCCCCCCCCCCCCCCCCCCC--CCHHHHCCCCCC--CCCCCCCCHHHCCCCCCHHHHHHHH Q ss_conf 55753234764---3455468887643332211111110--110120268654--5666544611114648799999999 Q gi|254781170|r 191 SNIPRFFDYPF---QAIDPMFPIGEQNALHILRKFCKEK--VYYYVEQRDIPA--IQGTSQLSPYLSIGVLSPRQCWNRL 263 (483) Q Consensus 191 ~~~~~~~~~~~---~~~~~~~~gGe~~A~~~L~~Fl~~~--l~~Y~~~Rn~p~--~~~tSrLSPyL~~G~IS~R~v~~~~ 263 (483) ..+|.+.++++ ......|+|||.+|+++|+.||+++ +.+|.+.||+|+ .++||+|||||+|||||||+||+++ T Consensus 4 ~~~P~l~~l~~~~~~~~~~~~~~Ge~~A~~~L~~Fl~~~~~l~~Y~~~R~~p~~~~~~tS~LSpyL~~G~IS~R~v~~~~ 83 (94) T 2wq7_A 4 YDCPTMKQLVKRPEELGPNKFPGGETEALRRMEESLKDEIWVARFEKPNTAPNSLEPSTTVLSPYLKFGCLSARLFNQKL 83 (94) T ss_dssp TSCCCHHHHCSCGGGCCCCCSCCSHHHHHHHHHHHHTCHHHHHHCCGGGSCSSCSSCSSCCCHHHHHHTSSCHHHHHHHH T ss_pred CCCCCHHHHCCCHHHCCCCCCCCHHHHHHHHHHHHHHCCHHHHHCCCCCCCCCCCCCCCCCCCHHHCCCCCCHHHHHHHH T ss_conf 46866877432823206544885599999999999964112210146787645566785436887727877799999999 Q ss_pred HHHHHH Q ss_conf 998643 Q gi|254781170|r 264 KEEFVD 269 (483) Q Consensus 264 ~~~~~~ 269 (483) ++...+ T Consensus 84 ~~~~~~ 89 (94) T 2wq7_A 84 KEIIKR 89 (94) T ss_dssp HHHHHH T ss_pred HHHHHH T ss_conf 999862 No 26 >>3fy4_A 6-4 photolyase; DNA repair, clock cryptochrome; HET: MES FAD; 2.70A {Arabidopsis thaliana} (A:452-537) Probab=99.08 E-value=9.2e-11 Score=87.70 Aligned_cols=44 Identities=23% Similarity=0.233 Sum_probs=39.0 Q ss_pred HHCCHHHHHH------HCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCC Q ss_conf 8049554013------1257899997631899999999999999964007 Q gi|254781170|r 439 YIHAPHSWLD------KNDLSLNYPLPIVDHKKACHHTLNQYYAAKKQSL 482 (483) Q Consensus 439 ~ih~p~~~~~------~~~~~~~YP~pivd~~~~~~~a~~~~~~~~k~~~ 482 (483) |||+||+++. .+.||.|||.|||||+++|+.|+++|+++|+.+. T Consensus 1 yIhePW~~~~~~q~~~g~~lG~dYP~PiVD~~~a~~~a~~~~~~~~~~~~ 50 (86) T 3fy4_A 1 YIYEPWTAPLSVQTKANCIVGKDYPKPMVLHDSASKECKRKMGEAYALNK 50 (86) T ss_dssp TTTCGGGSCHHHHHHHTCCBTTTBCCCSSCHHHHHHHHHHHHHHHHHHHH T ss_pred HHCCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHC T ss_conf 83690339989998749866899970229789999999999999999752 No 27 >>2wq7_A RE11660P; lyase-DNA complex, DNA repair, DNA lesion, lyase; HET: TDY Z FAD; 2.00A {Drosophila melanogaster} PDB: 2wb2_A* 2wq6_A* 3cvu_A* 3cvv_A* 3cvy_A* 3cvw_A* 3cvx_A* (A:164-219,A:314-346) Probab=93.09 E-value=0.025 Score=33.98 Aligned_cols=23 Identities=39% Similarity=0.753 Sum_probs=17.8 Q ss_pred HHCCCCCHHHHHHHHHHHHHHHH Q ss_conf 01023202468887888633578 Q gi|254781170|r 280 SWLNELIWREFYRHLMAFYPSVC 302 (483) Q Consensus 280 ~fl~eL~WRef~~~~~~~~P~~~ 302 (483) +...||+|||||+-.....|+.. T Consensus 61 sl~gQllWREffyt~a~~~pnfd 83 (89) T 2wq7_A 61 SLIGQLMWREFYYTVAAAEPNFD 83 (89) T ss_dssp SHHHHHHHHHHHHHHHHTCTTTT T ss_pred HHHHHHHHHHHHHHHHHHCCCHH T ss_conf 99999999999999998587376 No 28 >>3fy4_A 6-4 photolyase; DNA repair, clock cryptochrome; HET: MES FAD; 2.70A {Arabidopsis thaliana} (A:143-195,A:291-322) Probab=90.26 E-value=0.1 Score=30.16 Aligned_cols=25 Identities=32% Similarity=0.551 Sum_probs=18.9 Q ss_pred CHHHCCCCCHHHHHHHHHHHHHHHH Q ss_conf 2001023202468887888633578 Q gi|254781170|r 278 AFSWLNELIWREFYRHLMAFYPSVC 302 (483) Q Consensus 278 ~~~fl~eL~WRef~~~~~~~~P~~~ 302 (483) ..+...||+|||||+-.....|+.. T Consensus 55 PvSL~GQLLWREFFYt~a~~nPNFD 79 (85) T 3fy4_A 55 PVSLLGQLLWREFFYTTAFGTPNFD 79 (85) T ss_dssp TTSHHHHHHHHHHHHHHHHTCTTTT T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 7999999988777877654321122 No 29 >>3dlo_A Universal stress protein; unknown function, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.97A {Archaeoglobus fulgidus} (A:) Probab=67.58 E-value=7.9 Score=18.11 Aligned_cols=82 Identities=9% Similarity=-0.035 Sum_probs=60.6 Q ss_pred HHHHHHH---HHCCCCEEEEEEECHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHHH Q ss_conf 8999999---9579829999973837847888998999999999999999999759809999657535089999999987 Q gi|254781170|r 24 KALYAAC---HNSDAKVIAVFIATPEQWRQHGISARQSHFIYASLLQVQKSLSQKGIVFQYHQCSNFDDSIEWLDSYCLQ 100 (483) Q Consensus 24 ~aL~~A~---~~~~~~vlpvyi~dp~~~~~~~~~~~~~~Fl~esL~~L~~~L~~~g~~L~v~~~~~~g~~~~~L~~l~~~ 100 (483) .+|..|+ +..+..+..++|.++.. ...........+-++++.+.+++.|....+......|++.+.+.+.+++ T Consensus 40 ~~l~~a~~la~~~~~~l~~l~v~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~~~~~~ 115 (155) T 3dlo_A 40 RVLRFAAEEARLRGVPVYVVHSLPGGG----RTKDEDIIEAKETLSWAVSIIRKEGAEGEEHLLVRGKEPPDDIVDFADE 115 (155) T ss_dssp HHHHHHHHHHHHHTCCEEEEEEECCST----TSCHHHHHHHHHHHHHHHHHHHHTTCCEEEEEEESSSCHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCCCEEEEEEEECCCC----CCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCHHHHHHHHHHH T ss_conf 999999999986599499999860588----8866779999999999999999719997899999348989999999997 Q ss_pred CCCCCEEEE Q ss_conf 097614210 Q gi|254781170|r 101 QRVTKLFYN 109 (483) Q Consensus 101 ~~i~~v~~n 109 (483) .+++-|+.