Query gi|254781061|ref|YP_003065474.1| putative iron-sulfur cluster assembly protein [Candidatus Liberibacter asiaticus str. psy62] Match_columns 428 No_of_seqs 179 out of 1810 Neff 8.4 Searched_HMMs 33803 Date Wed Jun 1 22:26:43 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781061.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >1vh4_A SUFD protein; structur 100.0 0 0 649.9 36.1 415 4-422 2-424 (435) 2 >1vh4_A SUFD protein; structur 98.4 0.0002 5.8E-09 51.2 19.3 172 143-319 174-353 (435) 3 >3bul_A Methionine synthase; t 74.7 2.9 8.5E-05 20.8 3.1 31 360-390 20-51 (59) 4 >1msk_A Cobalamin-dependent me 69.9 4.7 0.00014 19.3 3.3 31 360-390 23-54 (62) 5 >3ihp_A Ubiquitin carboxyl-ter 67.2 4.1 0.00012 19.7 2.5 32 360-391 8-39 (70) 6 >2o2k_A Methionine synthase; C 66.0 4.9 0.00015 19.1 2.7 37 361-402 23-60 (74) 7 >3ip4_B Aspartyl/glutamyl-tRNA 61.9 9.3 0.00028 17.1 6.8 57 369-425 5-67 (119) 8 >2au3_A DNA primase; zinc ribb 61.3 8 0.00024 17.6 3.1 10 34-43 30-39 (129) 9 >3ic3_A Putative pyruvate dehy 51.5 14 0.0004 15.9 3.8 28 373-400 63-90 (101) 10 >1dvp_A HRS, hepatocyte growth 51.0 14 0.00041 15.8 3.9 46 4-50 16-62 (73) 11 >1whc_A RSGI RUH-027, UBA/UBX 50.5 11 0.00034 16.5 2.4 30 362-391 3-32 (64) 12 >2crn_A Ubash3A protein; compa 49.3 8.9 0.00026 17.2 1.7 30 362-391 3-32 (64) 13 >2if2_A Dephospho-COA kinase; 48.4 15 0.00045 15.6 3.3 73 345-418 39-121 (132) 14 >2qsf_X RAD23, UV excision rep 48.1 15 0.00045 15.5 2.8 35 358-392 16-50 (67) 15 >1vek_A UBP14, ubiquitin-speci 48.0 15 0.00045 15.5 3.6 32 360-391 21-52 (84) 16 >1oqy_A HHR23A, UV excision re 45.9 14 0.00042 15.7 2.3 33 359-391 8-40 (60) 17 >2dag_A Ubiquitin carboxyl-ter 43.6 18 0.00052 15.0 3.7 29 363-391 4-32 (74) 18 >2dkj_A Serine hydroxymethyltr 42.9 18 0.00054 15.0 4.8 40 375-416 120-159 (163) 19 >1yqf_A Hypothetical protein L 41.7 19 0.00056 14.8 3.6 39 360-398 147-189 (203) 20 >2g3q_A Protein YBL047C; endoc 38.0 21 0.00063 14.5 2.9 29 365-393 1-29 (43) 21 >2cpw_A CBL-interacting protei 36.1 22 0.00065 14.4 2.0 31 361-391 12-42 (64) 22 >1wji_A Tudor domain containin 34.4 24 0.00071 14.1 3.9 32 362-393 3-34 (63) 23 >1ify_A HHR23A, UV excision re 33.6 25 0.00073 14.0 2.3 31 363-393 3-33 (49) 24 >2csb_A Topoisomerase V, TOP61 32.8 25 0.00075 13.9 3.1 15 377-391 2-16 (48) 25 >1r5l_A Alpha-TTP, protein (al 32.2 26 0.00077 13.8 3.4 32 363-394 27-59 (74) 26 >1dv0_A DNA repair protein HHR 32.1 18 0.00054 15.0 1.1 27 365-391 1-27 (47) 27 >1aua_A Phosphatidylinositol t 32.0 26 0.00078 13.8 3.4 27 368-394 32-58 (73) 28 >3eaf_A ABC transporter, subst 