Query gi|254780625|ref|YP_003065038.1| formamidopyrimidine-DNA glycosylase [Candidatus Liberibacter asiaticus str. psy62] Match_columns 289 No_of_seqs 122 out of 2796 Neff 7.7 Searched_HMMs 23785 Date Tue May 31 18:50:30 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780625.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 1tdz_A Formamidopyrimidine-DNA 100.0 0 0 546.5 22.2 271 1-289 1-271 (272) 2 1k82_A Formamidopyrimidine-DNA 100.0 0 0 525.5 24.7 268 2-289 1-268 (268) 3 1ee8_A MUTM (FPG) protein; bet 100.0 0 0 515.1 20.0 261 2-289 1-263 (266) 4 3gpu_A DNA glycosylase; DNA gl 100.0 0 0 495.9 21.0 254 2-289 1-256 (256) 5 1k3x_A Endonuclease VIII; hydr 100.0 0 0 489.8 20.9 259 2-289 1-262 (262) 6 3a46_A Formamidopyrimidine-DNA 100.0 0 0 469.7 14.1 265 1-289 1-287 (289) 7 1tdh_A NEI endonuclease VIII-l 100.0 0 0 416.4 13.7 260 1-288 1-286 (364) 8 3doa_A Fibrinogen binding prot 96.3 0.026 1.1E-06 33.6 8.7 52 143-198 168-219 (288) 9 1mu5_A Type II DNA topoisomera 96.2 0.025 1.1E-06 33.6 8.0 75 140-224 228-304 (471) 10 2zkq_m 40S ribosomal protein S 95.6 0.013 5.6E-07 35.4 4.5 50 164-222 23-72 (152) 11 2vqe_M 30S ribosomal protein S 95.4 0.0083 3.5E-07 36.7 3.0 50 164-222 12-61 (126) 12 3ofp_M 30S ribosomal protein S 93.2 0.01 4.3E-07 36.1 -0.5 50 164-222 11-60 (113) 13 3fut_A Dimethyladenosine trans 80.6 1.5 6.4E-05 22.2 3.9 58 156-223 212-269 (271) 14 1qyr_A KSGA, high level kasuga 77.5 2 8.5E-05 21.4 3.7 52 157-223 199-250 (252) 15 3ftd_A Dimethyladenosine trans 76.8 2.4 0.0001 20.9 3.9 46 158-222 200-245 (249) 16 2avu_E Flagellar transcription 74.5 1 4.3E-05 23.3 1.5 27 261-288 135-161 (192) 17 1vk6_A NADH pyrophosphatase; 1 74.0 1.6 6.6E-05 22.1 2.4 28 259-289 106-133 (269) 18 1vd4_A Transcription initiatio 66.8 1.9 7.8E-05 21.6 1.5 26 262-288 16-46 (62) 19 3ga8_A HTH-type transcriptiona 65.5 4.1 0.00017 19.4 3.0 24 155-178 54-77 (78) 20 3na7_A HP0958; flagellar bioge 65.4 0.56 2.3E-05 25.0 -1.4 30 259-289 197-230 (256) 21 3bbn_M Ribosomal protein S13; 60.8 0.98 4.1E-05 23.4 -0.8 41 164-208 57-97 (145) 22 2jne_A Hypothetical protein YF 58.4 4.8 0.0002 18.9 2.4 25 262-287 63-87 (101) 23 2jrp_A Putative cytoplasmic pr 54.7 5 0.00021 18.8 1.9 26 261-287 32-57 (81) 24 1l1o_C Replication protein A 7 53.3 2.4 1E-04 20.9 0.1 21 96-117 78-98 (181) 25 1nnq_A Rubrerythrin; structura 51.5 3.2 0.00014 20.1 0.5 21 262-288 141-161 (171) 26 3m7n_A Putative uncharacterize 51.5 7.4 0.00031 17.8 2.4 26 255-289 139-164 (179) 27 2f4m_A Peptide N-glycanase; gl 49.6 4.5 0.00019 19.2 1.0 10 74-83 157-166 (295) 28 1yuz_A Nigerythrin; rubrythrin 43.8 9.2 0.00039 17.1 1.9 21 262-288 173-193 (202) 29 1lko_A Rubrerythrin all-iron(I 43.2 13 0.00056 16.1 2.6 22 262-288 157-178 (191) 30 2i5h_A Hypothetical protein AF 37.8 18 0.00076 15.3 4.1 53 153-206 114-166 (205) 31 2edu_A Kinesin-like protein KI 36.8 19 0.00079 15.1 4.4 46 175-220 43-89 (98) 32 2elo_A Zinc finger protein 406 34.8 7.4 0.00031 17.8 0.2 11 279-289 7-17 (37) 33 2k4x_A 30S ribosomal protein S 32.6 13 0.00053 16.3 1.1 28 258-288 16-43 (55) 34 1l8d_A DNA double-strand break 29.4 14 0.00059 16.0 0.9 14 258-272 45-58 (112) 35 1i7d_A DNA topoisomerase III; 28.7 25 0.0011 14.3 3.4 19 259-278 615-633 (659) 36 1v6g_A Actin binding LIM prote 28.3 11 0.00046 16.7 0.2 26 261-287 16-41 (81) 37 2h1r_A Dimethyladenosine trans 28.3 26 0.0011 14.3 2.5 58 159-223 215-291 (299) 38 1x3h_A Leupaxin; paxillin fami 27.1 13 0.00056 16.1 0.5 25 260-287 15-41 (80) 39 2kdx_A HYPA, hydrogenase/ureas 27.1 18 0.00078 15.2 1.2 23 262-288 75-97 (119) 40 2nn6_I 3'-5' exoribonuclease C 25.2 29 0.0012 13.9 2.4 23 262-289 171-193 (209) 41 2h56_A DNA-3-methyladenine gly 24.6 30 0.0013 13.8 3.3 29 176-204 142-171 (233) 42 1gax_A Valrs, valyl-tRNA synth 23.7 25 0.001 14.4 1.3 26 164-191 348-373 (862) 43 2riq_A Poly [ADP-ribose] polym 23.6 28 0.0012 14.1 1.6 28 253-286 72-99 (160) 44 1wd2_A Ariadne-1 protein homol 23.6 9.7 0.00041 17.0 -0.8 22 260-284 6-27 (60) 45 3cc2_Z 50S ribosomal protein L 23.3 32 0.0013 13.7 2.2 27 259-289 59-86 (116) 46 1weu_A Inhibitor of growth fam 23.0 19 0.00078 15.2 0.6 10 280-289 75-84 (91) 47 1x6a_A LIMK-2, LIM domain kina 22.6 17 0.0007 15.5 0.3 25 262-287 17-41 (81) 48 2e1m_A L-glutamate oxidase; L- 22.6 33 0.0014 13.6 3.5 13 266-278 335-347 (376) 49 1s1i_9 L37A, YL35, 60S ribosom 22.3 11 0.00046 16.7 -0.7 26 259-288 34-60 (91) 50 1odh_A MGCM1; transcription fa 22.2 26 0.0011 14.2 1.2 22 260-282 110-131 (174) 51 1mek_A Protein disulfide isome 21.9 20 0.00086 14.9 0.6 11 57-67 24-34 (120) 52 2kpi_A Uncharacterized protein 20.8 36 0.0015 13.4 2.8 26 261-289 11-36 (56) 53 3f6q_B LIM and senescent cell 20.4 33 0.0014 13.6 1.4 26 259-287 10-39 (72) 54 1d0q_A DNA primase; zinc-bindi 20.4 27 0.0011 14.2 1.0 27 262-289 39-66 (103) No 1 >1tdz_A Formamidopyrimidine-DNA glycosylase; DNA repair, FPG, MUTM, FAPY G, hydrolase/DNA complex; HET: FOX; 1.80A {Lactococcus lactis} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 PDB: 1pji_A* 1pm5_A* 1xc8_A* 3c58_A* 1nnj_A 1kfv_A 1pjj_A* Probab=100.00 E-value=0 Score=546.54 Aligned_cols=271 Identities=38% Similarity=0.669 Sum_probs=254.9 Q ss_pred CCCCCHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCCHHHHHHHCCCEEEEEEECCEEEEEEECCCCCCCCCCCCCCEE Q ss_conf 96764367889889998679778899964833265787789997289889999605308999503553100152553279 Q gi|254780625|r 1 MPELPEVEIIRRNLMMVMKNMTVTDICLHRKNLRFDFPHHFSAATRGKKIIDVSRRAKYLLIELEGNLSIIVHLGMSGSF 80 (289) Q Consensus 1 MPElPEVe~~~~~l~~~l~g~~I~~V~~~~~~~~~~~~~~~~~~L~G~~I~~v~r~GK~l~l~l~~~~~L~~HlgM~G~~ 80 (289) ||||||||++++.|++.++|++|++|++.++++++..++++.+.|.|++|++|.|+||||+|+|+++.+|++||||+|+| T Consensus 1 MPElPEVe~~~~~L~~~l~g~~I~~v~~~~~~~~~~~~~~~~~~L~G~~i~~v~r~GK~l~~~~~~~~~l~~HlgMtG~~ 80 (272) T 1tdz_A 1 MPELPEVETVRRELEKRIVGQKIISIEATYPRMVLTGFEQLKKELTGKTIQGISRRGKYLIFEIGDDFRLISHLRMEGKY 80 (272) T ss_dssp --CHHHHHHHHHHHHHHHTTCBCCEEEESCGGGBTTCHHHHHHHHTTCBEEEEEEETTEEEEEETTTEEEEEECTTTCEE T ss_pred CCCHHHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCHHHHHHHCCCCEEEEEEEEEEEEEEEECCCCEEEEEECCCCEE T ss_conf 98479999999999997389999999989864347872889977599899999820489999854894699863114446 Q ss_pred EEECCCCCCCCCCCCCCEEEEEEECCCCCEEEEEEEECCCCCCCEECCCCCCHHHCCCCCCCCCCCCCCCCHHHHHHHHH Q ss_conf 98147854224587663389997068876048999815876641001455301005323565553322111067888742 Q gi|254780625|r 81 IIEHTSCAKPIKNPQHNHVTISLTNNTNTKKYRVIYNDPRRFGFMDLVETSLKYQYPPLRTLGPEPADNSFNAIYLTHQF 160 (289) Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~R~fG~~~~~~~~~~~~~~~l~~lGpD~l~~~~~~~~~~~~l 160 (289) ++.+.. ...++|.++.+.++++ .++|.|+|+||.+.+....+...++.++++||||+++.++.+.|.+.+ T Consensus 81 ~~~~~~----~~~~~~~~~~~~~~~~------~~~~~D~r~fg~~~~~~~~~~~~~~~~~~lgpd~l~~~~~~~~~~~~~ 150 (272) T 1tdz_A 81 RLATLD----APREKHDHLTMKFADG------QLIYADVRKFGTWELISTDQVLPYFLKKKIGPEPTYEDFDEKLFREKL 150 (272) T ss_dssp EEECTT----CCCCTTEEEEEECSSC------EEEEECTTSCCEEEEEEGGGHHHHHHHHTCCCCSSTTTCCHHHHHHHH T ss_pred EEECCC----CCCCCCCEEEEECCCC------EEEEEECCCCEEEEEECCCCCCCCHHHHCCCCCCCCCCCCHHHHHHHH T ss_conf 750366----8887652699960398------499996232306777514101232133148987554435199999866 Q ss_pred HCCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC Q ss_conf 01454210011126543564136899999987178778312222001015899999999878876765421887553111 Q gi|254780625|r 161 HKKNSNLKNALLNQKIVAGIGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQKVLIDAIDAGGSSLRDYV 240 (289) Q Consensus 161 ~~~~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~~~~~Ls~~e~~~~~~~~~L~~~i~~vl~~a~~~gG~~~~~~~ 240 (289) ..++++||++||||++||||||||+|||||+|||||++++++|+++| +.+|+++++.+|..|++.||+++++| T Consensus 151 ~~~~~~Ik~~LlDQ~~iaGIGNiy~~EiLf~a~I~P~~~~~~L~~~e------~~~L~~~~~~vl~~a~~~~~~~~~~~- 223 (272) T 1tdz_A 151 RKSTKKIKPYLLEQTLVAGLGNIYVDEVLWLAKIHPEKETNQLIESS------IHLLHDSIIEILQKAIKLGGSSIRTY- 223 (272) T ss_dssp HHCCSBHHHHHHTSSSSSCCCHHHHHHHHHHTTCCTTCBGGGCCHHH------HHHHHHHHHHHHHHHHHTTCCCC---- T ss_pred HHCCCCCCEEEECCCEECCCCHHHHHHHHHHHCCCCCCCHHHCCHHH------HHHHHHHHHHHHHHHHHCCCCCCCCC- T ss_conf 42033200267507635444473798998872798676752407999------99999999999999998199823245- Q ss_pred CCCCCCCCCHHHEEEECCCCCCCCCCCCCEEEEEEECCCCEEECCCCCC Q ss_conf 6778778741331665738771078778878999987812063877679 Q gi|254780625|r 241 HIDGSIGYFQNAFSVYGKTGEPCLSNCGQMIRRIVQAGRSTFYCTYCQK 289 (289) Q Consensus 241 ~~~g~~g~~~~~~~vy~r~g~~C~~~CG~~I~~~~~~gR~ty~Cp~CQk 289 (289) ...++.|.++.+|+||+|+|+|| |+||++|++++++||+|||||.