- T Consensus 116 ~~~dliv~G 124 (155) T 3dlo_A 116 VDAIAIVIG 124 (155) T ss_dssp TTCSEEEEE T ss_pred CCCCEEEEE T ss_conf 399899983 No 30 >>3a1c_A Probable copper-exporting P-type ATPase A; ATP-binding, cell membrane, copper transport, hydrolase, ION transport, magnesium, membrane; HET: ACP; 1.85A {Archaeoglobus fulgidus} PDB: 3a1d_A* 3a1e_A* 2b8e_A 2voy_J 2voy_I (A:1-43,A:166-287) Probab=54.09 E-value=14 Score=16.61 Aligned_cols=68 Identities=16% Similarity=0.109 Sum_probs=47.1 Q ss_pred CCCHHHHHHHHHCCCCEEEEEEECHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHHH Q ss_conf 67789999999579829999973837847888998999999999999999999759809999657535089999999987 Q gi|254781170|r 21 TDNKALYAACHNSDAKVIAVFIATPEQWRQHGISARQSHFIYASLLQVQKSLSQKGIVFQYHQCSNFDDSIEWLDSYCLQ 100 (483) Q Consensus 21 ~DN~aL~~A~~~~~~~vlpvyi~dp~~~~~~~~~~~~~~Fl~esL~~L~~~L~~~g~~L~v~~~~~~g~~~~~L~~l~~~ 100 (483) .+-.+|..|.+- + .| |||.. +. ++...+.=+.|++.|+.+.+.. ||.......++++ T Consensus 21 ~~~~~~~~~~~~-~-~~----~~~~~-----~~--------~~da~e~I~~Lr~~Gi~v~ilT----GD~~~ta~~iA~~ 77 (165) T 3a1c_A 21 KNADALEVAEKV-T-AV----IFDKT-----GT--------LESAKPAVQELKRMGIKVGMIT----GDNWRSAEAISRE 77 (165) T ss_dssp CSTTHHHHHHHC-C-EE----EEECC-----CC--------CTTHHHHHHHHHHTTCEEEEEC----SSCHHHHHHHHHH T ss_pred CCCHHHHHHCCC-C-EE----EEECC-----CC--------CCCHHHHHHHHHHCCCCEEEEC----CCCHHHHHHHHHH T ss_conf 794999986499-9-99----99388-----31--------3159999999987699789975----8977999999986 Q ss_pred CCCCCEEEECC Q ss_conf 09761421001 Q gi|254781170|r 101 QRVTKLFYNRQ 111 (483) Q Consensus 101 ~~i~~v~~n~~ 111 (483) .+|..||.+-. T Consensus 78 lGI~~v~a~~~ 88 (165) T 3a1c_A 78 LNLDLVIAEVL 88 (165) T ss_dssp HTCSEEECSCC T ss_pred CCCCEEEEECC T ss_conf 49745864228 No 31 >>2gvs_A Chemosensory protein CSP-SG4; alpha-coil, lipid binding protein; NMR {Schistocerca gregaria} (A:) Probab=52.75 E-value=3.2 Score=20.59 Aligned_cols=21 Identities=19% Similarity=0.586 Sum_probs=13.6 Q ss_pred HHHHCCCCCEEHCCCHHHHCC Q ss_conf 887248997833008243279 Q gi|254781170|r 415 GKRFDPQGTFIRHWLPELNNV 435 (483) Q Consensus 415 ~~~~Dp~g~~ir~wvPeL~~~ 435 (483) ..+|||+|+|.+++--.|+.+ T Consensus 87 ~~kYDP~g~y~~k~~~~~~~~ 107 (109) T 2gvs_A 87 KAKYDPDGTYSKKYEDREKEL 107 (109) T ss_dssp HHHHCTTCTTTHHHHTTTCCS T ss_pred HHHHCCCCHHHHHHHHHHHHH T ss_conf 998796956999999999884 No 32 >>2gm3_A Unknown protein; AT3G01520, putative ethylene-responsive protein, USP domain, nucleotide binding domain, AMP, protein structure initiative; HET: MSE AMP; 2.46A {Arabidopsis thaliana} (A:) Probab=49.93 E-value=16 Score=16.19 Aligned_cols=104 Identities=10% Similarity=-0.045 Sum_probs=65.4 Q ss_pred CCCCEEEEE---ECCCCCCCCC-----HHHHHHHH------HCCCCEEEEEEECHHHHCCC-----CCCH--------HH Q ss_conf 886426888---3586755677-----89999999------57982999997383784788-----8998--------99 Q gi|254781170|r 5 TAMSVHLVW---LRNDLRITDN-----KALYAACH------NSDAKVIAVFIATPEQWRQH-----GISA--------RQ 57 (483) Q Consensus 5 ~~M~~~IvW---fRrDLRl~DN-----~aL~~A~~------~~~~~vlpvyi~dp~~~~~~-----~~~~--------~~ 57 (483) +.|..+|.- |++-|=.-|. .||..|++ ..+..+..++++++...... ..+. .. T Consensus 2 ~~m~~~i~v~~d~~~ilv~vd~s~~s~~al~~A~~~~~~a~~~~~~i~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (175) T 2gm3_A 2 GSEPTKVXVAVNASTIKDYPNPSISCKRAFEWTLEKIVRSNTSDFKILLLHVQVVDEDGFDDVDSIYASPEDFRDXRQSN 81 (175) T ss_dssp ---CEEEEEECCBCSSSCTTCBCHHHHHHHHHHHHHTTTTCTTSEEEEEEEEEC----------CCCCSHHHHHHHTTSH T ss_pred CCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHH T ss_conf 99986899998487554666777999999999999998708975899999802777533233454457888999999999 Q ss_pred HHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEC Q ss_conf 99999999999999997598099996575350899999999870976142100 Q gi|254781170|r 58 SHFIYASLLQVQKSLSQKGIVFQYHQCSNFDDSIEWLDSYCLQQRVTKLFYNR 110 (483) Q Consensus 58 ~~Fl~esL~~L~~~L~~~g~~L~v~~~~~~g~~~~~L~~l~~~~~i~~v~~n~ 110 (483) ..-..+.|..+.+.+...|........ .|++.+.|.+.+.+.+++-|+.-. T Consensus 82 ~~~~~~~l~~~~~~~~~~~v~~~~~v~--~g~~~~~I~~~a~~~~~dliVlG~ 132 (175) T 2gm3_A 82 KAKGLHLLEFFVNKCHEIGVGCEAWIK--TGDPKDVICQEVKRVRPDFLVVGS 132 (175) T ss_dssp HHHHHHHHHHHHHHHHHHTCEEEEEEE--ESCHHHHHHHHHHHHCCSEEEEEE T ss_pred HHHHHHHHHHHHHHHHHCCCCEEEEEE--CCCHHHHHHHHHHHHCCCEEEECC T ss_conf 999999999999999862883599752--188899999999983575688547 No 33 >>2ewf_A Nicking endonuclease N.BSPD6I; helix-turn-helix, beta-alpha-barrel, hydrolase; 1.84A {Bacillus SP} (A:133-285) Probab=47.51 E-value=5.2 Score=19.29 Aligned_cols=32 Identities=16% Similarity=0.105 Sum_probs=22.9 Q ss_pred CCHHHHHHHHHHHHCCCCHHHH--------HHHHHHHHHH Q ss_conf 8688999999997167635899--------9999999984 Q gi|254781170|r 333 FPIIDAAMRQLNTIGWMHNRLR--------MITASFLVKD 364 (483) Q Consensus 333 ~PlVDA~MR~L~~tG~mhnr~R--------m~vaSfl~~~ 364 (483) ...-|||||.|+.||..+-+++ +..+-||.++ T Consensus 109 ~DYAD~~~RYlR~TGl~~~~G~~l~i~peKk~~id~Ll~~ 148 (153) T 2ewf_A 109 RDVADATTRYFRYTGLFVARGNQLVLNPEKSDLIDEIISS 148 (153) T ss_dssp HHHHHHHHHHHHHTTSEEEETTEEEECGGGHHHHHHHHHH T ss_pred HHHHHHHHHHHHHCCEEEEECCEEEECCCCHHHHHHHHHH T ss_conf 6767899999962670897178233063307999999971 No 34 >>1k19_A Chemosensory protein CSP2; pheromone, lipid transport; NMR {Mamestra brassicae} (A:) Probab=45.78 E-value=4.1 Score=19.92 Aligned_cols=19 Identities=16% Similarity=0.541 Sum_probs=12.1 Q ss_pred HHHHCCCCCEEHCCCHHHH Q ss_conf 8872489978330082432 Q gi|254781170|r 415 GKRFDPQGTFIRHWLPELN 433 (483) Q Consensus 415 ~~~~Dp~g~~ir~wvPeL~ 433 (483) ..