31.9 26 0.00078 13.8 3.2 50 375-424 136-190 (210) 29 >1yqg_A Pyrroline-5-carboxylat 30.6 28 0.00082 13.6 3.9 36 375-410 16-55 (58) 30 >2e1z_A Propionate kinase; TDC 30.4 28 0.00082 13.6 3.7 32 360-391 73-105 (220) 31 >1wiv_A UBP14, ubiquitin-speci 30.3 28 0.00083 13.6 3.4 38 356-393 17-54 (73) 32 >3ihp_A Ubiquitin carboxyl-ter 28.8 30 0.00087 13.4 3.9 33 361-393 7-39 (75) 33 >1vg5_A RSGI RUH-014, rhomboid 28.0 30 0.0009 13.3 3.5 35 359-393 20-54 (73) 34 >2v6z_M DNA polymerase epsilon 26.6 32 0.00095 13.2 2.8 33 21-55 20-52 (99) 35 >2rcy_A Pyrroline carboxylate 25.7 33 0.00099 13.0 3.5 38 373-410 14-55 (58) 36 >2izz_A Pyrroline-5-carboxylat 25.5 34 0.00099 13.0 3.3 38 373-410 15-56 (59) 37 >2dak_A Ubiquitin carboxyl-ter 24.7 35 0.001 12.9 3.6 32 362-393 3-34 (63) 38 >1wgn_A UBAP1, ubiquitin assoc 23.9 31 0.00093 13.2 1.1 31 362-392 13-43 (63) 39 >3khy_A Propionate kinase; csg 23.5 36 0.0011 12.8 2.5 32 360-391 72-104 (212) 40 >2ztd_A Holliday junction ATP- 23.0 37 0.0011 12.7 5.0 51 361-416 3-53 (58) 41 >3c24_A Putative oxidoreductas 23.0 28 0.00082 13.6 0.7 28 363-390 6-34 (72) 42 >2hoq_A Putative HAD-hydrolase 22.8 35 0.001 12.9 1.2 37 24-63 4-40 (83) 43 >1ryp_D 20S proteasome; multic 22.8 38 0.0011 12.7 1.6 60 360-419 158-240 (241) 44 >1bf6_A Phosphotriesterase hom 22.4 38 0.0011 12.6 2.3 27 365-391 113-139 (146) 45 >1veg_A NEDD8 ultimate buster- 22.2 38 0.0011 12.6 3.4 38 355-392 16-53 (83) 46 >3krn_A Protein C14A4.5, confi 21.1 40 0.0012 12.4 4.1 87 302-400 4-91 (102) 47 >2ahr_A Putative pyrroline car 20.5 42 0.0012 12.3 3.3 37 374-410 15-55 (58) No 1 >>1vh4_A SUFD protein; structural genomics, protein binding protein; 1.75A {Escherichia coli} (A:) Probab=100.00 E-value=0 Score=649.89 Aligned_cols=415 Identities=23% Similarity=0.335 Sum_probs=371.7 Q ss_pred CCHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCC-CCCCCHH Q ss_conf 3279999999999998617-8877899999999999998283239972474258878977513576443211-1111000 Q gi|254781061|r 4 LTAVETMLLQSCDEACQKY-YRNQSVVAFRRRLLCDFRTQGLLPTRKIENWHYTDLKNILKVLPTNKNSIAT-LQKKYKP 81 (428) Q Consensus 4 ~t~~~~~l~~~f~~~~~~~-~~~~~~~~~R~~a~~~F~~~G~lPtkK~E~WKyT~l~~l~~~~~~~~~~~~~-~~~~~~~ 81 (428) |++....+.+.+...++.. ..+.|+.++|++|++.|+++| ||++|+|.|||||++.+....+........ ....... T Consensus 2 m~~~~~~l~~~~~~~~s~~~~ep~wl~~~R~~a~~~~~~l~-~P~~~~e~wryt~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (435) T 1vh4_A 2 LMAGLPNSSNALQQWHHLFEAEGTKRSPQAQQHLQQLLRTG-LPTRKHENWKYTPLEGLINSQFVSIAGEISPQQRDALA 80 (435) T ss_dssp ---------CHHHHHHHHHHC---CCCHHHHHHHHHHHHHC-CCCTTSTTCTTCCCHHHHTSCEECCCCCCCHHHHHHHC T ss_pred CCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHC-CCCCCCCCCCCCCHHHHHCCCCCCCCCCCCCHHHHHCC T ss_conf 54558887699999999986227747599999999999829-78998708137987997454776557766800210001 Q ss_pred HCCCCEEEEEECCCCCCCCCCCCCCCCCHHHHCCCCHHHCCCCCCCCCCHHHHHHHHHCCCCEEEEEECCEEECCCEEEE Q ss_conf 01581599983465420004457541005652124201000134555445667887521387487730544770230343 Q gi|254781061|r 82 LVADSIQLSISQQPSSSILKEKNIEVLPFSHIENTDENSYCLEPLSEHDTIGYINGILSNDGYKVVIPDECQLNVPLELQ 161 (428) Q Consensus 82 ~~~d~~~i~~~~~~~~~~l~~~~i~~~~~~~~~~~~~~~~~~~~~~~~d~f~~LN~A~~~~g~~I~V~~~~~~~~PI~i~ 161 (428) ...+...+++.++.+.+.++.......... ...............++|.+||.|++++|++|+||+++++++||+++ T Consensus 81 ~~~~~~~~~~v~g~~~~~~~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~aln~a~~~~g~~i~v~~~~~~~~Pi~i~ 157 (435) T 1vh4_A 81 LTLDSVRLVFVDGRYVPALSDATEGSGYEV---SINDDRQGLPDAIQAEVFLHLTESLAQSVTHIAVKRGQRPAKPLLLM 157 (435) T ss_dssp CCCCSEEEEEETTEECGGGSCCCTTSSCEE---EEESCCTTCCCCSSCCHHHHHHHHHCSCEEEEEECTTCCCSSCEEEE T ss_pred CCCCCEEEEEECCEECCCCCCCCCCCCEEE---ECHHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCCEEECCCCEEE T ss_conf 346760599778888120156755676076---23777753054442257899876230233201014524750453036 Q ss_pred EECCC------CCCCEEEEEECCCCCCEEEEEECCCCCCCCEEECCCEEEEECCCCEEEEEECCCCCCCEEEEEECEEEE Q ss_conf 20223------222101210017986135553035667552010031289964886376630024565301432000112 Q gi|254781061|r 162 AIQCG------GQMHLRYPISFGMNSRTTVVERYTTLTNDNSFVSSIADIKVGEGADITWVIVLDQGIEDTHLGQLRVIL 235 (428) Q Consensus 162 ~~~~~------~~~~~r~~I~v~~ns~~~iiE~~~~~~~~~~~~n~~~ei~l~~~A~l~~~~iq~~~~~s~~~~~~~~~~ 235 (428) ++..+ ...++|++|++++||+++|+|.|.+.....+|++.++++++++||+|+|+.+|+++..++++...++.+ T Consensus 158 ~~~~~~~~~~~~~~~~~~~i~~~~~s~~~iie~~~~~~~~~~~~~~~~ei~~~~~A~l~~~~i~~~~~~~~~~~~~~~~~ 237 (435) T 1vh4_A 158 HITQGVAGEEVNTAHYRHHLDLAEGAEATVIEHFVSLNDARHFTGARFTINVAANAHLQHIKLAFENPLSHHFAHNDLLL 237 (435) T ss_dssp EEECCCSSSCEEEEEEEEEEEECTTCEEEEEEEEEESSSSCEEEEEEEEEEECTTCEEEEEEEECCCTTCEEEEEEEEEE T ss_pred EEECCCCCCCCCCEEEEEEEEECCCCHHHHHHHHCCCCCHHHHCCCEEEEEECCCCEEEEHHHHHCCCCCCCCCHHHHHH T ss_conf 75036454444420157899742530345555421221001000421689841443343001343034432120222102 Q ss_pred CCCCCEEEEEEECCCCCEEEEEEEEEECCCCEEEEEEEEECCCCCCHHHHHHHHHCCCCCEEEEEEEEEECCCCEEEEEC Q ss_conf 03551467786425651244335665135412466334422744100111222212777526888730004885278741 Q gi|254781061|r 236 EKKSSLKVFVLNIGQGLSRRELSIDVKGEESQFMLRGINLLSGKAHSDLSMFLRHKVPNTCSTSVIRNIVLEKSTGVFQG 315 (428) Q Consensus 236 ~~~S~~~~~~~~~Gg~~~R~~i~i~L~Ge~a~~~~~g~~l~~~~q~~D~~~~i~H~~~~t~S~~~~k~vl~d~s~~vf~G 315 (428) +++|++++.