||| T Consensus 224 ~~~~~~g~~~~~~~Vy~r~g~~C-p~Cg~~I~~~~~~gR~t~~Cp~CQk 271 (272) T 1tdz_A 224 SALGSTGKMQNELQVYGKTGEKC-SRCGAEIQKIKVAGRGTHFCPVCQQ 271 (272) T ss_dssp --CCCCCCGGGGCSSTTCTTSBC-TTTCCBCEEEEETTEEEEECTTTSC T ss_pred CCCCCCCCCCCEEEEECCCCCCC-CCCCCEEEEEEECCCCEEECCCCCC T ss_conf 77898787764048838898979-9999989999999981099927789 No 2 >1k82_A Formamidopyrimidine-DNA glycosylase; protein-DNA complex, DNA repair, beta sandwich, zinc finger, helix two-turns helix, hydrolase/DNA complex; HET: PED; 2.10A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 Probab=100.00 E-value=0 Score=525.48 Aligned_cols=268 Identities=39% Similarity=0.665 Sum_probs=248.5 Q ss_pred CCCCHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCCHHHHHHHCCCEEEEEEECCEEEEEEECCCCCCCCCCCCCCEEE Q ss_conf 67643678898899986797788999648332657877899972898899996053089995035531001525532799 Q gi|254780625|r 2 PELPEVEIIRRNLMMVMKNMTVTDICLHRKNLRFDFPHHFSAATRGKKIIDVSRRAKYLLIELEGNLSIIVHLGMSGSFI 81 (289) Q Consensus 2 PElPEVe~~~~~l~~~l~g~~I~~V~~~~~~~~~~~~~~~~~~L~G~~I~~v~r~GK~l~l~l~~~~~L~~HlgM~G~~~ 81 (289) |||||||+++++|++.++|++|++|.+.+++++.+.++. .+.|.|++|++|.|+||+|+++|+++ +|++||||+|+|+ T Consensus 1 PElPEv~~~~~~l~~~l~Gk~I~~v~~~~~~~~~~~~~~-~~~l~g~~i~~v~r~GK~l~~~~~~~-~l~~HlgM~G~~~ 78 (268) T 1k82_A 1 PELPEVETSRRGIEPHLVGATILHAVVRNGRLRWPVSEE-IYRLSDQPVLSVQRRAKYLLLELPEG-WIIIHLGMSGSLR 78 (268) T ss_dssp CCHHHHHHHHHHHHHHHBTCEEEEEEESCCBSSSBCCHH-HHHCCSEEBCEEEEETTEEEEECSSC-EEEEECTTTCEEE T ss_pred CCCHHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCCHH-HHHHCCCEEEEEEEEEEEEEEECCCC-CEEEEECCCCEEE T ss_conf 973899999999999848999989998998625878855-89817998778984069999980588-3788632551467 Q ss_pred EECCCCCCCCCCCCCCEEEEEEECCCCCEEEEEEEECCCCCCCEECCCCCCHHHCCCCCCCCCCCCCCCCHHHHHHHHHH Q ss_conf 81478542245876633899970688760489998158766410014553010053235655533221110678887420 Q gi|254780625|r 82 IEHTSCAKPIKNPQHNHVTISLTNNTNTKKYRVIYNDPRRFGFMDLVETSLKYQYPPLRTLGPEPADNSFNAIYLTHQFH 161 (289) Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~R~fG~~~~~~~~~~~~~~~l~~lGpD~l~~~~~~~~~~~~l~ 161 (289) +..... +.+++.++.+.++++. .++|.|+|+||.+.+.+.. +.++.++++|||||+++|+.++|.+.+. T Consensus 79 ~~~~~~----~~~~~~~~~~~~~~~~-----~l~~~d~r~~g~~~~~~~~--~~~~~~~~lgpD~l~~~~~~~~~~~~~~ 147 (268) T 1k82_A 79 ILPEEL----PPEKHDHVDLVMSNGK-----VLRYTDPRRFGAWLWTKEL--EGHNVLTHLGPEPLSDDFNGEYLHQKCA 147 (268) T ss_dssp EESSSC----CCCTTCCEEEEETTSC-----EEEEECSSCCCEEEEESCS--SSSTTTTTCCCCTTSTTSCHHHHHHHHT T ss_pred EEECCC----CCCCCCEEEEEECCCC-----EEEEEECCCEEEEEECCCH--HHHHHHHHCCCCCCCCCCCHHHHHHHHH T ss_conf 740347----9987656999957997-----8999963610689944844--5413887359897971049999999860 Q ss_pred CCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC Q ss_conf 14542100111265435641368999999871787783122220010158999999998788767654218875531116 Q gi|254780625|r 162 KKNSNLKNALLNQKIVAGIGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQKVLIDAIDAGGSSLRDYVH 241 (289) Q Consensus 162 ~~~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~~~~~Ls~~e~~~~~~~~~L~~~i~~vl~~a~~~gG~~~~~~~~ 241 (289) +++.+||++||||++||||||||+|||||+|||||++++++|+++| +.+|++++++||..|++.+|+++.||.+ T Consensus 148 ~~~~~ik~~LlDQ~~iaGIGN~y~~EiLf~a~IhP~~~~~~L~~~e------~~~L~~~~~~vl~~a~~~~g~~~~~~~~ 221 (268) T 1k82_A 148 KKKTAIKPWLMDNKLVVGVGNIYASESLFAAGIHPDRLASSLSLAE------CELLARVIKAVLLRSIEQGGTTLKDFLQ 221 (268) T ss_dssp TCCSBHHHHHTCTTTCSSCCHHHHHHHHHHHTCCTTSBGGGCCHHH------HHHHHHHHHHHHHHHHHTTCCCCC---- T ss_pred CCCCCCCEEEECCCCCCCCCHHHHHHHHHHHCCCCCCCHHHCCHHH------HHHHHHHHHHHHHHHHHHCCCCCCCCCC T ss_conf 6665541488617604667588999999872798668632399999------9999999999999999948973654405 Q ss_pred CCCCCCCCHHHEEEECCCCCCCCCCCCCEEEEEEECCCCEEECCCCCC Q ss_conf 778778741331665738771078778878999987812063877679 Q gi|254780625|r 242 IDGSIGYFQNAFSVYGKTGEPCLSNCGQMIRRIVQAGRSTFYCTYCQK 289 (289) Q Consensus 242 ~~g~~g~~~~~~~vy~r~g~~C~~~CG~~I~~~~~~gR~ty~Cp~CQk 289 (289) ++|++|+|+.+|+||+|+|+|| ++||++|++++++||+|||||+||| T Consensus 222 ~~g~~g~~~~~~~Vy~r~g~~C-~~Cg~~I~~~~~~gR~ty~Cp~CQk 268 (268) T 1k82_A 222 SDGKPGYFAQELQVYGRKGEPC-RVCGTPIVATKHAQRATFYCRQCQK 268 (268) T ss_dssp ----CCSCGGGCSSTTCTTSBC-TTTCCBCEEEEETTEEEEECTTTCC T ss_pred CCCCCCCCCCEEEEECCCCCCC-CCCCCEEEEEEECCCCCEECHHHCC T ss_conf 7898787630568948798979-9999988999988974298931139 No 3 >1ee8_A MUTM (FPG) protein; beta sandwich, zinc finger, helix two-turns helix, riken structural genomics/proteomics initiative, RSGI; 1.90A {Thermus thermophilus HB8} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 Probab=100.00 E-value=0 Score=515.11 Aligned_cols=261 Identities=39% Similarity=0.688 Sum_probs=240.7 Q ss_pred CCCCHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCCHHHHHHHCCCEEEEEEECCEEEEEEECCCCCCCCCCCCCCEEE Q ss_conf 67643678898899986797788999648332657877899972898899996053089995035531001525532799 Q gi|254780625|r 2 PELPEVEIIRRNLMMVMKNMTVTDICLHRKNLRFDFPHHFSAATRGKKIIDVSRRAKYLLIELEGNLSIIVHLGMSGSFI 81 (289) Q Consensus 2 PElPEVe~~~~~l~~~l~g~~I~~V~~~~~~~~~~~~~~~~~~L~G~~I~~v~r~GK~l~l~l~~~~~L~~HlgM~G~~~ 81 (289) |||||||+++++|++.+.|++|++|.+.++.... ..+.|.|++|++|.|+||||+|+||++.+|++||||+|+|. T Consensus 1 PElPEVe~~~~~L~~~l~Gk~I~~v~~~~~~~~~-----~~~~l~G~~i~~v~r~GK~l~~~~~~~~~l~~hlgm~G~~~ 75 (266) T 1ee8_A 1 PELPEVETTRRRLRPLVLGQTLRQVVHRDPARYR-----NTALAEGRRILEVDRRGKFLLFALEGGVELVAHLGMTGGFR 75 (266) T ss_dssp CCHHHHHHHHHHHHHHHTTCEEEEEECSCTTTEE-----SGGGGTTEEEEEEEEETTEEEEEETTTEEEEEECTTTCEEE T ss_pred CCHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC-----CHHHCCCCEEEEEEEEEEEEEEEECCCCEEEEECCCCEEEE T ss_conf 9728999999999998389999999867975344-----14542898998998301499987158978998156642773 Q ss_pred EECCCCCCCCCCCCCCEEEEEEECCCCCEEEEEEEECCCCCCCEECCCCCCHHHCCCCCCCCCCCCCCCCHHHHHHHHHH Q ss_conf 81478542245876633899970688760489998158766410014553010053235655533221110678887420 Q gi|254780625|r 82 IEHTSCAKPIKNPQHNHVTISLTNNTNTKKYRVIYNDPRRFGFMDLVETSLKYQYPPLRTLGPEPADNSFNAIYLTHQFH 161 (289) Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~R~fG~~~~~~~~~~~~~~~l~~lGpD~l~~~~~~~~~~~~l~ 161 (289) +. .++|.|+.|.+++. .++|.|+|+||.+.+++..+....+.+..+||||++++|+.+.|.+.++ T Consensus 76 ~~---------~~~~~~~~~~~~~~------~l~~~d~r~fg~~~~~~~~~~~~~~~l~~~g~d~~~~~~~~~~~~~~~~ 140 (266) T 1ee8_A 76 LE---------PTPHTRAALVLEGR------TLYFHDPRRFGRLFGVRRGDYREIPLLLRLGPEPLSEAFAFPGFFRGLK 140 (266) T ss_dssp SS---------CCTTEEEEEEESSC------EEEEECTTCCCEEEEEETTCCTTCTHHHHCCCCTTSTTCCHHHHHHHHH T ss_pred CC---------CCCCCEEEEECCCC------EEEEEECCHHEEEEECCCCCCCCCHHHHCCCCCCCCCHHHHHHHHHHHH T ss_conf 03---------47986267602330------7999734200123201222211242554279973321124678888875 Q ss_pred CCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC--C Q ss_conf 14542100111265435641368999999871787783122220010158999999998788767654218875531--1 Q gi|254780625|r 162 KKNSNLKNALLNQKIVAGIGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQKVLIDAIDAGGSSLRD--Y 239 (289) Q Consensus 162 ~~~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~~~~~Ls~~e~~~~~~~~~L~~~i~~vl~~a~~~gG~~~~~--~ 239 (289) +++++||++||||++||||||||+|||||+|||||++++++|+++| +.+||++++++|..|++.||+++.| | T Consensus 141 ~~~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~~~~~L~~~e------~~~L~~~~~~vl~~a~~~gg~t~~~~~~ 214 (266) T 1ee8_A 141 ESARPLKALLLDQRLAAGVGNIYADEALFRARLSPFRPARSLTEEE------ARRLYRALREVLAEAVELGGSTLSDQSY 214 (266) T ss_dssp TCCSBHHHHHHHSSSSTTCCHHHHHHHHHHTTCCSSSBGGGCCHHH------HHHHHHHHHHHHHHHHHTTCCCCSSCCC T ss_pred HCCCHHHHHHCCCCEECCCCHHHHHHHHHHHCCCHHHCCCCCCHHH------HHHHHHHHHHHHHHHHHHCCCCCCCCCC T ss_conf 1364065762157612246699999999985798023267289999------9999999999999999838953676543 Q ss_pred CCCCCCCCCCHHHEEEECCCCCCCCCCCCCEEEEEEECCCCEEECCCCCC Q ss_conf 16778778741331665738771078778878999987812063877679 Q gi|254780625|r 240 VHIDGSIGYFQNAFSVYGKTGEPCLSNCGQMIRRIVQAGRSTFYCTYCQK 289 (289) Q Consensus 240 ~~~~g~~g~~~~~~~vy~r~g~~C~~~CG~~I~~~~~~gR~ty~Cp~CQk 289 (289) .++++.+|+++.+|+||+|+|++| ++||++|+++++|||+|||||+||+ T Consensus 215 ~~~~~~~g~~~~~~~Vy~r~g~~C-~~Cg~~I~~~~~g~R~t~~CP~CQ~ 263 (266) T 1ee8_A 215 RQPDGLPGGFQTRHAVYGREGLPC-PACGRPVERRVVAGRGTHFCPTCQG 263 (266) T ss_dssp CCTTSCCCSCGGGCSSTTCTTSBC-TTTCCBCEEEESSSCEEEECTTTTT T ss_pred CCCCCCCCCCCCEEEEECCCCCCC-CCCCCEEEEEEECCCCEEECCCCCC T ss_conf 367888677631238848898978-9999989999988982099989779 No 4 >3gpu_A DNA glycosylase; DNA glycosylase, DNA repair, damage search, base extrusion; HET: DNA 8OG; 1.62A {Geobacillus stearothermophilus} PDB: 3gpx_A* 3gq3_A* 3go8_A* 2f5n_A 2f5o_A 2f5p_A 3gp1_A* 3gq4_A* 3gpy_A* 3gq5_A* 3gpp_A* 2f5q_A* 2f5s_A* 1l1z_A* 1l1t_A* 1l2b_A* 1l2c_A* 1l2d_A* 1r2z_A* 1r2y_A* ... Probab=100.00 E-value=0 Score=495.93 Aligned_cols=254 Identities=35% Similarity=0.613 Sum_probs=232.1 Q ss_pred CCCCHHHHHHHHHHHHHCCCEEEEEEECCCCCC-C-CCCHHHHHHHCCCEEEEEEECCEEEEEEECCCCCCCCCCCCCCE Q ss_conf 676436788988999867977889996483326-5-78778999728988999960530899950355310015255327 Q gi|254780625|r 2 PELPEVEIIRRNLMMVMKNMTVTDICLHRKNLR-F-DFPHHFSAATRGKKIIDVSRRAKYLLIELEGNLSIIVHLGMSGS 79 (289) Q Consensus 2 PElPEVe~~~~~l~~~l~g~~I~~V~~~~~~~~-~-~~~~~~~~~L~G~~I~~v~r~GK~l~l~l~~~~~L~~HlgM~G~ 79 (289) |||||||+++++|++.+.|++|++|.+.+++.. . ..++.|.+.|.|++|++|+|+||+|+|+|++ .