+|||+|+|.+++--.|+ T Consensus 85 ~~kYDP~g~y~~k~~~~~~ 103 (112) T 1k19_A 85 TAKYDPTGNWRKKYEDRAK 103 (112) T ss_dssp HHSSTTTCSSHHHHHHHHH T ss_pred HHHHCCCCHHHHHHHHHHH T ss_conf 9986989559999999999 No 35 >>2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair, DNA-binding, endonuclease, metal-binding, excision repair, DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus solfataricus} (A:1-208,A:301-346) Probab=41.37 E-value=22 Score=15.36 Aligned_cols=13 Identities=15% Similarity=0.258 Sum_probs=10.1 Q ss_pred CEEEEEEECHHHH Q ss_conf 2999997383784 Q gi|254781170|r 36 KVIAVFIATPEQW 48 (483) Q Consensus 36 ~vlpvyi~dp~~~ 48 (483) .+-||||||.... T Consensus 69 ~I~pVfVFDG~~~ 81 (254) T 2izo_A 69 GVIPIYVFDGKPP 81 (254) T ss_dssp TEEEEEEECC--- T ss_pred CCCEEEEECCCCC T ss_conf 9926999817898 No 36 >>1k8k_D P34, ARP2/3 complex 34 kDa subunit, P34-ARC; beta-propeller, structural protein; 2.00A {Bos taurus} (D:125-300) Probab=39.01 E-value=10 Score=17.39 Aligned_cols=15 Identities=40% Similarity=0.846 Sum_probs=6.3 Q ss_pred CCCCHHHHHHHHHHH Q ss_conf 676358999999999 Q gi|254781170|r 347 GWMHNRLRMITASFL 361 (483) Q Consensus 347 G~mhnr~Rm~vaSfl 361 (483) ||||-|||.=|++|+ T Consensus 136 aymHsRMR~Rv~~~l 150 (176) T 1k8k_D 136 AYIHTRMRAKTSDFL 150 (176) T ss_dssp HHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHH T ss_conf 999999999999999 No 37 >>1qtq_A GLNRS, protein (glutaminyl-tRNA synthetase); glutamine, trnaGln, E. coli, complex, ligase/RNA complex; HET: QSI; 2.25A {Escherichia coli} (A:1-101,A:213-261) Probab=37.99 E-value=24 Score=15.02 Aligned_cols=43 Identities=12% Similarity=-0.036 Sum_probs=18.9 Q ss_pred CCEEEEEEECHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECC Q ss_conf 829999973837847888998999999999999999999759809999657 Q gi|254781170|r 35 AKVIAVFIATPEQWRQHGISARQSHFIYASLLQVQKSLSQKGIVFQYHQCS 85 (483) Q Consensus 35 ~~vlpvyi~dp~~~~~~~~~~~~~~Fl~esL~~L~~~L~~~g~~L~v~~~~ 85 (483) ++|+.=|-=.| -+..+.|..+...+...+ -+..|+.++++-.+ T Consensus 25 ~~vv~RFAPsP--tG~lHlG~~r~al~n~~~------Ar~~gG~~iLRiED 67 (150) T 1qtq_A 25 TTVHTRFPPEP--NGYLHIGHAKSICLNFGI------AQDYKGQCNLRFDD 67 (150) T ss_dssp SSCEEEECCCT--TSCCBHHHHHHHHHHHHH------HHHTTCEEEEEECC T ss_pred CEEEEEECCCC--CCCCCHHHHHHHHHHHHH------HHHHCCEEEEEECC T ss_conf 81899648798--875318999999999999------99829999999788 No 38 >>3kq5_A Hypothetical cytosolic protein; structural genomics, unknown function, PSI-2, protein structure initiative; 2.00A {Coxiella burnetii} (A:1-22,A:117-164) Probab=35.88 E-value=15 Score=16.42 Aligned_cols=14 Identities=43% Similarity=0.966 Sum_probs=11.1 Q ss_pred HCCCCCEEHCCCHH Q ss_conf 24899783300824 Q gi|254781170|r 418 FDPQGTFIRHWLPE 431 (483) Q Consensus 418 ~Dp~g~~ir~wvPe 431 (483) -|.+|.|||.|-|= T Consensus 33 tdeegnfikqwnpf 46 (70) T 3kq5_A 33 TDEEGNFIKQWNPF 46 (70) T ss_dssp ECTTCCEEEECCGG T ss_pred ECCCCCCCCCCCCC T ss_conf 44788767654898 No 39 >>3cdl_A Transcriptional regulator AEFR; APC88582, TETR, pseudomonas syringae PV. tomato STR. DC3000, structural genomics, PSI-2; HET: MSE; 2.36A {Pseudomonas syringae PV} (A:1-51) Probab=35.77 E-value=26 Score=14.80 Aligned_cols=24 Identities=25% Similarity=0.386 Sum_probs=21.2 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHH Q ss_conf 889999999971676358999999 Q gi|254781170|r 335 IIDAAMRQLNTIGWMHNRLRMITA 358 (483) Q Consensus 335 lVDA~MR~L~~tG~mhnr~Rm~va 358 (483) |+||+++.+.+.||-+-.||+|+. T Consensus 14 il~aa~~lf~~~G~~~~s~~~Ia~ 37 (51) T 3cdl_A 14 IVQAAIAEFGDRGFEITSXDRIAA 37 (51) T ss_dssp HHHHHHHHHHHHCTTTCCHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHH T ss_conf 999999999974925188999999 No 40 >>3fvv_A Uncharacterized protein; unknown function, structural genomics, PSI,MCSG, protein structure initiative; 2.10A {Bordetella pertussis} (A:1-15,A:92-232) Probab=34.24 E-value=28 Score=14.65 Aligned_cols=46 Identities=9% Similarity=-0.022 Sum_probs=36.9 Q ss_pred HHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEC Q ss_conf 99999999999997598099996575350899999999870976142100 Q gi|254781170|r 61 IYASLLQVQKSLSQKGIVFQYHQCSNFDDSIEWLDSYCLQQRVTKLFYNR 110 (483) Q Consensus 61 l~esL~~L~~~L~~~g~~L~v~~~~~~g~~~~~L~~l~~~~~i~~v~~n~ 110 (483) +.+...++=+.|++.|+.+.+.. |+.......++++.++..++.+. T Consensus 17 l~p~~~e~i~~lk~~Gi~v~ivT----g~~~~~a~~ia~~lGi~~~~~~~ 62 (156) T 3fvv_A 17 LTVQAVDVVRGHLAAGDLCALVT----ATNSFVTAPIARAFGVQHLIATD 62 (156) T ss_dssp CCHHHHHHHHHHHHTTCEEEEEE----SSCHHHHHHHHHHTTCCEEEECE T ss_pred CCHHHHHHHHHHHHCCCEEEEEC----CCCHHHHHHHHHHCCCCHHHEEE T ss_conf 38769999999997593699967----99899999999981980541112 No 41 >>3egq_A TETR family transcriptional regulator; NP_070644.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE PE8; 2.55A {Archaeoglobus fulgidus} (A:1-69) Probab=33.73 E-value=22 Score=15.24 Aligned_cols=24 Identities=25% Similarity=0.206 Sum_probs=17.1 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHH Q ss_conf 889999999971676358999999 Q gi|254781170|r 335 IIDAAMRQLNTIGWMHNRLRMITA 358 (483) Q Consensus 335 lVDA~MR~L~~tG~mhnr~Rm~va 358 (483) |+||++..