++.+||+++|+++.+.|.|+||+++++|++++.++|+.|+++.|+|.+|+|+|+|++|||+.|+|+++|+| T Consensus 238 ~~~a~~~~~~~~~g~~~~~~~~~~~l~g~~a~~~~~g~~~~~~~q~~d~~~~v~h~~~~t~s~~~~k~vl~d~s~~vf~G 317 (435) T 1vh4_A 238 AEDATAFSHSFLLGGAVLRHNTSTQLNGENSTLRINSLAMPVKNEVCDTRTWLEHNKGFCNSRQLHKTIVSDKGRAVFNG 317 (435) T ss_dssp CTTCEEEEEEEECCCSEEEEEEEEEECSTTCEEEEEEEECCCTTCEEEEEEEEEECSSSCEEEEEEEEEECTTCEEEEEE T ss_pred CCCCCEEEEEECCCCCEEEEECCCCCCCCHHHEEEEECCCCCCCHHHHHHHHHHCCCCCCCCEEHHCCCCCCCCEEEEEE T ss_conf 35652389864156511110011114400111001102456630364543222015553222002103333686269854 Q ss_pred CCCCCCCCCCCCCCEEEEEEEECCCEEEEEEEEEEEECCCCEEEEEEEECCCCHHHHHHHHHCCCCHHHHHHHHHHHHHH Q ss_conf 01013664100000000046612871798121247713873365542212389999999994688989999999999999 Q gi|254781061|r 316 AVHVSSEAQGSNARMTANTLLFSNEGSFYVKPELEIFADDVQCGHGATISDINPEHLYYLMARGISKNQACSMLSHAFMS 395 (428) Q Consensus 316 ~i~V~~~a~~t~~~q~~~~llLs~~a~~~s~P~LeI~~ddV~~~Hgatvg~id~e~lfYl~sRGi~~~~A~~lli~gF~~ 395 (428) +|+|.++|+||+|+|.|++||||++|+++|+|.|||++|||+|+||||||+||+|||||||||||++++|++||+.||++ T Consensus 318 ~i~i~~~A~~s~a~q~~~~LlLs~~A~~~s~P~LeI~~dDV~~sHgAtvG~id~e~LFYL~SRGi~~~~A~~Llv~gF~~ 397 (435) T 1vh4_A 318 LINVAQHAIKTDGQMTNNNLLMGKLAEVDTKPQLEIYADDVKCSHGATVGRIDDEQIFYLRSRGINQQDAQQMIIYAFAA 397 (435) T ss_dssp EEEECTTCTTEEEEEEEEEEECSTTCEEEEEEEEEECCSSEEEEEEEEEECCCHHHHHHHHHTTCCHHHHHHHHHHHHHH T ss_pred EECCCCCCHHHHHHHHHHEEEECCCCEEEECCEEEEECCCEEEEEEEECCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHH T ss_conf 40336663166767655406505884166562389963972699402146789899999987699999999999999899 Q ss_pred HHHHHCCCHHHHHHHHHHHHHHHHHCC Q ss_conf 998858978999999999999974138 Q gi|254781061|r 396 EIVEDLNDQVLQFSIEEILSSWLKNNS 422 (428) Q Consensus 396 ~~i~~i~~~~~~~~~~~~i~~~l~~~~ 422 (428) |++++||++.+|+++.+.|++||.... T Consensus 398 ~vl~~i~~e~lr~~i~~~i~~~l~~~~ 424 (435) T 1vh4_A 398 ELTEALRDEGLKQQVLARIGQRLPGGA 424 (435) T ss_dssp HHHTTCCCHHHHHHHHHHHHTTSTTC- T ss_pred HHHHHCCCHHHHHHHHHHHHHHHHCCC T ss_conf 999869859999999999998611422 No 2 >>1vh4_A SUFD protein; structural genomics, protein binding protein; 1.75A {Escherichia coli} (A:) Probab=98.42 E-value=0.0002 Score=51.20 Aligned_cols=172 Identities=9% Similarity=-0.013 Sum_probs=120.4 Q ss_pred CEEEEEECCEEECCCEEEEEECCCC---CCCEEEEEECCCCCCEEEEEECCCCCCCCEEECCCEEEEECCCCEEEEEECC Q ss_conf 7487730544770230343202232---2210121001798613555303566755201003128996488637663002 Q gi|254781061|r 143 GYKVVIPDECQLNVPLELQAIQCGG---QMHLRYPISFGMNSRTTVVERYTTLTNDNSFVSSIADIKVGEGADITWVIVL 219 (428) Q Consensus 143 g~~I~V~~~~~~~~PI~i~~~~~~~---~~~~r~~I~v~~ns~~~iiE~~~~~~~~~~~~n~~~ei~l~~~A~l~~~~iq 219 (428) ...