+|++||||+|+ T Consensus 1 PELPEVe~~~~~L~~~~~Gk~I~~v~~~~~~~~~~~~~~~~~~~~l~G~~i~~v~r~GK~l~~~~~~-~~l~~HlgMtG~ 79 (256) T 3gpu_A 1 PELPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGKFLKFLLDR-DALISHLRMEGR 79 (256) T ss_dssp CCHHHHHHHHHHHHHHHTTCBEEEEEESCGGGEEESSSHHHHHHHHTTCBCCEEEEETTEEEEECSS-EEEEEECTTTCE T ss_pred CCCHHHHHHHHHHHHHHCCCEEEEEEECCCCCEECCCCHHHHHHHCCCCEEEEEEECCEEEHHHCCC-CCEEEEEEECCE T ss_conf 9748999999999998389999899986887462689969999774998998998632888002067-724522343544 Q ss_pred EEEECCCCCCCCCCCCCCEEEEEEECCCCCEEEEEEEECCCCCCCEECCCCCCHHHCCCCCCCCCCCCCCCCHHHHHHHH Q ss_conf 99814785422458766338999706887604899981587664100145530100532356555332211106788874 Q gi|254780625|r 80 FIIEHTSCAKPIKNPQHNHVTISLTNNTNTKKYRVIYNDPRRFGFMDLVETSLKYQYPPLRTLGPEPADNSFNAIYLTHQ 159 (289) Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~R~fG~~~~~~~~~~~~~~~l~~lGpD~l~~~~~~~~~~~~ 159 (289) |.+.+.+. +.++|.|+.+.|+++. .+.|.|.|+||.+.+.........+.+..+||||+++.++.+.|.+. T Consensus 80 ~~~~~~~~----~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~d~l~~~~~~~~~~~~ 150 (256) T 3gpu_A 80 YAVASALE----PLEPHTHVVFCFTDGS-----ELRYRDVRKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAER 150 (256) T ss_dssp EEEEETTS----CCCTTEEEEEEETTSE-----EEEEECTTCCCEEEEEEHHHHTTSTTTTTCCCCTTSTTSCHHHHHHH T ss_pred EEEEECCC----CCCCCCEEEEEECCCC-----EEEEEECCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHH T ss_conf 32320236----7888616999975997-----69998513344101104541013321034688821001689999888 Q ss_pred HHCCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC Q ss_conf 20145421001112654356413689999998717877831222200101589999999987887676542188755311 Q gi|254780625|r 160 FHKKNSNLKNALLNQKIVAGIGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQKVLIDAIDAGGSSLRDY 239 (289) Q Consensus 160 l~~~~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~~~~~Ls~~e~~~~~~~~~L~~~i~~vl~~a~~~gG~~~~~~ 239 (289) +++++++||++||||++||||||||+|||||+|||||++++++||++| +++|+++++.||.+|++.|+ T Consensus 151 ~~~~~~~Ik~~LlDQ~~iaGIGNiya~EiLf~a~I~P~~~~~~Ls~~~------~~~L~~~~~~vl~~ai~~g~------ 218 (256) T 3gpu_A 151 AVKTKRSVKALLLDCTVVAGFGNIYVDESLFRAGILPGRPAASLSSKE------IERLHEEMVATIGEAVMKGQ------ 218 (256) T ss_dssp HHTCCSBHHHHHHCTTTSTTCCHHHHHHHHHHHTCCTTSBGGGCCHHH------HHHHHHHHHHHHHHHHC--------- T ss_pred HHCCCCCHHHHHCCCCEECCCCHHHHHHHHHHHHCCCCCCCCCCCHHH------HHHHHHHHHHHHHHHHHCCC------ T ss_conf 755776455631136513343488999999973148376313389999------99999999999999996688------ Q ss_pred CCCCCCCCCCHHHEEEECCCCCCCCCCCCCEEEEEEECCCCEEECCCCCC Q ss_conf 16778778741331665738771078778878999987812063877679 Q gi|254780625|r 240 VHIDGSIGYFQNAFSVYGKTGEPCLSNCGQMIRRIVQAGRSTFYCTYCQK 289 (289) Q Consensus 240 ~~~~g~~g~~~~~~~vy~r~g~~C~~~CG~~I~~~~~~gR~ty~Cp~CQk 289 (289) ++++||+|+|+|| |+||++|++++++||+|||||.||| T Consensus 219 -----------~~~~Vy~r~g~~C-~~Cg~~I~~~~~~gR~t~~Cp~CQk 256 (256) T 3gpu_A 219 -----------HHLYVYGRQGNPC-KRCGTPIEKTVVAGRGTHYCPRCQR 256 (256) T ss_dssp -------------CCSTTCTTSBC-TTTCCBCEEEEETTEEEEECTTTCC T ss_pred -----------CEEEECCCCCCCC-CCCCCEEEEEEECCCCEEECCCCCC T ss_conf -----------4088738997967-9999989999999982098713149 No 5 >1k3x_A Endonuclease VIII; hydrolase/DNA; HET: BRU PED; 1.25A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 PDB: 1k3w_A* 1q39_A 2ea0_A* 2oq4_A* 1q3c_A 2opf_A* 1q3b_A* Probab=100.00 E-value=0 Score=489.81 Aligned_cols=259 Identities=22% Similarity=0.426 Sum_probs=223.5 Q ss_pred CCCCHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCCHHHHHHHCCCEEEEEEECCEEEEEEECCCCCCCCCCCCCCEEE Q ss_conf 67643678898899986797788999648332657877899972898899996053089995035531001525532799 Q gi|254780625|r 2 PELPEVEIIRRNLMMVMKNMTVTDICLHRKNLRFDFPHHFSAATRGKKIIDVSRRAKYLLIELEGNLSIIVHLGMSGSFI 81 (289) Q Consensus 2 PElPEVe~~~~~l~~~l~g~~I~~V~~~~~~~~~~~~~~~~~~L~G~~I~~v~r~GK~l~l~l~~~~~L~~HlgM~G~~~ 81 (289) |||||||++++.|++.+.|++|++|.+..+.. +.+.+.|.|++|++|+|+||||+|+||++.+|++||||+|+|+ T Consensus 1 PElPEVe~~~~~L~~~~~g~~I~~v~~~~~~~-----~~~~~~L~G~~i~~v~RrGK~l~~~l~~~~~L~~HLgMtG~~~ 75 (262) T 1k3x_A 1 PEGPEIRRAADNLEAAIKGKPLTDVWFAFPQL-----KTYQSQLIGQHVTHVETRGKALLTHFSNDLTLYSHNQLYGVWR 75 (262) T ss_dssp CCHHHHHHHHHHHHHHHBTCCCSEEEESSGGG-----TTHHHHHTTCCEEEEEEETTEEEEEETTSCEEEEECTTTCEEE T ss_pred CCCHHHHHHHHHHHHHHCCCEEEEEEECCCCH-----HHHHHHCCCCEEEEEEECEEEEEECCCCCEEEEECCCCCEEEE T ss_conf 97489999999999986898898999889855-----6589776998998999651388360478439997155433788 Q ss_pred EECCCCCCCCCCCCCCEEEEEEECCCCCEEEEEEEECCCCCCCEECCCCCCHHHCCCCCCCCCCCCCCCCHHHHHHHHHH Q ss_conf 81478542245876633899970688760489998158766410014553010053235655533221110678887420 Q gi|254780625|r 82 IEHTSCAKPIKNPQHNHVTISLTNNTNTKKYRVIYNDPRRFGFMDLVETSLKYQYPPLRTLGPEPADNSFNAIYLTHQFH 161 (289) Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~R~fG~~~~~~~~~~~~~~~l~~lGpD~l~~~~~~~~~~~~l~ 161 (289) +...+. .+.++.++.+.+.++.. ..+.|.|. .+.++.......++.+++||||||+++|+.+.|.+.+. T Consensus 76 ~~~~~~----~~~~~~~~~~~~~~~~~---~~~~~~~~----~~~~~~~~~~~~~~~l~~lGpD~l~~~~~~~~~~~~l~ 144 (262) T 1k3x_A 76 VVDTGE----EPQTTRVLRVKLQTADK---TILLYSAS----DIEMLRPEQLTTHPFLQRVGPDVLDPNLTPEVVKERLL 144 (262) T ss_dssp EEETTC----CCCCSSCEEEEEECSSE---EEEEESCC----EEEEECTTHHHHSHHHHHCCCBTTCTTCCHHHHHHHHH T ss_pred EECCCC----CCCCCEEEEEECCCCCE---EEEEECCC----EEEEECHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHH T ss_conf 731434----55432034443056866---99997352----05995242300024898669987984776999999987 Q ss_pred C---CCCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC Q ss_conf 1---4542100111265435641368999999871787783122220010158999999998788767654218875531 Q gi|254780625|r 162 K---KNSNLKNALLNQKIVAGIGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQKVLIDAIDAGGSSLRD 238 (289) Q Consensus 162 ~---~~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~~~~~Ls~~e~~~~~~~~~L~~~i~~vl~~a~~~gG~~~~~ 238 (289) . ++++||++||||++||||||||+|||||+|||||++++++||++| +.+|+++++.||..|++.+|++..+ T Consensus 145 ~~k~~~~~Ik~~LlDQ~~iaGIGNiya~EiLf~a~I~P~~~~~~Ls~~~------~~~L~~~i~~vl~~a~~~~g~~~~~ 218 (262) T 1k3x_A 145 SPRFRNRQFAGLLLDQAFLAGLGNYLRVEILWQVGLTGNHKAKDLNAAQ------LDALAHALLEIPRFSYATRGQVDEN 218 (262) T ss_dssp STTTTTSCHHHHTTCTTTSBTCCHHHHHHHHHHHTCCSSCCGGGSCHHH------HHHHHHHHHHHHHHHHHHCC----- T ss_pred HHHCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHH------HHHHHHHHHHHHHHHHHCCCEECCC T ss_conf 4002006899998417744565699999999872068545013444778------9999999999888785528665777 Q ss_pred CCCCCCCCCCCHHHEEEECCCCCCCCCCCCCEEEEEEECCCCEEECCCCCC Q ss_conf 116778778741331665738771078778878999987812063877679 Q gi|254780625|r 239 YVHIDGSIGYFQNAFSVYGKTGEPCLSNCGQMIRRIVQAGRSTFYCTYCQK 289 (289) Q Consensus 239 ~~~~~g~~g~~~~~~~vy~r~g~~C~~~CG~~I~~~~~~gR~ty~Cp~CQk 289 (289) +..|.+ ..++||+|+|+|| |+||++|++++++||+|||||.||- T Consensus 219 -----~~~g~~-~~~~Vy~r~g~~C-~~Cg~~I~~~~~~~R~t~~Cp~CQh 262 (262) T 1k3x_A 219 -----KHHGAL-FRFKVFHRDGEPC-ERCGSIIEKTTLSSRPFYWCPGCQH 262 (262) T ss_dssp ---------CC-CCCSSTTCTTSBC-TTTCCBCEEEEETTEEEEECTTTCC T ss_pred -----CCCCCE-EEEEEECCCCCCC-CCCCCEEEEEEECCCCCEECCCCCC T ss_conf -----888854-6788926596979-9999889999989981488745359 No 6 >3a46_A Formamidopyrimidine-DNA glycosylase; helix two turns helix, zinc-LESS finger, hydrolase, THF, glycosidase, lyase, multifunctional enzyme; HET: DNA 3DR; 2.20A {Acanthamoeba polyphaga mimivirus} PDB: 3a45_A* 3a42_A Probab=100.00 E-value=0 Score=469.74 Aligned_cols=265 Identities=23% Similarity=0.293 Sum_probs=223.0 Q ss_pred CCCCCHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCCHHHHHH--HCCCEEEEEEECCEEEEEEECCCC------CCCC Q ss_conf 96764367889889998679778899964833265787789997--289889999605308999503553------1001 Q gi|254780625|r 1 MPELPEVEIIRRNLMMVMKNMTVTDICLHRKNLRFDFPHHFSAA--TRGKKIIDVSRRAKYLLIELEGNL------SIIV 72 (289) Q Consensus 1 MPElPEVe~~~~~l~~~l~g~~I~~V~~~~~~~~~~~~~~~~~~--L~G~~I~~v~r~GK~l~l~l~~~~------~L~~ 72 (289) |||||||+++++.|++.+.|++|++|++.++++.+..+..+.+. +.|++|++|.|+||||+|+|+++. .|.. T Consensus 1 MPElPEV~~~~~~l~~~~~g~~I~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~r~GK~l~~~l~~~~~~~~~~~~~~ 80 (289) T 3a46_A 1 MPEGPEVALTADILEKYFKGKTLEYIDFISGRYSKSEPEGYDDFIANLPLKVSNVDTKGKFLWFELFDPNDKSNKWYIWN 80 (289) T ss_dssp -CCHHHHHHHHHHHHHHHTTCEEEEEEECSSHHHHSCCBTHHHHHHTCCEEEEEEEEETTEEEEEEEETTEEEEEEEEEE T ss_pred CCCHHHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCCCCHHHHHHCCCCEEEEEEEEEEEEEEEECCCCCCCCCCEEEE T ss_conf 98769999999999997189999899988885235788679999733785898999876799999536765456647984 Q ss_pred CCCCCCEEEEECCCCCCCCCCCCCCEEEEEEECCCCCEEEEEEEECCCCCCCEECCCCCCHHHCCCCCCCCCCCCCCCCH Q ss_conf 52553279981478542245876633899970688760489998158766410014553010053235655533221110 Q gi|254780625|r 73 HLGMSGSFIIEHTSCAKPIKNPQHNHVTISLTNNTNTKKYRVIYNDPRRFGFMDLVETSLKYQYPPLRTLGPEPADNSFN 152 (289) Q Consensus 73 HlgM~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~R~fG~~~~~~~~~~~~~~~l~~lGpD~l~~~~~ 152 (289) ||+|+|.|.+ .+++|+|+.+.|+++. .++|.|+|+||++.+.++... ..+.+.