|.+.|+-.-.+|.++. T Consensus 9 il~aa~~~~~~~G~~~~t~~~Ia~ 32 (69) T 3egq_A 9 IIEAALRLYXKKPPHEVSIEEIAR 32 (69) T ss_dssp HHHHHHHHHTTSCGGGCCHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHH T ss_conf 999999999872923067999999 No 42 >>2cy7_A Cysteine protease APG4B; papain-like fold, autophagy, hydrolase; 1.90A {Homo sapiens} (A:1-365) Probab=33.63 E-value=6.4 Score=18.72 Aligned_cols=23 Identities=17% Similarity=0.385 Sum_probs=11.4 Q ss_pred CCCCCHHHCCC-CCCHHHHHHHHH Q ss_conf 65446111146-487999999999 Q gi|254781170|r 242 TSQLSPYLSIG-VLSPRQCWNRLK 264 (483) Q Consensus 242 tSrLSPyL~~G-~IS~R~v~~~~~ 264 (483) -|.|.|=+..| .+.-++=+.... T Consensus 313 ~~~lDPS~~lGFy~~~~~d~~dl~ 336 (365) T 2cy7_A 313 IAELDPSIAVGFFCKTEDDFNDWC 336 (365) T ss_dssp GGGSCSEEEEEEEESSHHHHHHHH T ss_pred HHHCCCCEEEEEEECCHHHHHHHH T ss_conf 533187779999979899999999 No 43 >>3dwl_D Actin-related protein 2/3 complex subunit 2; propellor, actin-binding, ATP-binding, cytoplasm, cytoskeleton, nucleotide-binding; HET: ATP; 3.78A {Schizosaccharomyces pombe} (D:117-317) Probab=33.56 E-value=14 Score=16.50 Aligned_cols=15 Identities=40% Similarity=0.718 Sum_probs=6.3 Q ss_pred CCCCHHHHHHHHHHH Q ss_conf 676358999999999 Q gi|254781170|r 347 GWMHNRLRMITASFL 361 (483) Q Consensus 347 G~mhnr~Rm~vaSfl 361 (483) +|||-|||-=|.+|+ T Consensus 162 aymHsRMR~Rv~~fl 176 (201) T 3dwl_D 162 AYMHQRMRKRVADFQ 176 (201) T ss_dssp HHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHH T ss_conf 999999999999999 No 44 >>1a76_A Flap endonuclease-1 protein; 5'-3' EXO/endo nuclease, DNA replication, RTH, RAD27, DNA repair; 2.00A {Methanococcus jannaschii} (A:1-209,A:275-326) Probab=33.05 E-value=29 Score=14.53 Aligned_cols=41 Identities=12% Similarity=0.011 Sum_probs=20.5 Q ss_pred HHHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCEEE Q ss_conf 999999999975980999965753508999999998709761421 Q gi|254781170|r 64 SLLQVQKSLSQKGIVFQYHQCSNFDDSIEWLDSYCLQQRVTKLFY 108 (483) Q Consensus 64 sL~~L~~~L~~~g~~L~v~~~~~~g~~~~~L~~l~~~~~i~~v~~ 108 (483) -..++..-|+..|++.+.-. +++...+..+++...+..|.. T Consensus 131 ~~~~~k~lL~~~Gi~~v~Ap----~EAeaqcA~L~~~g~v~aV~s 171 (261) T 1a76_A 131 MVENCKYLLSLMGIPYVEAP----SEGEAQASYMAKKGDVWAVVS 171 (261) T ss_dssp HHHHHHHHHHHHTCCEEECS----SCHHHHHHHHHHTTSSSEEEC T ss_pred HHHHHHHHHHHCCCCEEECC----CHHHHHHHHHHHCCCEEEEEC T ss_conf 99999874152187712357----529999999996598378726 No 45 >>2rjo_A Twin-arginine translocation pathway signal protein; PSI-2, NYSGXRC, structural genomics, protein structure initiative; HET: GAL; 2.05A {Burkholderia phytofirmans psjn} (A:1-117,A:253-287) Probab=32.03 E-value=30 Score=14.42 Aligned_cols=105 Identities=11% Similarity=-0.067 Sum_probs=55.9 Q ss_pred HHHHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEECCCCCHHHHCCHHHHHHHHHCCCCEECCC Q ss_conf 99999999999999975980999965753508999999998709761421001110011001026888752000000223 Q gi|254781170|r 59 HFIYASLLQVQKSLSQKGIVFQYHQCSNFDDSIEWLDSYCLQQRVTKLFYNRQYEINEVRRDKLLEKRLQHRVICKSFDD 138 (483) Q Consensus 59 ~Fl~esL~~L~~~L~~~g~~L~v~~~~~~g~~~~~L~~l~~~~~i~~v~~n~~~~~~~~~rd~~i~~~l~~~~~~~~~~~ 138 (483) .|..+-+..+++.+++.|..+.+.....-.+......+.....+++.|+..-.. ......+..++...+.++++..++. T Consensus 18 ~~~~~ii~gi~~~a~~~Gy~lii~~~~~d~~~~~~~i~~l~~~~vDGIIi~~~~-~~~~~~~~~i~~l~~~gIPvV~id~ 96 (152) T 2rjo_A 18 PYYTAFNKGAQSFAKSVGLPYVPLTTEGSSEKGIADIRALLQKTGGNLVLNVDP-NDSADARVIVEACSKAGAYVTTIWN 96 (152) T ss_dssp HHHHHHHHHHHHHHHHHTCCEEEEECTTCHHHHHHHHHHHHHHTTTCEEEEECC-SSHHHHHHHHHHHHHHTCEEEEESC T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHHCCCCEEEEECCC-CCCCCHHHHHHHHHHCCCEEEEECC T ss_conf 899999999999999729989999389999999999999996599989998366-4210014778899973987898415 Q ss_pred CCCCCCCCCCCCCCCCCCCCHHHHHH Q ss_conf 43455576002378644321014799 Q gi|254781170|r 139 SVLLPPGSILNHALQMYKVYTPFRKA 164 (483) Q Consensus 139 ~~l~~p~~i~~~~~~~~~vftpf~k~ 164 (483) ..--........+.....--.|||-. T Consensus 97 ~~~~~~~~~V~~Dn~~g~~~A~~~~~ 122 (152) T 2rjo_A 97 KPKDLHPWDYNPNYVAHLSYDPFWLG 122 (152) T ss_dssp CCTTCCGGGGTTTEEEEEECCHHHHH T ss_pred CCCCCCCCCCCCCCEEEEECCHHHHH T ss_conf 56543222357872146603299999 No 46 >>2iye_A Copper-transporting ATPase; hydrolase, P-type ATPase, CPX-ATPase, COPB, heavy metal translocation; 2.6A {Sulfolobus solfataricus} (A:1-39,A:139-263) Probab=31.58 E-value=31 Score=14.37 Aligned_cols=79 Identities=11% Similarity=0.156 Sum_probs=49.9 Q ss_pred ECCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHH Q ss_conf 35867556778999999957982999997383784788899899999999999999999975980999965753508999 Q gi|254781170|r 14 LRNDLRITDNKALYAACHNSDAKVIAVFIATPEQWRQHGISARQSHFIYASLLQVQKSLSQKGIVFQYHQCSNFDDSIEW 93 (483) Q Consensus 14 fRrDLRl~DN~aL~~A~~~~~~~vlpvyi~dp~~~~~~~~~~~~~~Fl~esL~~L~~~L~~~g~~L~v~~~~~~g~~~~~ 93 (483) ||.-+=+.|-.+|..-. .-|. .|||..- . +....+.=+.|++.|+..++.. |+.... T Consensus 10 ~~~~~~~~~~~~~~~~~-~~~~-----~~~~~~~-~------------~P~a~e~I~~L~~~Gi~v~IiT----GD~~~~ 66 (164) T 2iye_A 10 LHKGMIIKNSNVYEKIK-EIDT-----IIFDKTG-T------------LPNLKDYLEKLKNEGLKIIILS----GDKEDK 66 (164) T ss_dssp HHTTCEESSSSGGGTST-TCCE-----EEEESTT-T------------TSCCHHHHHHHHGGGCEEEEEC----SSCHHH T ss_pred HHCCEEEECHHHHHHHC-CCCE-----EEECCCC-C------------CCHHHHHHHHHHHCCCCEEEEC----CCCCCC T ss_conf 97991970859999866-9999-----9991885-2------------3129999999997599279823----874211 Q ss_pred HHHHHHHCCCCCEEEECCCCCHHH Q ss_conf 999998709761421001110011 Q gi|254781170|r 94 LDSYCLQQRVTKLFYNRQYEINEV 117 (483) Q Consensus 94 L~~l~~~~~i~~v~~n~~~~~~~~ 117 (483) ...++++.++..||++- .|..+ T Consensus 67 a~~ia~~lgI~~v~a~v--~p~~K 88 (164) T 2iye_A 67 VKELSKELNIQEYYSNL--SPEDK 88 (164) T ss_dssp HHHHHHHHTCSEEECSC--CHHHH T ss_pred CHHHHHHHCHHHHHHCC--CHHHH T ss_conf 01479985302534023--57889 No 47 >>3l49_A ABC sugar (ribose) transporter, periplasmic substrate-binding subunit; sugar binding/transporter, structural genomics, PSI; HET: UNL; 2.30A {Rhodobacter sphaeroides} (A:1-106,A:248-291) Probab=31.30 E-value=31 Score=14.34 Aligned_cols=78 Identities=9% Similarity=-0.068 Sum_probs=48.6 Q ss_pred HHHHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEECCCCCHHHHCCHHHHHHHHHCCCCEECCC Q ss_conf 99999999999999975980999965753508999999998709761421001110011001026888752000000223 Q gi|254781170|r 59 HFIYASLLQVQKSLSQKGIVFQYHQCSNFDDSIEWLDSYCLQQRVTKLFYNRQYEINEVRRDKLLEKRLQHRVICKSFDD 138 (483) Q Consensus 59 ~Fl~esL~~L~~~L~~~g~~L~v~~~~~~g~~~~~L~~l~~~~~i~~v~~n~~~~~~~~~rd~~i~~~l~~~~~~~~~~~ 138 (483) .|..+-+..+.+.+++.|..+.+.....-.+.....-+.+...+++.|...- .....-+..++...+.++.+..++. T Consensus 18 ~f~~~i~~gi~~aa~~~Gy~l~i~~~~~d~~~~~~~i~~l~~~~vdgIIi~~---~~~~~~~~~i~~l~~~gIPvV~i~~ 94 (150) T 3l49_A 18 DWDLKAYQAQIAEIERLGGTAIALDAGRNDQTQVSQIQTLIAQKPDAIIEQL---GNLDVLNPWLQKINDAGIPLFTVDT 94 (150) T ss_dssp HHHHHHHHHHHHHHHHTTCEEEEEECTTCHHHHHHHHHHHHHHCCSEEEEES---SCHHHHHHHHHHHHHTTCCEEEESC T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHHCCCCEEEEEC---CCCHHHHHHHHHHHHCCCCEEECCC T ss_conf 8999999999999997399999993899999999999999975999999927---8403058999999986991996677 Q ss_pred C Q ss_conf 4 Q gi|254781170|r 139 S 139 (483) Q Consensus 139 ~ 139 (483) . T Consensus 95 ~ 95 (150) T 3l49_A 95 A 95 (150) T ss_dssp C T ss_pred C T ss_conf 6 No 48 >>1rxw_A Flap structure-specific endonuclease; helical clamp, helix-3 turn-helix, hydrophobic wedge, 3' flap binding site, hydrolase/DNA complex; 2.00A {Archaeoglobus fulgidus} (A:1-220,A:289-336) Probab=30.97 E-value=31 Score=14.31 Aligned_cols=88 Identities=6% Similarity=-0.146 Sum_probs=35.1 Q ss_pred CEEEEEEECHHHHCCC-CCCHHHHHHHHHHHHHHHHHHHHCCCE---EEEEECCCCCCHHHHHHHHHHHCCCCCEEEECC Q ss_conf 2999997383784788-899899999999999999999975980---999965753508999999998709761421001 Q gi|254781170|r 36 KVIAVFIATPEQWRQH-GISARQSHFIYASLLQVQKSLSQKGIV---FQYHQCSNFDDSIEWLDSYCLQQRVTKLFYNRQ 111 (483) Q Consensus 36 ~vlpvyi~dp~~~~~~-~~~~~~~~Fl~esL~~L~~~L~~~g~~---L~v~~~~~~g~~~~~L~~l~~~~~i~~v~~n~~ 111 (483) .+-||||||....... ..-..|..-..+............... ..-.......+..+.+..+.+..++.-|.+ T Consensus 72 ~I~pvfVFDG~~~~~K~~~~~~R~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lL~~~gi~~i~A--- 148 (268) T 1rxw_A 72 GIRPVFVFDGEPPEFKKAEIEERKKRRAEAEEMWIAALQAGDKDAKKYAQAAGRVDEYIVDSAKTLLSYMGIPFVDA--- 148 (268) T ss_dssp TCEEEEEECCSCCGGGHHHHHHHHHHHHHHHHHHHHHHHHTCTTHHHHHHHHCCCCHHHHHHHHHHHHHTTCCEEEC--- T ss_pred CCEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCEEEC--- T ss_conf 98489998589986114788899877777545599998752899999753130078889999999987427515745--- Q ss_pred CCCHHHHCCHHHHHHHHHC Q ss_conf 1100110010268887520 Q gi|254781170|r 112 YEINEVRRDKLLEKRLQHR 130 (483) Q Consensus 112 ~~~~~~~rd~~i~~~l~~~ 130 (483) |++. |..+...++.+ T Consensus 149 --P~EA--daq~A~l~~~g 163 (268) T 1rxw_A 149 --PSEG--EAQAAYMAAKG 163 (268) T ss_dssp --SSCH--HHHHHHHHHTT T ss_pred --CCHH--HHHHHHHHHCC T ss_conf --5189--99999998749 No 49 >>1b43_A Protein (FEN-1); nuclease, DNA repair, DNA replication; 2.00A {Pyrococcus furiosus} (A:1-211,A:289-340) Probab=29.58 E-value=33 Score=14.16 Aligned_cols=12 Identities=17% Similarity=0.315 Sum_probs=9.5 Q ss_pred CEEEEEEECHHH Q ss_conf 299999738378 Q gi|254781170|r 36 KVIAVFIATPEQ 47 (483) Q Consensus 36 ~vlpvyi~dp~~ 47 (483) .+-||||||..- T Consensus 72 gI~pVfVFDG~~ 83 (263) T 1b43_A 72 GIKPVYVFDGEP 83 (263) T ss_dssp TCEEEEEECCSC T ss_pred CCCEEEEEECCC T ss_conf 998699986897 No 50 >>1ygr_A CD45 protein tyrosine phosphatase; protein tyrosine phosphatase, RPTP, LCA, lymphocyte activation, hydrolase; HET: PTR; 2.90A {Homo sapiens} PDB: 1ygu_A* (A:294-362,A:550-610) Probab=29.24 E-value=18 Score=15.92 Aligned_cols=23 Identities=17% Similarity=0.125 Sum_probs=14.0 Q ss_pred HCCCC-CCHHHHHHHHHHHHCCCC Q ss_conf 22788-868899999999716763 Q gi|254781170|r 328 QGYTG-FPIIDAAMRQLNTIGWMH 350 (483) Q Consensus 328 ~G~TG-~PlVDA~MR~L~~tG~mh 350 (483) -|+|| |=.+|.+|.++..+|.+. T Consensus 70 vGRTGtfiaid~~l~~i~~~~~vd 93 (130) T 1ygr_A 70 SQQTGIFCALLNLLESAETEEVVD 93 (130) T ss_dssp STTHHHHHHHHHHHHHHHHSSBCC T ss_pred CHHHHHHHHHHHHHHHHHHCCCCC T ss_conf 459999999999999997669988 No 51 >>2zvr_A Uncharacterized protein TM_0416; hyperthermophIle, ketohexose 3- epimerase, D-tagatose 3-epimerase, isomerase; 2.20A {Thermotoga maritima} (A:) Probab=26.82 E-value=37 Score=13.85 Aligned_cols=43 Identities=5% Similarity=-0.194 Sum_probs=25.7 Q ss_pred HHHHHHHHHHHHHCCCEEEEEE-CCCCCCHHHHHHHHHHHCCCC Q ss_conf 9999999999997598099996-575350899999999870976 Q gi|254781170|r 62 YASLLQVQKSLSQKGIVFQYHQ-CSNFDDSIEWLDSYCLQQRVT 104 (483) Q Consensus 62 ~esL~~L~~~L~~~g~~L~v~~-~~~~g~~~~~L~~l~~~~~i~ 104 (483) -.