+||||||++ T Consensus 81 ~l~m~g~~~~---------~~~~~~~~~~~~~~~~-----~l~f~D~R~fg~~~l~~~~~~-~~~~l~~lGpD~l~~--- 142 (289) T 3a46_A 81 TFGLTGMWSL---------FEAKYTRAVLSFDNEL-----MAYFSDMRNFGTFKFSNSEKE-LKRKLNELGPDFLKN--- 142 (289) T ss_dssp ECTTTEEEES---------SCCTTEEEEEEEGGGC-----EEEEEESSCCCEEEEECCHHH-HHHHHTTSCCBTTTC--- T ss_pred EEEECCCCEE---------CCCCCCEEEECCCCCE-----EEEEEECCCCCEEEEECCHHH-HHHHHHCCCCCHHHH--- T ss_conf 6664264011---------1476305664034306-----999981221453566120110-014441047623566--- Q ss_pred HHHHHHHHHCCCCCCCEEEECCCCC-CCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 6788874201454210011126543-564136899999987178778312222001015899999999878876765421 Q gi|254780625|r 153 AIYLTHQFHKKNSNLKNALLNQKIV-AGIGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQKVLIDAIDA 231 (289) Q Consensus 153 ~~~~~~~l~~~~~~Ik~~LlDQ~~i-aGIGN~y~~EiLf~a~I~P~~~~~~Ls~~e~~~~~~~~~L~~~i~~vl~~a~~~ 231 (289) .+.+.+.+++++++||.+||||+.| |||||||+|||||+|||||++++++||++| +++|+++|+.+|..|++. T Consensus 143 ~~~~~~~~~~~~~~ik~~LLdq~~i~aGIGNiya~EiLf~a~I~P~~~~~~Ls~~e------~~~L~~~i~~vl~~a~~~ 216 (289) T 3a46_A 143 DDIDISKIKKYKQPIVALLMDQKKIGSGLGNYLVAEILYRAKIDPHKLGSNLTDQE------IENLWYWIKYETKLAYDS 216 (289) T ss_dssp SCCCGGGGGGCCSBHHHHHHCSSSSCBCCCHHHHHHHHHHTTBCTTCBGGGCCHHH------HHHHHHHHHHHHHHHHHC T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCEECCCCHHHHHHHHHHHHCCHHHHHHHCCHHH------HHHHHHHHHHHHHHHHHC T ss_conf 79999997542022457752466267064089999999985068546667499999------999999999999999982 Q ss_pred CCCCC-CCCC---CCCCCCCCC--------HHHEEEECCCCCCCC-CCCCCEEEEEEECCCCEEECCCCCC Q ss_conf 88755-3111---677877874--------133166573877107-8778878999987812063877679 Q gi|254780625|r 232 GGSSL-RDYV---HIDGSIGYF--------QNAFSVYGKTGEPCL-SNCGQMIRRIVQAGRSTFYCTYCQK 289 (289) Q Consensus 232 gG~~~-~~~~---~~~g~~g~~--------~~~~~vy~r~g~~C~-~~CG~~I~~~~~~gR~ty~Cp~CQk 289 (289) +|.+. .++. ...|..+++ +.+|+||+|+|+||+ +.||++|.+..++||+|||||+||| T Consensus 217 ~g~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~Vy~r~~~pc~~~~c~~~I~~~~~~gR~ty~CP~CQk 287 (289) T 3a46_A 217 NHIGYMVNLENESSKIGRKNYHPNIHPTEKEFDFLVYRKKKDPNGNKVIADKIIGSGKNKRTTYWAPAIQK 287 (289) T ss_dssp SCSSSCGGGHHHHTTSCCCCCSTTCCCSCSSCCCSSTTCSBCTTSCBCEEECCSCCTTCCCCEEECTTTCB T ss_pred CCCCCEECCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCEEEEEECCCEEEEECCCCCC T ss_conf 89662011356666678736555655556642689989998988887578779997818832499767386 No 7 >1tdh_A NEI endonuclease VIII-like 1; helix two turns helix, zinc-LESS finger, hydrolase; 2.10A {Homo sapiens} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 Probab=100.00 E-value=0 Score=416.39 Aligned_cols=260 Identities=23% Similarity=0.306 Sum_probs=202.4 Q ss_pred CCCCCHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCCHHHHHHHCCCEEEEEEECCEEEEEEEC---------CCCCCC Q ss_conf 96764367889889998679778899964833265787789997289889999605308999503---------553100 Q gi|254780625|r 1 MPELPEVEIIRRNLMMVMKNMTVTDICLHRKNLRFDFPHHFSAATRGKKIIDVSRRAKYLLIELE---------GNLSII 71 (289) Q Consensus 1 MPElPEVe~~~~~l~~~l~g~~I~~V~~~~~~~~~~~~~~~~~~L~G~~I~~v~r~GK~l~l~l~---------~~~~L~ 71 (289) ||||||||++++.|++.+.|++|..+.......++.... ...+..+..+.++||+|++.|+ ++.+|+ T Consensus 1 MPELPEVe~v~r~L~~~l~g~~i~~~i~~~~~~~~~~~~----~~~~~~~i~~~~rGK~l~~~l~~~~~~~~~~~~~~L~ 76 (364) T 1tdh_A 1 MPEGPELHLASQFVNEACRALVFGGCVEKSSVSRNPEVP----FESSAYRISASARGKELRLILSPLPGAQPQQEPLALV 76 (364) T ss_dssp -CCHHHHHHHHHHHHHHHTTCCEEEECEECSSCCSCCCC----CEEEEEEEEEEEETTEEEEEEEECTTCSSCCCCEEEE T ss_pred CCCHHHHHHHHHHHHHHHCCCEEEEEEEECCCCCCCCCC----CCCCCEEEEEEECCEEEEEEECCCCCCCCCCCCCEEE T ss_conf 971799999999999985797898999814446786554----3566638999963339999943665334457871699 Q ss_pred CCCCCCCEEEEECCCCCCCCCCCCCCEEEEEEECCCCCEEEEEEEECCCCCCCEECCCCCCHHHCCCCCCCCCCCCCC-- Q ss_conf 152553279981478542245876633899970688760489998158766410014553010053235655533221-- Q gi|254780625|r 72 VHLGMSGSFIIEHTSCAKPIKNPQHNHVTISLTNNTNTKKYRVIYNDPRRFGFMDLVETSLKYQYPPLRTLGPEPADN-- 149 (289) Q Consensus 72 ~HlgM~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~R~fG~~~~~~~~~~~~~~~l~~lGpD~l~~-- 149 (289) +||||+|+|++.... ..++|.|+.|.|.++.. ...|+|+|+|+||++++.+. ....+|||||+. T Consensus 77 ~HLGMsG~~~i~~~~-----~~~kh~h~~~~~~~~~~--~~~L~f~D~RrFG~~~l~~~-------~~~~lGPdpl~~~~ 142 (364) T 1tdh_A 77 FRFGMSGSFQLVPRE-----ELPRHAHLRFYTAPPGP--RLALCFVDIRRFGRWDLGGK-------WQPGRGPCVLQEYQ 142 (364) T ss_dssp EECTTTCEEEEEEGG-----GCCTTEEEEEEBCSSSS--CEEEEEECTTCCCEEEESSC-------CCTTCCCCTTTCHH T ss_pred EECCCCEEEEECCCC-----CCCCCCEEEEEEECCCC--EEEEEEECCCCCEEEEECCC-------HHHHCCCCCCCCCC T ss_conf 977872699961688-----78977559999927998--48999955411203563140-------56652976566544 Q ss_pred CCHHHHHHHHHH-CCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHH--------------HHHH Q ss_conf 110678887420-1454210011126543564136899999987178778312222001015--------------8999 Q gi|254780625|r 150 SFNAIYLTHQFH-KKNSNLKNALLNQKIVAGIGNIYVCEALWRAKLSPIRKTRSLIQNNGTP--------------KDIL 214 (289) Q Consensus 150 ~~~~~~~~~~l~-~~~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~~~~~Ls~~e~~~--------------~~~~ 214 (289) .|+...+...+. .++++||++||||++||||||||+|||||+|+|||.+++++|++++... +..+ T Consensus 143 ~f~~~~~~~~~~k~~~~~IK~~LLDQ~iiaGIGNIYadEiLf~A~IhP~r~a~~ls~~~~~~~~~~~~~l~~~~r~k~~~ 222 (364) T 1tdh_A 143 QFRESVLRNLADKAFDRPICEALLDQRFFNGIGNYLRAEILYRLKIPPFEKARSVLEALQQHRPSPELTLSQKIRTKLQN 222 (364) T ss_dssp HHHHHHHHTTTSGGGGSBHHHHTTCTTTSTTCCHHHHHHHHHHHTCCTTSBHHHHHGGGC-----CCSCHHHHHHHTTTS T ss_pred CCCHHHHHHHHHHCCCCCHHHHHHCCCEECCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCCCHHHHHHHHHHHH T ss_conf 41099999987521576089987247702254288999999984899667412345766413442110033444557788 Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHEEEECCCCCCCCCCCCCEEEEEEECCCCEEECCCCC Q ss_conf 99999878876765421887553111677877874133166573877107877887899998781206387767 Q gi|254780625|r 215 YKLIQEIQKVLIDAIDAGGSSLRDYVHIDGSIGYFQNAFSVYGKTGEPCLSNCGQMIRRIVQAGRSTFYCTYCQ 288 (289) Q Consensus 215 ~~L~~~i~~vl~~a~~~gG~~~~~~~~~~g~~g~~~~~~~vy~r~g~~C~~~CG~~I~~~~~~gR~ty~Cp~CQ 288 (289) ..|+++++.||.+||+.||++.+++....| .|+|+++|.||||+|++|. +| -+||++|||+.|+ T Consensus 223 ~~l~~~~~~Vl~~ai~~GG~s~~~~~g~~g-~g~Fq~~l~vYgr~g~~Cl-~~--------~~Grt~~~~~~~~ 286 (364) T 1tdh_A 223 PDLLELCHSVPKEVVQLGGRGYGSESGEED-FAAFRAWLRCYGMPGMSSL-QD--------RHGRTIWFQGDPG 286 (364) T ss_dssp CCHHHHHHHHHHHHHHHHTTCTTSSCHHHH-HHHHHHHCSSTTCTTCEEE-EC--------TTSCEEEESSCCC T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCCCC-CCHHHHCEEECCCCCCCCC-CC--------CCCCEEEECCCCC T ss_conf 999999999999999818987658878776-1004433841378998244-16--------8997898688886 No 8 >3doa_A Fibrinogen binding protein; structural genomics, MCSG., PSI-2, protein structure initiative, midwest center for structural genomics; 2.81A {Staphylococcus aureus subsp} Probab=96.30 E-value=0.026 Score=33.57 Aligned_cols=52 Identities=17% Similarity=0.222 Sum_probs=41.1 Q ss_pred CCCCCCCCCHHHHHHHHHHCCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCC Q ss_conf 55332211106788874201454210011126543564136899999987178778 Q gi|254780625|r 143 GPEPADNSFNAIYLTHQFHKKNSNLKNALLNQKIVAGIGNIYVCEALWRAKLSPIR 198 (289) Q Consensus 143 GpD~l~~~~~~~~~~~~l~~~~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~ 198 (289) +.||+ +.+.+.|.+.+.....++...|+.. +.|+|..++.|++++|++.+.. T Consensus 168 ~~~p~--~~~~e~~~~~l~~~~~~l~k~L~~~--~~g~~~~l~~ei~~ra~~~~~~ 219 (288) T 3doa_A 168 KINPY--DITGAEVLKYIDFNAGNIAKQLLNQ--FEGFSPLITNEIVSRRQFMTSS 219 (288) T ss_dssp CBCGG--GCCHHHHGGGCCGGGCCHHHHHHHH--BTTCCHHHHHHHHTTSSSCSTT T ss_pred CCCCC--CCCHHHHHHHHHHCCCCHHHHHHHH--CCCCCHHHHHHHHHHCCCCCCC T ss_conf 59965--4899999998750864199999986--3899989999999974999755 No 9 >1mu5_A Type II DNA topoisomerase VI subunit B; GHKL ATPase, helix two-turns helix; 2.00A {Sulfolobus shibatae} SCOP: a.156.1.3 d.14.1.3 d.122.1.2 PDB: 1mx0_A* 1z5b_A* 1z5a_A* 1z59_A* 1z5c_A* 2hkj_A* Probab=96.16 E-value=0.025 Score=33.61 Aligned_cols=75 Identities=19% Similarity=0.320 Sum_probs=58.4 Q ss_pred CCCCCCCCCCCCHHHHHHHHHHC--CCCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHH Q ss_conf 56555332211106788874201--4542100111265435641368999999871787783122220010158999999 Q gi|254780625|r 140 RTLGPEPADNSFNAIYLTHQFHK--KNSNLKNALLNQKIVAGIGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKL 217 (289) Q Consensus 140 ~~lGpD~l~~~~~~~~~~~~l~~--~~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~~~~~Ls~~e~~~~~~~~~L 217 (289) ..+.|.|.. .+...+...++. ....+..+| ++-|+.||+-.+.||+-.++++|.....+|+++| +.+| T Consensus 228 ~eikPHP~g--v~l~~l~~ml~~~~~~~~l~~FL--~~~Fs~V~~~~a~~i~~~~g~~~~~~p~~l~~~e------~~~l 297 (471) T 1mu5_A 228 QEVKPHPYG--VDREEIKILINNLKRDYTIKEFL--VNEFQSIGDTTADKILELAGLKPNKKVKNLTEEE------ITRL 297 (471) T ss_dssp CCCCCCGGG--CCHHHHHHHSTTCSSCCBHHHHH--TTSSSSCCHHHHHHHHHHTTCCTTSBGGGCCTTH------HHHH T ss_pred HHCCCCCCC--CCHHHHHHHHHHCCCCCCHHHHH--HHHCCCCCHHHHHHHHHHCCCCCCCCCCCCCHHH------HHHH T ss_conf 312688002--00677999998554666267888--8754776989999999974999777714499999------9999 Q ss_pred HHHHHHH Q ss_conf 9987887 Q gi|254780625|r 218 IQEIQKV 224 (289) Q Consensus 218 ~~~i~~v 224 (289) .