++.+.-+.+++.|..-+-+. ....+...+.+.+.++++++. T Consensus 40 ~~~l~~~~~~~~~~G~~~iEl~~~~~~~~~~~~~~~~l~~~gl~ 83 (290) T 2zvr_A 40 KGDLRKGMELAKRVGYQAVEIAVRDPSIVDWNEVKILSEELNLP 83 (290) T ss_dssp HHHHHHHHHHHHHHTCSEEEEECSCGGGSCHHHHHHHHHHHTCC T ss_pred CCCHHHHHHHHHHHCCCEEEECCCCCCCCCHHHHHHHHHHCCCE T ss_conf 87999999999995999899588895617899999999985990 No 52 >>1q77_A Hypothetical protein AQ_178; structural genomics, universal stress protein, PSI, protein structure initiative; 2.70A {Aquifex aeolicus} (A:) Probab=26.65 E-value=37 Score=13.83 Aligned_cols=103 Identities=11% Similarity=-0.029 Sum_probs=62.0 Q ss_pred CCCCEEEEEECCCCCCCCCHHHHHHHH---HCCCCEEEEEEECHHHHC-------CCCCC----HHHHHHHHHHHHHHHH Q ss_conf 886426888358675567789999999---579829999973837847-------88899----8999999999999999 Q gi|254781170|r 5 TAMSVHLVWLRNDLRITDNKALYAACH---NSDAKVIAVFIATPEQWR-------QHGIS----ARQSHFIYASLLQVQK 70 (483) Q Consensus 5 ~~M~~~IvWfRrDLRl~DN~aL~~A~~---~~~~~vlpvyi~dp~~~~-------~~~~~----~~~~~Fl~esL~~L~~ 70 (483) |+|.-+|+- ==|.--+-..+|..|+. ..+..+..+.|+++.... ..... .....-..+-+.++.+ T Consensus 1 s~m~k~Ilv-~vD~s~~s~~al~~a~~~a~~~~~~i~~~hv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (138) T 1q77_A 1 SNAXKVLLV-LTDAYSDCEKAITYAVNFSEKLGAELDILAVLEDVYNLERANVTFGLPFPPEIKEESKKRIERRLREVWE 79 (138) T ss_dssp CCCCEEEEE-EESTTCCCHHHHHHHHHHHTTTCCEEEEEEECHHHHHHHHHHHHHCCCCCTHHHHHHHHHHHHHHHHHHH T ss_pred CCCCCEEEE-EEECCHHHHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH T ss_conf 986789999-9839999999999999988762956999995367521223333346643088999999888888999999 Q ss_pred HHHHCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEC Q ss_conf 9997598099996575350899999999870976142100 Q gi|254781170|r 71 SLSQKGIVFQYHQCSNFDDSIEWLDSYCLQQRVTKLFYNR 110 (483) Q Consensus 71 ~L~~~g~~L~v~~~~~~g~~~~~L~~l~~~~~i~~v~~n~ 110 (483) .+...|+.....-. .|++.+.|.+++++.+++-|+.-. T Consensus 80 ~~~~~~~~~~~~~~--~g~~~~~I~~~a~~~~~dliVvG~ 117 (138) T 1q77_A 80 KLTGSTEIPGVEYR--IGPLSEEVKKFVEGKGYELVVWAC 117 (138) T ss_dssp HHHSCCCCCCEEEE--CSCHHHHHHHHHTTSCCSEEEECS T ss_pred HHHCCCCCEEEEEE--CCCHHHHHHHHHHHCCCCEEEECC T ss_conf 86336641688750--696599999999984999999968 No 53 >>1ub2_A Catalase-peroxidase; KATG, synechococcus PCC 7942, cyanobacteria, oxidoreductase; HET: HEM; 2.40A {Synechococcus elongatus pcc 7942} (A:298-377) Probab=26.35 E-value=23 Score=15.20 Aligned_cols=32 Identities=25% Similarity=0.553 Sum_probs=21.4 Q ss_pred HHHHHHHHHHHHCCCHH---CCCCCCCEEEECCCC Q ss_conf 02233477664133111---474561002012789 Q gi|254781170|r 370 RIGEEYFMSQLLDGDLA---SNNGGWQWAASTGND 401 (483) Q Consensus 370 r~g~~~f~~~llD~d~~---~n~~~wq~~a~~G~d 401 (483) ++.-.||..+|..||+. +-.|-|||.+-.|.+ T Consensus 22 ~wdN~yf~~LL~~~eWel~ksPaGa~Qw~~~~~~~ 56 (80) T 1ub2_A 22 QWDNGYFAVCSLNYDWELKKNPAGAWQWEPINPRE 56 (80) T ss_dssp SCSSTTTTTTTSSSCEEEEECTTSCEEEEESSCCG T ss_pred CCCCHHHHHHHCCCCEECCCCCCCCCCCCCCCCCH T ss_conf 03430788765024501145766565457777522 No 54 >>8abp_A L-arabinose-binding protein; binding proteins; HET: GLA GAL; 1.49A {Escherichia coli} (A:1-109,A:256-284) Probab=25.70 E-value=39 Score=13.72 Aligned_cols=78 Identities=9% Similarity=0.057 Sum_probs=49.9 Q ss_pred HHHHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEECCCCCHHHHCCHHHHHHHHHCCCCEECCC Q ss_conf 99999999999999975980999965753508999999998709761421001110011001026888752000000223 Q gi|254781170|r 59 HFIYASLLQVQKSLSQKGIVFQYHQCSNFDDSIEWLDSYCLQQRVTKLFYNRQYEINEVRRDKLLEKRLQHRVICKSFDD 138 (483) Q Consensus 59 ~Fl~esL~~L~~~L~~~g~~L~v~~~~~~g~~~~~L~~l~~~~~i~~v~~n~~~~~~~~~rd~~i~~~l~~~~~~~~~~~ 138 (483) .|..+-+..+++.+++.|..+.+..........+.+..++ +.+++.|...-. ....-+..++.....++.+..++. T Consensus 15 ~f~~~i~~gi~~~a~~~g~~vi~~~~~~~~~~~~~i~~li-~~~vDGIIi~~~---~~~~~~~~i~~l~~~gIPvV~id~ 90 (138) T 8abp_A 15 PWFQTEWKFADKAGKDLGFEVIKIAVPDGEKTLNAIDSLA-ASGAKGFVICTP---DPKLGSAIVAKARGYDMKVIAVDD 90 (138) T ss_dssp HHHHHHHHHHHHHHHHHTEEEEEEECCSHHHHHHHHHHHH-HTTCCEEEEECS---CGGGHHHHHHHHHHTTCEEEEESS T ss_pred HHHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHH-HCCCCEEEEECC---CCCCCHHHHHHHHHCCCCEEEEEC T ss_conf 8999999999999997299999985999999999999999-759998998053---234558999999973998899954 Q ss_pred CC Q ss_conf 43 Q gi|254781170|r 139 SV 140 (483) Q Consensus 139 ~~ 140 (483) .. T Consensus 91 ~~ 92 (138) T 8abp_A 91 QF 92 (138) T ss_dssp CC T ss_pred CC T ss_conf 54 No 55 >>3loq_A Universal stress protein; structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; HET: AMP; 2.32A {Archaeoglobus fulgidus} (A:) Probab=25.01 E-value=40 Score=13.64 Aligned_cols=95 Identities=13% Similarity=0.057 Sum_probs=62.1 Q ss_pred CCCCCCCCHHHHHHH---HHCCCCEEEEEEECHHHHCCC----CCC---HHHHHHHHHHHHHHHHHHHHCCCEEEEEECC Q ss_conf 867556778999999---957982999997383784788----899---8999999999999999999759809999657 Q gi|254781170|r 16 NDLRITDNKALYAAC---HNSDAKVIAVFIATPEQWRQH----GIS---ARQSHFIYASLLQVQKSLSQKGIVFQYHQCS 85 (483) Q Consensus 16 rDLRl~DN~aL~~A~---~~~~~~vlpvyi~dp~~~~~~----~~~---~~~~~Fl~esL~~L~~~L~~~g~~L~v~~~~ 85 (483) =|.