++.+++ T Consensus 298 ~~a~~~~ 304 (471) T 1mu5_A 298 VETFKKY 304 (471) T ss_dssp HHHHHHC T ss_pred HHHHHHH T ss_conf 9999853 No 10 >2zkq_m 40S ribosomal protein S18E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 1s1h_M 3jyv_M* Probab=95.57 E-value=0.013 Score=35.41 Aligned_cols=50 Identities=18% Similarity=0.390 Sum_probs=41.0 Q ss_pred CCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 54210011126543564136899999987178778312222001015899999999878 Q gi|254780625|r 164 NSNLKNALLNQKIVAGIGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQ 222 (289) Q Consensus 164 ~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~~~~~Ls~~e~~~~~~~~~L~~~i~ 222 (289) +.+|.-+| +.|-|||...|..||-.++|+|..++.+||++| +..|-+.+. T Consensus 23 ~K~v~~aL---t~I~GIG~~~A~~Ic~~lgI~~~~kvg~Lt~~q------l~kl~~~I~ 72 (152) T 2zkq_m 23 RRKIAFAI---TAIKGVGRRYAHVVLRKADIDLTKRAGELTEDE------VERVITIMQ 72 (152) T ss_dssp SSBHHHHG---GGSTTCCHHHHHHHHHHHTCCTTSBTTTSCHHH------HHHHHHHHH T ss_pred CCEEEEEE---ECCCCCCHHHHHHHHHHHCCCCCCCCCCCCHHH------HHHHHHHHH T ss_conf 97887650---021065899999999993899543015199999------999999985 No 11 >2vqe_M 30S ribosomal protein S13, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: a.156.1.1 PDB: 1gix_P* 1hnw_M* 1hnx_M* 1hnz_M* 1hr0_M 1ibk_M* 1ibl_M* 1ibm_M 1j5e_M 1jgo_P* 1jgp_P* 1jgq_P* 1mj1_P* 1ml5_P* 1n32_M* 1n33_M* 1n34_M 1n36_M 1xmo_M* 1xmq_M* ... Probab=95.40 E-value=0.0083 Score=36.71 Aligned_cols=50 Identities=24% Similarity=0.416 Sum_probs=40.2 Q ss_pred CCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 54210011126543564136899999987178778312222001015899999999878 Q gi|254780625|r 164 NSNLKNALLNQKIVAGIGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQ 222 (289) Q Consensus 164 ~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~~~~~Ls~~e~~~~~~~~~L~~~i~ 222 (289) +.+|.-+| +.|=|||.-.|..||..++|+|..++.+||++| +..|-+.+. T Consensus 12 ~K~v~~aL---t~I~GIG~~~A~~Ic~~lGId~~~kvg~Lt~~q------i~~l~~~i~ 61 (126) T 2vqe_M 12 NKRVDVAL---TYIYGIGKARAKEALEKTGINPATRVKDLTEAE------VVRLREYVE 61 (126) T ss_dssp SSBHHHHH---TTSSSCCSHHHHHHTTTTTCCTTSBGGGCCHHH------HHHHHHHHH T ss_pred CCEEEEEE---CCEECCCHHHHHHHHHHCCCCCCCCCCCCCHHH------HHHHHHHHH T ss_conf 97878762---043483899999999985979663016399999------999999983 No 12 >3ofp_M 30S ribosomal protein S13; protein biosynthesis, ribosomes, RNA, tRNA, transfer, eryThr ketolide, macrolide, antibiotic, EXIT, peptidyl; 3.10A {Escherichia coli} PDB: 3fih_M* 2wwl_M 2qal_M* 1p6g_M 1p87_M 2aw7_M 2avy_M 2i2u_M 2i2p_M* 2qan_M* 2qb9_M* 2qbb_M* 2qbd_M 2qbf_M 2qbh_M* 2qbj_M* 2qou_M* 2qow_M* 2qoy_M* 2qp0_M* ... Probab=93.22 E-value=0.01 Score=36.11 Aligned_cols=50 Identities=20% Similarity=0.139 Sum_probs=39.6 Q ss_pred CCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 54210011126543564136899999987178778312222001015899999999878 Q gi|254780625|r 164 NSNLKNALLNQKIVAGIGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQ 222 (289) Q Consensus 164 ~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~~~~~Ls~~e~~~~~~~~~L~~~i~ 222 (289) +.+|.-+| +.|-|||...+..||-.++|||..++++|+++|. ..|-+.+. T Consensus 11 ~K~v~~AL---t~I~GIG~~~A~~Ic~~lgi~~~~rv~~Lt~~qi------~~l~~~i~ 60 (113) T 3ofp_M 11 HKHAVIAL---TSIYGVGKTRSKAILAAAGIAEDVKISELSEGQI------DTLRDEVA 60 (113) T ss_dssp CCCHHHHH---TSSSSCCSSHHHHGGGTTTCCSSCCSSSCCTTSS------TTTHHHHH T ss_pred CCEEEEEE---ECEECCCHHHHHHHHHHCCCCCCCCCCCCCHHHH------HHHHHHHH T ss_conf 97866550---1434748999999999849898740485999999------99999986 No 13 >3fut_A Dimethyladenosine transferase; methyltransferase, dimethyltransferase, dual-specific methyltransferase, 16S rRNA methyltransferase; 1.52A {Thermus thermophilus HB8} PDB: 3fuu_A* 3fuv_A 3fuw_A* 3fux_A* Probab=80.63 E-value=1.5 Score=22.17 Aligned_cols=58 Identities=28% Similarity=0.312 Sum_probs=43.4 Q ss_pred HHHHHHCCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 88742014542100111265435641368999999871787783122220010158999999998788 Q gi|254780625|r 156 LTHQFHKKNSNLKNALLNQKIVAGIGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQK 223 (289) Q Consensus 156 ~~~~l~~~~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~~~~~Ls~~e~~~~~~~~~L~~~i~~ 223 (289) +...+..+++.|++.|-. .+..+--..++|-.++|+|...+.+||-+| +.+|++++.. T Consensus 212 v~~~F~~RRK~l~n~L~~----~~~~~~~~~~~l~~~~i~~~~R~e~Ls~~~------~~~L~~~l~~ 269 (271) T 3fut_A 212 VEAAFGKRRKTLLNALAA----AGYPKARVEEALRALGLPPRVRAEELDLEA------FRRLREGLEG 269 (271) T ss_dssp HHHHTSSTTSCHHHHHHH----TTCCHHHHHHHHHHTTCCTTCCGGGCCHHH------HHHHHHHHC- T ss_pred HHHHHHHHHHHHHHHHHH----HCCCHHHHHHHHHHCCCCCCCCHHHCCHHH------HHHHHHHHHC T ss_conf 999998665799999876----368888999999986979663915499999------9999999865 No 14 >1qyr_A KSGA, high level kasugamycin resistance protein, S-; adenosine dimethyltransferase, rRNA modification, transferase, translation; 2.10A {Escherichia coli} SCOP: c.66.1.24 Probab=77.48 E-value=2 Score=21.36 Aligned_cols=52 Identities=15% Similarity=0.359 Sum_probs=39.0 Q ss_pred HHHHHCCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 8742014542100111265435641368999999871787783122220010158999999998788 Q gi|254780625|r 157 THQFHKKNSNLKNALLNQKIVAGIGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQK 223 (289) Q Consensus 157 ~~~l~~~~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~~~~~Ls~~e~~~~~~~~~L~~~i~~ 223 (289) ...+..++++|++.|- +++..|+|=.++|+|...+.+|+.+| +.+|++.+.+ T Consensus 199 ~~~F~~rRK~l~n~L~---------~~~~~~~l~~~~i~~~~R~e~Ls~~~------~~~L~~~l~~ 250 (252) T 1qyr_A 199 TEAFNQRRKTIRNSLG---------NLFSVEVLTGMGIDPAMRAENISVAQ------YCQMANYLAE 250 (252) T ss_dssp HHHHHTTTSBHHHHTT---------TTCCHHHHHHTTCCTTSBGGGSCHHH------HHHHHHHHHH T ss_pred HHHHHCCHHHHHHHHH---------HHCCHHHHHHCCCCCCCCHHHCCHHH------HHHHHHHHHH T ss_conf 9998545288999874---------04419999977988233933399999------9999999984 No 15 >3ftd_A Dimethyladenosine transferase; KSGA, rossmann-like fold, RNA methyltransferase, mtase, antibiotic resistance, methyltransferase; 1.44A {Aquifex aeolicus VF5} PDB: 3ftc_A 3fte_A 3ftf_A* Probab=76.81 E-value=2.4 Score=20.92 Aligned_cols=46 Identities=22% Similarity=0.365 Sum_probs=34.9 Q ss_pred HHHHCCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHH Q ss_conf 74201454210011126543564136899999987178778312222001015899999999878 Q gi|254780625|r 158 HQFHKKNSNLKNALLNQKIVAGIGNIYVCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQEIQ 222 (289) Q Consensus 158 ~~l~~~~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~~~~~Ls~~e~~~~~~~~~L~~~i~ 222 (289) ..+..++++++..| .+++|=.++|+|...+.+|+.+| +.+|++.+. T Consensus 200 ~~F~~rRK~l~~~l-------------~~~~l~~~~i~~~~R~e~Ls~~~------~~~L~~~l~ 245 (249) T 3ftd_A 200 KIFQNRRKVLRKKI-------------PEELLKEAGINPDARVEQLSLED------FFKLYRLIE 245 (249) T ss_dssp HHHSSTTSCGGGTS-------------CHHHHHHTTCCTTCCGGGCCHHH------HHHHHHHHH T ss_pred HHHHHHHHHHHHHH-------------HHHHHHHCCCCCCCCHHHCCHHH------HHHHHHHHH T ss_conf 99875045565878-------------99999987959888947799999------999999999 No 16 >2avu_E Flagellar transcriptional activator FLHC; C4-type zinc finger, transcription activator; 3.00A {Escherichia coli} SCOP: e.64.1.1 Probab=74.49 E-value=1 Score=23.31 Aligned_cols=27 Identities=26% Similarity=0.663 Sum_probs=22.1 Q ss_pred CCCCCCCCCEEEEEEECCCCEEECCCCC Q ss_conf 7107877887899998781206387767 Q gi|254780625|r 261 EPCLSNCGQMIRRIVQAGRSTFYCTYCQ 288 (289) Q Consensus 261 ~~C~~~CG~~I~~~~~~gR~ty~Cp~CQ 288 (289) .+| ++||+.-......-.+.|.||-|| T Consensus 135 ~~C-~~Cgg~fv~~~~~~~~~f~C~lC~ 161 (192) T 2avu_E 135 SSC-NCCGGNFITHAHQPVGSFACSLCQ 161 (192) T ss_dssp EEC-TTTCCEEEEESSCCSSCCCCTTC- T ss_pred CCC-CCCCCCEECCCCCCCCCCCCCCCC T ss_conf 657-878995155666667687389999 No 17 >1vk6_A NADH pyrophosphatase; 1790429, structural genomics, JCSG, PSI, protein structure initiative, joint center for structural genomics; HET: MSE; 2.20A {Escherichia coli K12} SCOP: d.113.1.4 d.113.1.4 g.41.14.1 PDB: 2gb5_A Probab=73.98 E-value=1.6 Score=22.07 Aligned_cols=28 Identities=18% Similarity=0.558 Sum_probs=18.6 Q ss_pred CCCCCCCCCCCEEEEEEECCCCEEECCCCCC Q ss_conf 8771078778878999987812063877679 Q gi|254780625|r 259 TGEPCLSNCGQMIRRIVQAGRSTFYCTYCQK 289 (289) Q Consensus 259 ~g~~C~~~CG~~I~~~~~~gR~ty~Cp~CQk 289 (289) .-+-| ++||++.... .+.....||.|+. T Consensus 106 ~~rfC-~~CG~~~~~~--~~~~~~~C~~C~~ 133 (269) T 1vk6_A 106 SHKYC-GYCGHEMYPS--KTEWAMLCSHCRE 133 (269) T ss_dssp TTSBC-TTTCCBEEEC--SSSSCEEESSSSC T ss_pred CCCCC-CCCCCCCCCC--CCCEEEECCCCCC T ss_conf 29868-6679877436--7980488989988 No 18 >1vd4_A Transcription initiation factor IIE, alpha subunit; zinc finger; NMR {Homo sapiens} SCOP: g.41.3.1 Probab=66.80 E-value=1.9 Score=21.60 Aligned_cols=26 Identities=27% Similarity=0.747 Sum_probs=11.2 Q ss_pred CCCCCCCCEEEEEEE-----CCCCEEECCCCC Q ss_conf 107877887899998-----781206387767 Q gi|254780625|r 262 PCLSNCGQMIRRIVQ-----AGRSTFYCTYCQ 288 (289) Q Consensus 262 ~C~~~CG~~I~~~~~-----~gR~ty~Cp~CQ 288 (289) .