--....||..|+ +..+..+..++++++...... ... ........+.+..+.+.+...|.+..+... T Consensus 29 vd~s~~s~~al~~a~~la~~~~~~i~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~- 107 (294) T 3loq_A 29 TDLSENSFKVLEYLGDFKKVGVEEIGVLFVINLTKLSTVSGGIDIDHYIDEXSEKAEEVLPEVAQKIEAAGIKAEVIKP- 107 (294) T ss_dssp CCSCTGGGGGGGGHHHHHHTTCCEEEEECCEECTTC-----CCCTTHHHHHHHHHHHHHHHHHHHHHHHTTCEEEECSS- T ss_pred ECCCHHHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEE- T ss_conf 6899999999999999997769989999998886544444545768999999999999999999999976997599999- Q ss_pred CCCCHHHHHHHHHHHCCCCCEEEECCC Q ss_conf 535089999999987097614210011 Q gi|254781170|r 86 NFDDSIEWLDSYCLQQRVTKLFYNRQY 112 (483) Q Consensus 86 ~~g~~~~~L~~l~~~~~i~~v~~n~~~ 112 (483) .|++.+.+...+++.+++-|..-... T Consensus 108 -~g~~~~~i~~~a~~~~~dliv~g~~~ 133 (294) T 3loq_A 108 -FPAGDPVVEIIKASENYSFIAXGSRG 133 (294) T ss_dssp -CCEECHHHHHHHHHTTSSEEEEECCC T ss_pred -EECCCHHHHHHHHHCCCCEEEECCCC T ss_conf -71599899999985489999989889 No 56 >>1nzj_A Hypothetical protein YADB; Zn cluster, glutamyl T-RNA synthetase, structural genomics, unknown function; 1.50A {Escherichia coli} (A:1-80,A:232-298) Probab=23.14 E-value=43 Score=13.42 Aligned_cols=12 Identities=0% Similarity=-0.236 Sum_probs=7.6 Q ss_pred HHCCCEEEEEEC Q ss_conf 975980999965 Q gi|254781170|r 73 SQKGIVFQYHQC 84 (483) Q Consensus 73 ~~~g~~L~v~~~ 84 (483) +..|+.++++-. T Consensus 34 r~~~G~~lLRiE 45 (147) T 1nzj_A 34 RARQGRWLVRIE 45 (147) T ss_dssp HHTTCEEEEEEC T ss_pred HHHCCEEEEEEC T ss_conf 982998999877 No 57 >>2zy4_A L-aspartate beta-decarboxylase; pyridoxal 5'-phosphate, aminotransferase, lyase; HET: PLP; 2.00A {Alcaligenes faecalis subsp} PDB: 2zy3_A* 2zy5_A* 3fdd_A* 2zy2_A* (A:41-160,A:381-404) Probab=23.10 E-value=15 Score=16.27 Aligned_cols=17 Identities=24% Similarity=0.556 Sum_probs=10.4 Q ss_pred HHHHHHHHCCCC--CCHHH Q ss_conf 678998722788--86889 Q gi|254781170|r 321 HLLQAWKQGYTG--FPIID 337 (483) Q Consensus 321 ~~~~aW~~G~TG--~PlVD 337 (483) +.+-.|++|-.| ||.=| T Consensus 80 ~~v~El~dgiiGdnYPvPd 98 (144) T 2zy4_A 80 AFLHEMVDGILGCNYPVPP 98 (144) T ss_dssp HHHHHHHHHHHTCSCCSSS T ss_pred HHHHHHHHHHCCCCCCCCC T ss_conf 9999998551168897998 No 58 >>2hc1_A Receptor-type tyrosine-protein phosphatase beta; protein tyrosine phosphatase, WPD-loop, sulfamic acid, inhibitor, drug design, hydrolase; 1.30A {Homo sapiens} PDB: 2h03_A 2hc2_A 2i4g_A* 2h04_A* 2h02_A 2i3u_A 2i3r_A 2i4e_A* 2i4h_A* 2i5x_A* 2ahs_A (A:1-57,A:229-291) Probab=23.00 E-value=19 Score=15.66 Aligned_cols=40 Identities=20% Similarity=0.180 Sum_probs=25.4 Q ss_pred HCCCHHCCHHHHHHHHH-CCCC-CCHHHHHHHHHHHHCCCCH Q ss_conf 01200010467899872-2788-8688999999997167635 Q gi|254781170|r 312 EKIEWNKDSHLLQAWKQ-GYTG-FPIIDAAMRQLNTIGWMHN 351 (483) Q Consensus 312 ~~~~w~~~~~~~~aW~~-G~TG-~PlVDA~MR~L~~tG~mhn 351 (483) ...+|.....--.+=|+ |+|| |=.+|.+|.+|..+|-+.- T Consensus 41 ~~~~~~~a~~peNk~KNVGRTGtfiald~~l~~l~~~~~vdv 82 (120) T 2hc1_A 41 RNQSCDIALLPENRGKNVGRTGTFIALDRILQQLDSKDSVDI 82 (120) T ss_dssp TTCCCTTTTSTTSGGGCSHHHHHHHHHHHHHHHHHHCC-CCH T ss_pred CCCCEECCCCHHHHHHCHHHHHHHHHHHHHHHHHHHCCCCCH T ss_conf 676530005920320162210689999999999985699789 No 59 >>2vfr_A Xylitol oxidase, alditol oxidase; FAD, sugar, polyol, flavin, flavoprotein, oxidoreductase; HET: FAD; 1.1A {Streptomyces coelicolor} PDB: 2vfs_A* 2vft_A* 2vfu_A* 2vfv_A* (A:381-422) Probab=22.86 E-value=20 Score=15.58 Aligned_cols=19 Identities=21% Similarity=0.517 Sum_probs=13.5 Q ss_pred HHHHHCCCCCEEHCCCHHH Q ss_conf 9887248997833008243 Q gi|254781170|r 414 QGKRFDPQGTFIRHWLPEL 432 (483) Q Consensus 414 q~~~~Dp~g~~ir~wvPeL 432 (483) -.+++||+|.|...|+-.| T Consensus 21 lr~~lDP~g~F~N~yl~~l 39 (42) T 2vfr_A 21 LAGALDPAGKFTNAFVRGV 39 (42) T ss_dssp HHHHHCTTCTTCCHHHHHH T ss_pred HHHHHCCCCCCCCHHHHHH T ss_conf 9997697987579789975 No 60 >>1tq8_A Hypothetical protein RV1636; MTCY01B2.28, structural genomics target, NYSGXRC, PSI, protein structure initiative; 2.40A {Mycobacterium tuberculosis H37RV} (A:1-128) Probab=22.22 E-value=45 Score=13.30 Aligned_cols=84 Identities=15% Similarity=0.140 Sum_probs=48.3 Q ss_pred HHHHHHHH--HCCCCEEEEEEECHHHHCCCC--------CCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHH Q ss_conf 89999999--579829999973837847888--------99899999999999999999975980999965753508999 Q gi|254781170|r 24 KALYAACH--NSDAKVIAVFIATPEQWRQHG--------ISARQSHFIYASLLQVQKSLSQKGIVFQYHQCSNFDDSIEW 93 (483) Q Consensus 24 ~aL~~A~~--~~~~~vlpvyi~dp~~~~~~~--------~~~~~~~Fl~esL~~L~~~L~~~g~~L~v~~~~~~g~~~~~ 93 (483) .+|..|+. ..++.++.+.++++....... .-........+-|.++.+.+.+.|..-..... ..|++.+. T Consensus 32 ~al~~a~~la~~~~~~~~l~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v-~~G~~~~~ 110 (128) T 1tq8_A 32 RAVDRAAQIAGADAKLIIASAYLPQHEDARAADILKDESYKVTGTAPIYEILHDAKERAHNAGAKNVEERP-IVGAPVDA 110 (128) T ss_dssp HHHHHHHHHHTTTSEEEEEEECCC--------------------CCTHHHHHHHHHHHHHTTTCCEEEEEE-ECSSHHHH T ss_pred HHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEE-EECCHHHH T ss_conf 99999999985489879999996156554422100025689999999999999999999976996299999-81688999 Q ss_pred HHHHHHHCCCCCEEE Q ss_conf 999998709761421 Q gi|254781170|r 94 LDSYCLQQRVTKLFY 108 (483) Q Consensus 94 L~~l~~~~~i~~v~~ 108 (483) |.+.+++++++-|+. T Consensus 111 I~~~a~~~~~DlIVi 125 (128) T 1tq8_A 111 LVNLADEEKADLLVV 125 (128) T ss_dssp HHHHHHHTTCSEEEE T ss_pred HHHHHHCCCEEEEEE T ss_conf 987640353058996 No 61 >>2z08_A Universal stress protein family; uncharacterized conserved protein, structural genomics, unknown function, NPPSFA; HET: ATP; 1.55A {Thermus thermophilus} (A:) Probab=22.19 E-value=45 Score=13.30 Aligned_cols=84 Identities=10% Similarity=-0.005 Sum_probs=52.8 Q ss_pred CHHHHHHH---HHCCCCEEEEEEECHHHHCCCC--CCHHHHHHHHHHHHHHHHHHHHCCC---EEEEEECCCCCCHHHHH Q ss_conf 78999999---9579829999973837847888--9989999999999999999997598---09999657535089999 Q gi|254781170|r 23 NKALYAAC---HNSDAKVIAVFIATPEQWRQHG--ISARQSHFIYASLLQVQKSLSQKGI---VFQYHQCSNFDDSIEWL 94 (483) Q Consensus 23 N~aL~~A~---~~~~~~vlpvyi~dp~~~~~~~--~~~~~~~Fl~esL~~L~~~L~~~g~---~L~v~~~~~~g~~~~~L 94 (483) ..+|..|+ +..+..|..|+|.++....... .......-..+.+......+...++ ...+.. |++.+.| T Consensus 16 ~~al~~a~~la~~~~~~i~ll~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----g~~~~~I 91 (137) T 2z08_A 16 RRAAEVAKAEAEAHGARLIVVHAYEPVPDYLGEPFFEEALRRRLERAEGVLEEARALTGVPKEDALLLE----GVPAEAI 91 (137) T ss_dssp HHHHHHHHHHHHHHTCEEEEEEEECC--------------CHHHHHHHHHHHHHHHHHCCCGGGEEEEE----SSHHHHH T ss_pred HHHHHHHHHHHHHCCCEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEEE----CCHHHHH T ss_conf 999999999998759999999875146642355026899999999999989999985799718999980----5748999 Q ss_pred HHHHHHCCCCCEEEEC Q ss_conf 9999870976142100 Q gi|254781170|r 95 DSYCLQQRVTKLFYNR 110 (483) Q Consensus 95 ~~l~~~~~i~~v~~n~ 110 (483) .+.+++.+++-|+.-. T Consensus 92 ~~~a~~~~~dliviG~ 107 (137) T 2z08_A 92 LQAARAEKADLIVMGT 107 (137) T ss_dssp HHHHHHTTCSEEEEES T ss_pred HHHHHHHHHHHEEECC T ss_conf 9987654445225556 No 62 >>1zc0_A Tyrosine-protein phosphatase, non-receptor type 7; heptp, human tyrosine phosphatase catalytic domain, LC-PTP, PTPN7, hydrolase; 1.85A {Homo sapiens} PDB: 2gp0_A 2qdc_A 2hvl_A 2qdp_A 2qdm_A 3d44_A* 3d42_A* 2a3k_A (A:1-76,A:244-309) Probab=22.03 E-value=18 Score=15.85 Aligned_cols=26 Identities=31% Similarity=0.404 Sum_probs=19.1 Q ss_pred HHH-CCCC-CCHHHHHHHHHHHHCCCCH Q ss_conf 872-2788-8688999999997167635 Q gi|254781170|r 326 WKQ-GYTG-FPIIDAAMRQLNTIGWMHN 351 (483) Q Consensus 326 W~~-G~TG-~PlVDA~MR~L~~tG~mhn 351 (483) .+. |+|| |=.+|.||.+|..+|-++- T Consensus 74 y~tVGRTGtFiaiDi~l~ql~~~~~VdV 101 (142) T 1zc0_A 74 YKTIGRTGCFIATRIGCQQLKARGEVDI 101 (142) T ss_dssp STTSHHHHHHHHHHHHHHHHHHHSEECH T ss_pred CCCCCCHHHHHHHHHHHHHHHHCCCCCH T ss_conf 9995313689999999999986699589 No 63 >>3fiw_A Putative TETR-family transcriptional regulator; TETR-family transcriptional regulator streptomyces, structural genomics, PSI-2; 2.20A {Streptomyces coelicolor} (A:1-88) Probab=21.87 E-value=46 Score=13.26 Aligned_cols=25 Identities=20% Similarity=0.315 Sum_probs=17.3 Q ss_pred CHHHHHHHHHHHHCCCCHHHHHHHH Q ss_conf 6889999999971676358999999 Q gi|254781170|r 334 PIIDAAMRQLNTIGWMHNRLRMITA 358 (483) Q Consensus 334 PlVDA~MR~L~~tG~mhnr~Rm~va 358 (483) -|+||++..+.+.||=.-.|+.|+. T Consensus 29 ~Il~aa~~l~~~~G~~~~t~~~Ia~ 53 (88) T 3fiw_A 29 TVITEALDLLDEVGLDGVSTRRLAK 53 (88) T ss_dssp HHHHHHHHHHHHHCGGGCCHHHHHH T ss_pred HHHHHHHHHHHHHCCCCCCHHHHHH T ss_conf 9999999999985935365999999 No 64 >>1n62_A Carbon monoxide dehydrogenase small chain; CODH, copper, molybdenum, molybdopterin, oxidoreductase; HET: CUB MCN FAD; 1.09A {Oligotropha carboxidovorans OM5} (A:) Probab=21.69 E-value=40 Score=13.66 Aligned_cols=28 Identities=18% Similarity=0.180 Sum_probs=19.7 Q ss_pred HCCHHHHHHHHHCC----CCC-CHHHHHHHHHH Q ss_conf 01046789987227----888-68899999999 Q gi|254781170|r 317 NKDSHLLQAWKQGY----TGF-PIIDAAMRQLN 344 (483) Q Consensus 317 ~~~~~~~~aW~~G~----TG~-PlVDA~MR~L~ 344 (483) +.+++..+.+-.|. ||| ||+||.++-.. T Consensus 122 ~p~~~ei~~al~GNlCRCTGY~~I~~Av~~~a~ 154 (166) T 1n62_A 122 SPTEAEIRFGIGGNLCRCTGYQNIVKAIQYAAA 154 (166) T ss_dssp SCCHHHHHHHTTTCCCSSSTTHHHHHHHHHHHH T ss_pred CCHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHH T ss_conf 923667898864751438998899999999999 No 65 >>3ljl_A Transcriptional regulator LUXT; structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; HET: MES; 3.20A {Vibrio parahaemolyticus} (A:1-60) Probab=20.86 E-value=43 Score=13.44 Aligned_cols=24 Identities=25% Similarity=0.420 Sum_probs=19.4 Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHH Q ss_conf 889999999971676358999999 Q gi|254781170|r 335 IIDAAMRQLNTIGWMHNRLRMITA 358 (483) Q Consensus 335 lVDA~MR~L~~tG~mhnr~Rm~va 358 (483) |+||+++.+.+.||=.-.||.|+. T Consensus 19 il~aa~~l~~~~G~~~~s~~~Ia~ 42 (60) T 3ljl_A 19 IXDAVVDQLLRLGYDKXSYTTLSQ 42 (60) T ss_dssp HHHHHHHHHHHTHHHHCCHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCHHHHHH T ss_conf 999999999871902077999999 Done!