| |.|+.+..-... ....+|-|-.|+ T Consensus 16 ~C-p~C~k~ys~Lda~~Lld~~~~~F~C~~C~ 46 (62) T 1vd4_A 16 KC-PVCSSTFTDLEANQLFDPMTGTFRCTFCH 46 (62) T ss_dssp EC-SSSCCEEEHHHHHHHEETTTTEEBCSSSC T ss_pred EC-CCCCCEECHHHHHHHCCCCCCEEEECCCC T ss_conf 88-89888823755988359678919736889 No 19 >3ga8_A HTH-type transcriptional regulator MQSA (YGIT/B3021); helix-turn-helix, Zn-binding protein, DNA-binding, transcription regulation; HET: PE4; 1.70A {Escherichia coli k-12} PDB: 3hi2_A Probab=65.53 E-value=4.1 Score=19.39 Aligned_cols=24 Identities=4% Similarity=0.115 Sum_probs=12.2 Q ss_pred HHHHHHHCCCCCCCEEEECCCCCC Q ss_conf 888742014542100111265435 Q gi|254780625|r 155 YLTHQFHKKNSNLKNALLNQKIVA 178 (289) Q Consensus 155 ~~~~~l~~~~~~Ik~~LlDQ~~ia 178 (289) ...+.+..-++.|.+.++|+.+|+ T Consensus 54 ~~~~a~~af~~~Vd~~~~~p~~i~ 77 (78) T 3ga8_A 54 AFMAQVKAFRASVNAETVAPEFIV 77 (78) T ss_dssp HHHHHHHHHHHHHHHC-------- T ss_pred HHHHHHHHHHHHHCCCCCCHHHHC T ss_conf 999999999998525246816642 No 20 >3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori} Probab=65.36 E-value=0.56 Score=24.97 Aligned_cols=30 Identities=17% Similarity=0.553 Sum_probs=20.1 Q ss_pred CCCCCCCCCCCEEEEEEE----CCCCEEECCCCCC Q ss_conf 877107877887899998----7812063877679 Q gi|254780625|r 259 TGEPCLSNCGQMIRRIVQ----AGRSTFYCTYCQK 289 (289) Q Consensus 259 ~g~~C~~~CG~~I~~~~~----~gR~ty~Cp~CQk 289 (289) .+..| .-|+..|--..+ .+....+||.|+| T Consensus 197 ~~~~C-~gC~~~l~~~~~~~~~~~~~i~~C~~CgR 230 (256) T 3na7_A 197 KKQAC-GGCFIRLNDKIYTEVLTSGDMITCPYCGR 230 (256) T ss_dssp BTTBC-TTTCCBCCHHHHHHHHHSSSCEECTTTCC T ss_pred ECCCC-CCCCCCCCHHHHHHHHCCCCEEECCCCCC T ss_conf 59916-88782438999999885999048989997 No 21 >3bbn_M Ribosomal protein S13; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Oryza sativa} Probab=60.76 E-value=0.98 Score=23.38 Aligned_cols=41 Identities=17% Similarity=0.297 Sum_probs=34.2 Q ss_pred CCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHH Q ss_conf 542100111265435641368999999871787783122220010 Q gi|254780625|r 164 NSNLKNALLNQKIVAGIGNIYVCEALWRAKLSPIRKTRSLIQNNG 208 (289) Q Consensus 164 ~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~~~~~Ls~~e~ 208 (289) +..|.-.| +.|-|||.-.|..||-.++|+| +++.+|+++|. T Consensus 57 nK~V~~AL---T~IyGIG~~~A~~Ic~~lgId~-kkv~dLteeel 97 (145) T 3bbn_M 57 HKRVEYSL---QYIHGIGRSRSRQILLDLNFDN-KVTKDLSEEEV 97 (145) T ss_dssp SSBTTTGG---GGSTTCCSSTTTGGGTTTTCCS-CBTTSCCSSTT T ss_pred CCEEEEHH---HHHHCCCHHHHHHHHHHCCCCH-HHHHHCCHHHH T ss_conf 97721235---5674638899999999859974-66765478799 No 22 >2jne_A Hypothetical protein YFGJ; zinc fingers, two zinc, structural genomics, PSI-2, protein structure initiative; NMR {Escherichia coli} SCOP: g.41.18.1 Probab=58.43 E-value=4.8 Score=18.94 Aligned_cols=25 Identities=20% Similarity=0.646 Sum_probs=16.5 Q ss_pred CCCCCCCCEEEEEEECCCCEEECCCC Q ss_conf 10787788789999878120638776 Q gi|254780625|r 262 PCLSNCGQMIRRIVQAGRSTFYCTYC 287 (289) Q Consensus 262 ~C~~~CG~~I~~~~~~gR~ty~Cp~C 287 (289) -| |.|+.++++.+-=|-..|||-+| T Consensus 63 ~C-PdC~~~Lq~LkACGAvdYFC~~c 87 (101) T 2jne_A 63 LC-PDCHQPLQVLKACGAVDYFCQHG 87 (101) T ss_dssp EC-TTTCSBCEEEEETTEEEEEETTT T ss_pred CC-CCCCCHHHHHHHCCCHHHHHCCC T ss_conf 69-74020999998716137776338 No 23 >2jrp_A Putative cytoplasmic protein; two-zinc binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium LT2} Probab=54.74 E-value=5 Score=18.83 Aligned_cols=26 Identities=19% Similarity=0.636 Sum_probs=23.2 Q ss_pred CCCCCCCCCEEEEEEECCCCEEECCCC Q ss_conf 710787788789999878120638776 Q gi|254780625|r 261 EPCLSNCGQMIRRIVQAGRSTFYCTYC 287 (289) Q Consensus 261 ~~C~~~CG~~I~~~~~~gR~ty~Cp~C 287 (289) .-| |.|+.++++.+-=|-..|||-+| T Consensus 32 a~C-PdC~~~Lq~LkACGAvdYFC~~c 57 (81) T 2jrp_A 32 ALC-PDCRQPLQVLKACGAVDYFCQNG 57 (81) T ss_dssp EEC-SSSCSCCCEEEETTEEEECCTTT T ss_pred EEC-CCCCCHHHHHHHCCCHHHHHCCC T ss_conf 648-76436799987726215765479 No 24 >1l1o_C Replication protein A 70 kDa DNA-binding subunit; eukaryotic SSB, ssDNA binding protein, OB-fold; 2.80A {Homo sapiens} SCOP: b.40.4.3 Probab=53.26 E-value=2.4 Score=20.94 Aligned_cols=21 Identities=0% Similarity=0.251 Sum_probs=10.6 Q ss_pred CCEEEEEEECCCCCEEEEEEEE Q ss_conf 6338999706887604899981 Q gi|254780625|r 96 HNHVTISLTNNTNTKKYRVIYN 117 (289) Q Consensus 96 ~~~~~~~~~~~~~~~~~~l~~~ 117 (289) ...+.+.+.|++... ...+|. T Consensus 78 ry~l~~~i~D~Tg~~-~~~~F~ 98 (181) T 1l1o_C 78 RMILSVNIADFQENQ-WVTCFQ 98 (181) T ss_dssp EEEEEEEEECSSCEE-EEEEEH T ss_pred EEEEEEEEECCCCCE-EEEEEH T ss_conf 999999998289979-999807 No 25 >1nnq_A Rubrerythrin; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics, secsg; 2.35A {Pyrococcus furiosus} SCOP: a.25.1.1 g.41.5.1 PDB: 2hr5_A Probab=51.53 E-value=3.2 Score=20.08 Aligned_cols=21 Identities=29% Similarity=0.725 Sum_probs=14.9 Q ss_pred CCCCCCCCEEEEEEECCCCEEECCCCC Q ss_conf 107877887899998781206387767 Q gi|254780625|r 262 PCLSNCGQMIRRIVQAGRSTFYCTYCQ 288 (289) Q Consensus 262 ~C~~~CG~~I~~~~~~gR~ty~Cp~CQ 288 (289) .| ++||.... | .--=.||.|. T Consensus 141 vC-~~CG~i~~----g-~~P~~CPvC~ 161 (171) T 1nnq_A 141 IC-PICGYTAV----D-EAPEYCPVCG 161 (171) T ss_dssp EC-TTTCCEEE----S-CCCSBCTTTC T ss_pred EC-CCCCCCCC----C-CCCCCCCCCC T ss_conf 89-98939389----9-9999797999 No 26 >3m7n_A Putative uncharacterized protein AF_0206; exosome, RNA, exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A {Archaeoglobus fulgidus} PDB: 2ba1_A 3m85_A Probab=51.52 E-value=7.4 Score=17.75 Aligned_cols=26 Identities=27% Similarity=0.634 Sum_probs=18.6 Q ss_pred EECCCCCCCCCCCCCEEEEEEECCCCEEECCCCCC Q ss_conf 65738771078778878999987812063877679 Q gi|254780625|r 255 VYGKTGEPCLSNCGQMIRRIVQAGRSTFYCTYCQK 289 (289) Q Consensus 255 vy~r~g~~C~~~CG~~I~~~~~~gR~ty~Cp~CQk 289 (289) ||. .| +.||..+.+ ......||.|.. T Consensus 139 v~a----~c-~~c~~~l~~----~~~~~~C~~cg~ 164 (179) T 3m7n_A 139 LRA----LC-SNCKTEMVR----EGDILKCPECGR 164 (179) T ss_dssp EEC----BC-TTTCCBCEE----CSSSEECSSSCC T ss_pred EEE----EC-CCCCCEEEE----ECCEEECCCCCC T ss_conf 999----67-877860777----099999999998 No 27 >2f4m_A Peptide N-glycanase; glycoproteins, ubiquitin-dependent protein degradation, nucleotide excision repair, peptide:N-glycanase; 1.85A {Mus musculus} SCOP: d.3.1.4 PDB: 2f4o_A* Probab=49.59 E-value=4.5 Score=19.16 Aligned_cols=10 Identities=20% Similarity=0.727 Sum_probs=5.2 Q ss_pred CCCCCEEEEE Q ss_conf 2553279981 Q gi|254780625|r 74 LGMSGSFIIE 83 (289) Q Consensus 74 lgM~G~~~~~ 83 (289) +|..-+|.+. T Consensus 157 ~G~~aR~V~~ 166 (295) T 2f4m_A 157 LGFEARYVWD 166 (295) T ss_dssp TTCCEEEEEE T ss_pred CCCCEEEEEC T ss_conf 5996499942 No 28 >1yuz_A Nigerythrin; rubrythrin, rubredoxin, hemerythrin, electron transfer, DIIRON center, oxidoreductase; 1.40A {Desulfovibrio vulgaris subsp} SCOP: a.25.1.1 g.41.5.1 PDB: 1yv1_A 1yux_A Probab=43.78 E-value=9.2 Score=17.14 Aligned_cols=21 Identities=29% Similarity=0.719 Sum_probs=15.1 Q ss_pred CCCCCCCCEEEEEEECCCCEEECCCCC Q ss_conf 107877887899998781206387767 Q gi|254780625|r 262 PCLSNCGQMIRRIVQAGRSTFYCTYCQ 288 (289) Q Consensus 262 ~C~~~CG~~I~~~~~~gR~ty~Cp~CQ 288 (289) .| ++||.... |...-.||.|- T Consensus 173 ~C-~~CG~i~~-----g~~p~~CP~C~ 193 (202) T 1yuz_A 173 LC-PICGYIHK-----GEDFEKCPICF 193 (202) T ss_dssp EC-SSSCCEEE-----SSCCSBCTTTC T ss_pred EC-CCCCCEEC-----CCCCCCCCCCC T ss_conf 88-99998524-----99899899999 No 29 >1lko_A Rubrerythrin all-iron(II) form; reduced form, DIIRON, four-helix bundle, rubredoxin-like, electron transport; 1.63A {Desulfovibrio vulgaris} SCOP: a.25.1.1 g.41.5.1 PDB: 1dvb_A 1jyb_A 1b71_A 1lkm_A 1lkp_A 1qyb_A 1s2z_A 1s30_A 1ryt_A Probab=43.19 E-value=13 Score=16.14 Aligned_cols=22 Identities=27% Similarity=0.690 Sum_probs=14.8 Q ss_pred CCCCCCCCEEEEEEECCCCEEECCCCC Q ss_conf 107877887899998781206387767 Q gi|254780625|r 262 PCLSNCGQMIRRIVQAGRSTFYCTYCQ 288 (289) Q Consensus 262 ~C~~~CG~~I~~~~~~gR~ty~Cp~CQ 288 (289) .| ++||.+..-...-. .||.|. T Consensus 157 ~C-~~CG~i~~g~~~p~----~CP~C~ 178 (191) T 1lko_A 157 RC-RNCGYVHEGTGAPE----LCPACA 178 (191) T ss_dssp EE-TTTCCEEEEEECCS----BCTTTC T ss_pred EC-CCCCCCCCCCCCCC----CCCCCC T ss_conf 89-99986012899988----597999 No 30 >2i5h_A Hypothetical protein AF1531; PFAM:DUF655, PSI-2, structural genomics, protein structure initiative; 1.74A {Archaeoglobus fulgidus} SCOP: e.71.1.1 Probab=37.83 E-value=18 Score=15.25 Aligned_cols=53 Identities=11% Similarity=0.216 Sum_probs=38.6 Q ss_pred HHHHHHHHHCCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHH Q ss_conf 678887420145421001112654356413689999998717877831222200 Q gi|254780625|r 153 AIYLTHQFHKKNSNLKNALLNQKIVAGIGNIYVCEALWRAKLSPIRKTRSLIQN 206 (289) Q Consensus 153 ~~~~~~~l~~~~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~a~I~P~~~~~~Ls~~ 206 (289) .+.|..- =++..||..-|--=..++||||-.+.+||=.=+-.|+..-.+|++. T Consensus 114 E~~FV~F-fN~A~pItlrlH~leLLPGIGKK~~~~IleeR~k~~FeSFedi~~R 166 (205) T 2i5h_A 114 EKKYVDF-FNKADSITTRMHQLELLPGVGKKMMWAIIEERKKRPFESFEDIAQR 166 (205) T ss_dssp HHHHHHH-HC--CCBCSSSBGGGGSTTCCHHHHHHHHHHHHHSCCCSHHHHHHH T ss_pred CHHCCEE-ECCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCHHHHHHH T ss_conf 0201013-2468886187888875235058999999999655898899999988 No 31 >2edu_A Kinesin-like protein KIF22; kinesin-like DNA binding domain, helix turn helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.60.2.7 Probab=36.76 E-value=19 Score=15.15 Aligned_cols=46 Identities=15% Similarity=0.296 Sum_probs=38.2 Q ss_pred CCCCCCCHHHHHHHH-HHHHCCCCCCCCCCCHHHHHHHHHHHHHHHH Q ss_conf 543564136899999-9871787783122220010158999999998 Q gi|254780625|r 175 KIVAGIGNIYVCEAL-WRAKLSPIRKTRSLIQNNGTPKDILYKLIQE 220 (289) Q Consensus 175 ~~iaGIGN~y~~EiL-f~a~I~P~~~~~~Ls~~e~~~~~~~~~L~~~ 220 (289) .-++|||-..|..|. |+..--|++...+|..-...+...++++.++ T Consensus 43 ~~lpgIg~~~A~~Iv~~R~~~G~f~sledL~~v~Gi~~k~~eki~k~ 89 (98) T 2edu_A 43 RSLQRIGPKKAQLIVGWRELHGPFSQVEDLERVEGITGKQMESFLKA 89 (98) T ss_dssp HHSTTCCHHHHHHHHHHHHHHCCCSSGGGGGGSTTCCHHHHHHHHHH T ss_pred HHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHCCCCCCHHHHHHHHHC T ss_conf 64799899999999999998599288999844899899999999983 No 32 >2elo_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=34.79 E-value=7.4 Score=17.78 Aligned_cols=11 Identities=27% Similarity=0.920 Sum_probs=7.0 Q ss_pred CCEEECCCCCC Q ss_conf 12063877679 Q gi|254780625|r 279 RSTFYCTYCQK 289 (289) Q Consensus 279 R~ty~Cp~CQk 289 (289) ..+|-||.|.| T Consensus 7 g~~yscp~cek 17 (37) T 2elo_A 7 GRSYSCPVCEK 17 (37) T ss_dssp CCCCEETTTTE T ss_pred CCCCCCCCHHH T ss_conf 86214861220 No 33 >2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein, zinc, zinc-finger, structural genomics, PSI-2; NMR {Thermoplasma acidophilum} SCOP: g.41.8.8 Probab=32.64 E-value=13 Score=16.26 Aligned_cols=28 Identities=25% Similarity=0.599 Sum_probs=17.8 Q ss_pred CCCCCCCCCCCCEEEEEEECCCCEEECCCCC Q ss_conf 3877107877887899998781206387767 Q gi|254780625|r 258 KTGEPCLSNCGQMIRRIVQAGRSTFYCTYCQ 288 (289) Q Consensus 258 r~g~~C~~~CG~~I~~~~~~gR~ty~Cp~CQ 288 (289) |....| |+||.-+-.....+| +||-.|. T Consensus 16 r~~k~C-P~CG~GvFmA~H~dR--~~CGKCg 43 (55) T 2k4x_A 16 RKHRFC-PRCGPGVFLAEHADR--YSCGRCG 43 (55) T ss_dssp CSSCCC-TTTTTTCCCEECSSE--EECTTTC T ss_pred EECCCC-CCCCCCEEEEECCCC--CCCCCCC T ss_conf 933759-899994772005897--5636755 No 34 >1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1 Probab=29.41 E-value=14 Score=15.99 Aligned_cols=14 Identities=29% Similarity=0.743 Sum_probs=9.2 Q ss_pred CCCCCCCCCCCCEEE Q ss_conf 387710787788789 Q gi|254780625|r 258 KTGEPCLSNCGQMIR 272 (289) Q Consensus 258 r~g~~C~~~CG~~I~ 272 (289) ..+..| |+||.++- T Consensus 45 ~a~GkC-PvCgreLt 58 (112) T 1l8d_A 45 KAKGKC-PVCGRELT 58 (112) T ss_dssp TCSEEC-TTTCCEEC T ss_pred HHCCCC-CCCCCCCC T ss_conf 747879-98899376 No 35 >1i7d_A DNA topoisomerase III; decatenating enzyme, protein-DNA complex, single-stranded DNA, isomerase/DNA complex; HET: DNA; 2.05A {Escherichia coli} SCOP: e.10.1.1 PDB: 2o5c_A* 2o54_A* 2o59_A* 2o19_A* 2o5e_A* 1d6m_A* Probab=28.72 E-value=25 Score=14.31 Aligned_cols=19 Identities=16% Similarity=0.106 Sum_probs=12.9 Q ss_pred CCCCCCCCCCCEEEEEEECC Q ss_conf 87710787788789999878 Q gi|254780625|r 259 TGEPCLSNCGQMIRRIVQAG 278 (289) Q Consensus 259 ~g~~C~~~CG~~I~~~~~~g 278 (289) .+.+| |.||..+.+.+-.. T Consensus 615 ~~~~c-p~cg~~~~~~~~~~ 633 (659) T 1i7d_A 615 RGIVA-PGSGGSADKKKAAP 633 (659) T ss_dssp TTCCC-C------------- T ss_pred CCCCC-CCCCCCCCCCCCCC T ss_conf 58889-65689765457888 No 36 >1v6g_A Actin binding LIM protein 2; LIM domain, zinc binding domain, ablim2, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Probab=28.31 E-value=11 Score=16.67 Aligned_cols=26 Identities=27% Similarity=0.515 Sum_probs=11.2 Q ss_pred CCCCCCCCCEEEEEEECCCCEEECCCC Q ss_conf 710787788789999878120638776 Q gi|254780625|r 261 EPCLSNCGQMIRRIVQAGRSTFYCTYC 287 (289) Q Consensus 261 ~~C~~~CG~~I~~~~~~gR~ty~Cp~C 287 (289) ..| ..|+.+|.-..+......|.|.| T Consensus 16 ~~C-~~C~~~I~~~~v~a~~~~~H~~C 41 (81) T 1v6g_A 16 TRC-FSCDQFIEGEVVSALGKTYHPDC 41 (81) T ss_dssp CBC-TTTCCBCCSCCEEETTEEECTTT T ss_pred CCC-HHCCCCCCCEEEEECCEEECCCC T ss_conf 525-30499812418998991885558 No 37 >2h1r_A Dimethyladenosine transferase, putative; SGC toronto dimethyladenosine transferase, structural genomics, structural genomics consortium; 1.89A {Plasmodium falciparum} Probab=28.30 E-value=26 Score=14.26 Aligned_cols=58 Identities=19% Similarity=0.346 Sum_probs=36.3 Q ss_pred HHHCCCCCCCEEEECCCCCCCCCHHH-------------------HHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHH Q ss_conf 42014542100111265435641368-------------------99999987178778312222001015899999999 Q gi|254780625|r 159 QFHKKNSNLKNALLNQKIVAGIGNIY-------------------VCEALWRAKLSPIRKTRSLIQNNGTPKDILYKLIQ 219 (289) Q Consensus 159 ~l~~~~~~Ik~~LlDQ~~iaGIGN~y-------------------~~EiLf~a~I~P~~~~~~Ls~~e~~~~~~~~~L~~ 219 (289) .+..++++|++.|=-..+..-+++.| ..++|=.++|.+ +.+.+||.+| +.+|++ T Consensus 215 ~F~~RRK~l~n~Lkk~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~i~~-~R~e~Ls~ed------f~~L~~ 287 (299) T 2h1r_A 215 CFSRKRKTLHAIFKRNAVLNMLEHNYKNWCTLNKQVPVNFPFKKYCLDVLEHLDMCE-KRSINLDEND------FLKLLL 287 (299) T ss_dssp HHTTTTSBHHHHHTSHHHHHHHHHHHHHHHHHTTCCCCSSCHHHHHHHHHHHTTCTT-CBGGGCCHHH------HHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCC-CCCHHCCHHH------HHHHHH T ss_conf 974414488988634003566677677775312014555335789999998569754-7803399999------999999 Q ss_pred HHHH Q ss_conf 8788 Q gi|254780625|r 220 EIQK 223 (289) Q Consensus 220 ~i~~ 223 (289) +..+ T Consensus 288 ~~~~ 291 (299) T 2h1r_A 288 EFNK 291 (299) T ss_dssp HHHH T ss_pred HHHH T ss_conf 9997 No 38 >1x3h_A Leupaxin; paxillin family, protein-protein interaction, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Probab=27.15 E-value=13 Score=16.12 Aligned_cols=25 Identities=12% Similarity=0.458 Sum_probs=12.9 Q ss_pred CCCCCCCCCCEEE--EEEECCCCEEECCCC Q ss_conf 7710787788789--999878120638776 Q gi|254780625|r 260 GEPCLSNCGQMIR--RIVQAGRSTFYCTYC 287 (289) Q Consensus 260 g~~C~~~CG~~I~--~~~~~gR~ty~Cp~C 287 (289) +..| ..|+.+|. .+...|+ .|.|.| T Consensus 15 ~~~C-~~C~~~I~~~~v~~~~~--~~H~~C 41 (80) T 1x3h_A 15 SPKC-GGCNRPVLENYLSAMDT--VWHPEC 41 (80) T ss_dssp SCBC-TTTCCBCCSSCEEETTE--EECTTT T ss_pred CCCH-HHCCCEECCEEEEECCC--EECCCC T ss_conf 9100-42599502809999992--367589 No 39 >2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori} Probab=27.08 E-value=18 Score=15.21 Aligned_cols=23 Identities=17% Similarity=0.635 Sum_probs=10.4 Q ss_pred CCCCCCCCEEEEEEECCCCEEECCCCC Q ss_conf 107877887899998781206387767 Q gi|254780625|r 262 PCLSNCGQMIRRIVQAGRSTFYCTYCQ 288 (289) Q Consensus 262 ~C~~~CG~~I~~~~~~gR~ty~Cp~CQ 288 (289) .| +.||.... +.....+.||.|+ T Consensus 75 ~C-~~Cg~~~~---~~~~~~~~CP~Cg 97 (119) T 2kdx_A 75 EC-KDCSHVFK---PNALDYGVCEKCH 97 (119) T ss_dssp EC-SSSSCEEC---SCCSTTCCCSSSS T ss_pred EC-CCCCCEEC---CCCCCCCCCCCCC T ss_conf 98-78998833---4775477290978 No 40 >2nn6_I 3'-5' exoribonuclease CSL4 homolog; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: b.40.4.5 b.84.4.2 Probab=25.16 E-value=29 Score=13.90 Aligned_cols=23 Identities=13% Similarity=0.149 Sum_probs=16.4 Q ss_pred CCCCCCCCEEEEEEECCCCEEECCCCCC Q ss_conf 1078778878999987812063877679 Q gi|254780625|r 262 PCLSNCGQMIRRIVQAGRSTFYCTYCQK 289 (289) Q Consensus 262 ~C~~~CG~~I~~~~~~gR~ty~Cp~CQk 289 (289) .| +.|+..+.. . ....+||.|-+ T Consensus 171 ~c-~~c~~~l~~---~-~~~m~C~~cg~ 193 (209) T 2nn6_I 171 HS-ESGIQMVPI---S-WCEMQCPKTHT 193 (209) T ss_dssp BC-SSSCBCEEE---E-TTEEECTTTTC T ss_pred EC-CCCCCCEEE---C-CCEEECCCCCC T ss_conf 88-899851776---6-99889999999 No 41 >2h56_A DNA-3-methyladenine glycosidase; 10174367, EC 3.2.2.-, structural genomics, PSI-2, protein structure initiative; 2.55A {Bacillus halodurans} Probab=24.59 E-value=30 Score=13.83 Aligned_cols=29 Identities=10% Similarity=-0.104 Sum_probs=23.9 Q ss_pred CCCCCCHHHHHHHHHHHHCCCCC-CCCCCC Q ss_conf 43564136899999987178778-312222 Q gi|254780625|r 176 IVAGIGNIYVCEALWRAKLSPIR-KTRSLI 204 (289) Q Consensus 176 ~iaGIGN~y~~EiLf~a~I~P~~-~~~~Ls 204 (289) -|.|||.|-++-+|-.+-=+|.. ++++|. T Consensus 142 ~ikGIGpWTA~~illf~lgr~DvfP~~Dl~ 171 (233) T 2h56_A 142 AIKGIGQWTAEMFMMFSLGRLDVLSVGDVG 171 (233) T ss_dssp TSTTCCHHHHHHHHHHTTCCSCCCCTTCHH T ss_pred HCCCCCHHHHHHHHHHHCCCCCCCCCCCHH T ss_conf 068848789999999968999789863799 No 42 >1gax_A Valrs, valyl-tRNA synthetase; protein-RNA complex, rossmann fold, coiled coil, riken structural genomics/proteomics initiative, RSGI; HET: VAA; 2.90A {Thermus thermophilus} SCOP: a.2.7.3 a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1ivs_A* 1iyw_A Probab=23.75 E-value=25 Score=14.39 Aligned_cols=26 Identities=15% Similarity=0.123 Sum_probs=11.3 Q ss_pred CCCCCEEEECCCCCCCCCHHHHHHHHHH Q ss_conf 5421001112654356413689999998 Q gi|254780625|r 164 NSNLKNALLNQKIVAGIGNIYVCEALWR 191 (289) Q Consensus 164 ~~~Ik~~LlDQ~~iaGIGN~y~~EiLf~ 191 (289) +.++-..+.+|-++. ++. ++++.+-. T Consensus 348 ~~~~~~~~~~qwf~~-~~~-~~~~~~~~ 373 (862) T 1gax_A 348 GTPIEYAIFPQWWLR-MRP-LAEEVLKG 373 (862) T ss_dssp CSBCCEEECCEEEEC-HHH-HHHHHHHH T ss_pred CCCEEEEECHHHHHH-HHH-HHHHHHHH T ss_conf 981255303356765-335-66643345 No 43 >2riq_A Poly [ADP-ribose] polymerase 1; Zn-binding domain, Zn ribbon, Zn finger, ADP-ribosylation, DNA damage, DNA repair, DNA-binding, glycosyltransferase; 1.70A {Homo sapiens} PDB: 2jvn_A Probab=23.59 E-value=28 Score=14.09 Aligned_cols=28 Identities=29% Similarity=0.670 Sum_probs=17.8 Q ss_pred EEEECCCCCCCCCCCCCEEEEEEECCCCEEECCC Q ss_conf 1665738771078778878999987812063877 Q gi|254780625|r 253 FSVYGKTGEPCLSNCGQMIRRIVQAGRSTFYCTY 286 (289) Q Consensus 253 ~~vy~r~g~~C~~~CG~~I~~~~~~gR~ty~Cp~ 286 (289) ..+||.- .+| |.|++.+. +.+ ..|+|.. T Consensus 72 gm~FGaL-~~C-P~C~g~l~---~~~-~~Y~C~G 99 (160) T 2riq_A 72 GMVFGAL-LPC-EECSGQLV---FKS-DAYYCTG 99 (160) T ss_dssp HHHHCEE-CCC-TTTCCCEE---EET-TEEEECC T ss_pred HHHHCCC-CCC-CCCCCEEE---EEC-CCEEECC T ss_conf 9971788-899-98899788---708-8258678 No 44 >1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase; NMR {Homo sapiens} SCOP: g.44.1.1 Probab=23.59 E-value=9.7 Score=17.01 Aligned_cols=22 Identities=23% Similarity=0.623 Sum_probs=15.5 Q ss_pred CCCCCCCCCCEEEEEEECCCCEEEC Q ss_conf 7710787788789999878120638 Q gi|254780625|r 260 GEPCLSNCGQMIRRIVQAGRSTFYC 284 (289) Q Consensus 260 g~~C~~~CG~~I~~~~~~gR~ty~C 284 (289) -++| |.|+.+|++. +|-.-..| T Consensus 6 tK~C-P~C~~~IeK~--~GCnhm~C 27 (60) T 1wd2_A 6 TKEC-PKCHVTIEKD--GGCNHMVC 27 (60) T ss_dssp CCCC-TTTCCCCSSC--CSCCSSSC T ss_pred CCCC-CCCCCEEEEC--CCCCCEEE T ss_conf 8599-6999988868--89886597 No 45 >3cc2_Z 50S ribosomal protein L37AE, 50S ribosomal protein L32E; genomic sequnece for R-proteins, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding; HET: 1MA OMU OMG UR3 PSU; 2.40A {Haloarcula marismortui} SCOP: g.41.8.1 PDB: 3cc4_Z* 3cc7_Z* 3cce_Z* 3ccj_Z* 3ccl_Z* 3ccm_Z* 3ccq_Z* 3ccr_Z* 3ccs_Z* 3ccu_Z* 3ccv_Z* 3cd6_Z* 3cma_Z* 3cme_Z* 3i55_Z* 3i56_Z* 3cpw_Y* Probab=23.27 E-value=32 Score=13.67 Aligned_cols=27 Identities=30% Similarity=0.844 Sum_probs=18.2 Q ss_pred CCCCCCCCCCCE-EEEEEECCCCEEECCCCCC Q ss_conf 877107877887-8999987812063877679 Q gi|254780625|r 259 TGEPCLSNCGQM-IRRIVQAGRSTFYCTYCQK 289 (289) Q Consensus 259 ~g~~C~~~CG~~-I~~~~~~gR~ty~Cp~CQk 289 (289) .--.| |.||.. +.+..+| +|-|..|=+ T Consensus 59 aky~C-pfCgk~~vkR~a~G---IW~C~kCg~ 86 (116) T 3cc2_Z 59 EDHAC-PNCGEDRVDRQGTG---IWQCSYCDY 86 (116) T ss_dssp SCEEC-SSSCCEEEEEEETT---EEEETTTCC T ss_pred CCCCC-CCCCCCCEEEEEEE---EEECCCCCC T ss_conf 79609-88899803889989---987489898 No 46 >1weu_A Inhibitor of growth family, member 4; structural genomics, PHD domain, ING1-like protein, DNA binding protein, NPPSFA; NMR {Mus musculus} SCOP: g.50.1.2 Probab=22.97 E-value=19 Score=15.18 Aligned_cols=10 Identities=20% Similarity=1.072 Sum_probs=8.2 Q ss_pred CEEECCCCCC Q ss_conf 2063877679 Q gi|254780625|r 280 STFYCTYCQK 289 (289) Q Consensus 280 ~ty~Cp~CQk 289 (289) ..||||.|++ T Consensus 75 ~~w~C~~C~~ 84 (91) T 1weu_A 75 GKWFCPRCSQ 84 (91) T ss_dssp SSCCCTTTCC T ss_pred CCEECCCCCC T ss_conf 8689957918 No 47 >1x6a_A LIMK-2, LIM domain kinase 2; LIM-kinase 2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 Probab=22.62 E-value=17 Score=15.49 Aligned_cols=25 Identities=16% Similarity=0.381 Sum_probs=9.3 Q ss_pred CCCCCCCCEEEEEEECCCCEEECCCC Q ss_conf 10787788789999878120638776 Q gi|254780625|r 262 PCLSNCGQMIRRIVQAGRSTFYCTYC 287 (289) Q Consensus 262 ~C~~~CG~~I~~~~~~gR~ty~Cp~C 287 (289) .| ..|+.+|.-..+-...-.|.|.| T Consensus 17 ~C-~~C~~~I~~~~i~~~~~~~H~~C 41 (81) T 1x6a_A 17 FC-HGCSLLMTGPFMVAGEFKYHPEC 41 (81) T ss_dssp BC-TTTCCBCCSCCBCCTTCCBCTTS T ss_pred CC-CCCCCCCCCEEEEECCCEECCCC T ss_conf 25-20699922407998982867899 No 48 >2e1m_A L-glutamate oxidase; L-amino acid oxidase, FAD, L-GOX, flavoprotein, 3D-structure, oxidoreductase; HET: FAD; 2.80A {Streptomyces SP} Probab=22.58 E-value=33 Score=13.58 Aligned_cols=13 Identities=23% Similarity=0.176 Sum_probs=9.0 Q ss_pred CCCCEEEEEEECC Q ss_conf 7788789999878 Q gi|254780625|r 266 NCGQMIRRIVQAG 278 (289) Q Consensus 266 ~CG~~I~~~~~~g 278 (289) +++++|.++...+ T Consensus 335 ~~n~~V~~I~~~~ 347 (376) T 2e1m_A 335 VMGQRMVRLEYYD 347 (376) T ss_dssp ECSEEEEEEEECC T ss_pred EECCEEEEEEEEC T ss_conf 9389835999989 No 49 >1s1i_9 L37A, YL35, 60S ribosomal protein L43; 80S ribosome, 60S ribosomal subunit, EEF2, tRNA translocation, sordarin, cryo-EM; 11.70A {Saccharomyces cerevisiae} SCOP: i.1.1.1 Probab=22.34 E-value=11 Score=16.66 Aligned_cols=26 Identities=27% Similarity=0.737 Sum_probs=14.6 Q ss_pred CCCCCCCCCCCE-EEEEEECCCCEEECCCCC Q ss_conf 877107877887-899998781206387767 Q gi|254780625|r 259 TGEPCLSNCGQM-IRRIVQAGRSTFYCTYCQ 288 (289) Q Consensus 259 ~g~~C~~~CG~~-I~~~~~~gR~ty~Cp~CQ 288 (289) .--.| |.||.. +.+.. -.+|-|-.|- T Consensus 34 aky~C-p~Cgk~~vkR~a---~GIW~C~kC~ 60 (91) T 1s1i_9 34 ARYDC-SFCGKKTVKRGA---AGIWTCSCCK 60 (91) T ss_dssp SCCCC-TTTCSSCCCEET---TTEECCSSSC T ss_pred CCCCC-CCCCCCEEEEEE---EEEEECCCCC T ss_conf 88239-899997348998---8886879999 No 50 >1odh_A MGCM1; transcription factor/DNA, transcription factor, DNA-binding domain, protein/DNA complex; 2.85A {Mus musculus} SCOP: d.239.1.1 Probab=22.23 E-value=26 Score=14.20 Aligned_cols=22 Identities=27% Similarity=0.619 Sum_probs=9.7 Q ss_pred CCCCCCCCCCEEEEEEECCCCEE Q ss_conf 77107877887899998781206 Q gi|254780625|r 260 GEPCLSNCGQMIRRIVQAGRSTF 282 (289) Q Consensus 260 g~~C~~~CG~~I~~~~~~gR~ty 282 (289) |++| |.|++.++-..-.|.+-| T Consensus 110 ~k~C-pnC~g~L~~~~Crgh~gy 131 (174) T 1odh_A 110 RKSC-PNCNGPLKLIPCRGHGGF 131 (174) T ss_dssp HSBC-SSSCCBEEEECCCTBTTB T ss_pred CCCC-CCCCCCEEEEECCCCCCC T ss_conf 5889-899981577762576787 No 51 >1mek_A Protein disulfide isomerase; electron transport, redox-active center, endoplasmic reticulum; NMR {Homo sapiens} SCOP: c.47.1.2 Probab=21.89 E-value=20 Score=14.93 Aligned_cols=11 Identities=45% Similarity=0.721 Sum_probs=5.5 Q ss_pred CEEEEEEECCC Q ss_conf 30899950355 Q gi|254780625|r 57 AKYLLIELEGN 67 (289) Q Consensus 57 GK~l~l~l~~~ 67 (289) +|.+++.|-.+ T Consensus 24 ~k~vlV~F~a~ 34 (120) T 1mek_A 24 HKYLLVEFYAP 34 (120) T ss_dssp CSEEEEEEECS T ss_pred CCCEEEEEECC T ss_conf 99799999899 No 52 >2kpi_A Uncharacterized protein SCO3027; zinc finger, PSI-2, NESG, all beta, structural genomics, protein structure initiative; NMR {Streptomyces coelicolor} Probab=20.82 E-value=36 Score=13.36 Aligned_cols=26 Identities=12% Similarity=0.215 Sum_probs=16.7 Q ss_pred CCCCCCCCCEEEEEEECCCCEEECCCCCC Q ss_conf 71078778878999987812063877679 Q gi|254780625|r 261 EPCLSNCGQMIRRIVQAGRSTFYCTYCQK 289 (289) Q Consensus 261 ~~C~~~CG~~I~~~~~~gR~ty~Cp~CQk 289 (289) ..| |.|++++... .+....+|+.|+. T Consensus 11 L~C-P~ck~~L~~~--~~~~~L~c~~~~l 36 (56) T 2kpi_A 11 LAC-PACHAPLEER--DAELICTGQDCGL 36 (56) T ss_dssp CCC-SSSCSCEEEE--TTEEEECSSSCCC T ss_pred HCC-CCCCCCCEEC--CCCCEEECCCCCE T ss_conf 338-8999945182--8768897388883 No 53 >3f6q_B LIM and senescent cell antigen-like-containing domain protein 1; ILK, integrin-linked kinase, pinch, ankyrin repeat, ANK, IPP; 1.60A {Homo sapiens} PDB: 2kbx_B 3ixe_B Probab=20.44 E-value=33 Score=13.59 Aligned_cols=26 Identities=19% Similarity=0.611 Sum_probs=13.4 Q ss_pred CCCCCCCCCCCEEE---E-EEECCCCEEECCCC Q ss_conf 87710787788789---9-99878120638776 Q gi|254780625|r 259 TGEPCLSNCGQMIR---R-IVQAGRSTFYCTYC 287 (289) Q Consensus 259 ~g~~C~~~CG~~I~---~-~~~~gR~ty~Cp~C 287 (289) .+..| ..|+.+|. + +...| .+|.|.| T Consensus 10 ~~~~C-~~C~~~I~~~~~~v~~~~--~~~H~~C 39 (72) T 3f6q_B 10 ASATC-ERCKGGFAPAEKIVNSNG--ELYHEQC 39 (72) T ss_dssp TTCBC-TTTCCBCCTTCEEEEETT--EEEETTT T ss_pred CCCCC-CCCCCEECCCCEEEEECC--CEECCCC T ss_conf 89738-224999258928999798--5688699 No 54 >1d0q_A DNA primase; zinc-binding motif, protein, transferase; HET: DNA; 1.71A {Geobacillus stearothermophilus} SCOP: g.41.3.2 Probab=20.37 E-value=27 Score=14.15 Aligned_cols=27 Identities=19% Similarity=0.383 Sum_probs=16.1 Q ss_pred CCCCCCCCEEEEEEE-CCCCEEECCCCCC Q ss_conf 107877887899998-7812063877679 Q gi|254780625|r 262 PCLSNCGQMIRRIVQ-AGRSTFYCTYCQK 289 (289) Q Consensus 262 ~C~~~CG~~I~~~~~-~gR~ty~Cp~CQk 289 (289) +| |-|+..--...+ ....+|+|-.|++ T Consensus 39 ~C-Pfh~d~~~S~~v~~~~~~~~Cf~Cg~ 66 (103) T 1d0q_A 39 LC-PFHGEKTPSFSVSPEKQIFHCFGCGA 66 (103) T ss_dssp CC-SSSCCSSCCEEEETTTTEEEETTTCC T ss_pred EC-CCCCCCCCCEEEECCCCEEEECCCCC T ss_conf 89-88899999879973887799888799 Done!