|.+.+|.++. |...+...+. ..+..+.|.+++||+++++....... ..+....+.+.++++|.++++.+. T Consensus 174 ~~~i~~~~~s~~~--iie~~~~~~~~~~~~~~~~ei~~~~~A~l~~~~i~~~~~--~~~~~~~~~~~~~~~a~~~~~~~~ 249 (435) T 1vh4_A 174 RHHLDLAEGAEAT--VIEHFVSLNDARHFTGARFTINVAANAHLQHIKLAFENP--LSHHFAHNDLLLAEDATAFSHSFL 249 (435) T ss_dssp EEEEEECTTCEEE--EEEEEEESSSSCEEEEEEEEEEECTTCEEEEEEEECCCT--TCEEEEEEEEEECTTCEEEEEEEE T ss_pred EEEEEECCCCHHH--HHHHHCCCCCHHHHCCCEEEEEECCCCEEEEHHHHHCCC--CCCCCCHHHHHHCCCCCEEEEEEC T ss_conf 7899742530345--555421221001000421689841443343001343034--432120222102356523898641 Q ss_pred CCCCCEEEEEECEEEECCCCCEEEEEEECCCCCEEE--EEEEEEECCCCEEEEEEEEECCCCCC--HHHHHHHHHCCCCC Q ss_conf 456530143200011203551467786425651244--33566513541246633442274410--01112222127775 Q gi|254781061|r 220 DQGIEDTHLGQLRVILEKKSSLKVFVLNIGQGLSRR--ELSIDVKGEESQFMLRGINLLSGKAH--SDLSMFLRHKVPNT 295 (428) Q Consensus 220 ~~~~~s~~~~~~~~~~~~~S~~~~~~~~~Gg~~~R~--~i~i~L~Ge~a~~~~~g~~l~~~~q~--~D~~~~i~H~~~~t 295 (428) ..+..+. ........+++|.++...+.++.+-.+. ...+...|+++.+++....++.++.+ +.=...|.+.+..| T Consensus 250 ~g~~~~~-~~~~~~l~g~~a~~~~~g~~~~~~~q~~d~~~~v~h~~~~t~s~~~~k~vl~d~s~~vf~G~i~i~~~A~~s 328 (435) T 1vh4_A 250 LGGAVLR-HNTSTQLNGENSTLRINSLAMPVKNEVCDTRTWLEHNKGFCNSRQLHKTIVSDKGRAVFNGLINVAQHAIKT 328 (435) T ss_dssp CCCSEEE-EEEEEEECSTTCEEEEEEEECCCTTCEEEEEEEEEECSSSCEEEEEEEEEECTTCEEEEEEEEEECTTCTTE T ss_pred CCCCEEE-EECCCCCCCCHHHEEEEECCCCCCCHHHHHHHHHHCCCCCCCCEEHHCCCCCCCCEEEEEEEECCCCCCHHH T ss_conf 5651111-001111440011100110245663036454322201555322200210333368626985440336663166 Q ss_pred EEEEEEEEEECC-CCEEEEECCCCC Q ss_conf 268887300048-852787410101 Q gi|254781061|r 296 CSTSVIRNIVLE-KSTGVFQGAVHV 319 (428) Q Consensus 296 ~S~~~~k~vl~d-~s~~vf~G~i~V 319 (428) .+.|..++++-+ .|+..=.-.+.| T Consensus 329 ~a~q~~~~LlLs~~A~~~s~P~LeI 353 (435) T 1vh4_A 329 DGQMTNNNLLMGKLAEVDTKPQLEI 353 (435) T ss_dssp EEEEEEEEEECSTTCEEEEEEEEEE T ss_pred HHHHHHHEEEECCCCEEEECCEEEE T ss_conf 7676554065058841665623899 No 3 >>3bul_A Methionine synthase; transferase, reactivation conformation, cobalamin, intermodular interactions, amino-acid biosynthesis, cobalt; HET: B12; 2.30A {Escherichia coli} (A:252-273,A:543-579) Probab=74.73 E-value=2.9 Score=20.80 Aligned_cols=31 Identities=16% Similarity=0.343 Sum_probs=26.4 Q ss_pred EEEEECCCCHHHHH-HHHHCCCCHHHHHHHHH Q ss_conf 54221238999999-99946889899999999 Q gi|254781061|r 360 HGATISDINPEHLY-YLMARGISKNQACSMLS 390 (428) Q Consensus 360 Hgatvg~id~e~lf-Yl~sRGi~~~~A~~lli 390 (428) ..-+||+|+++|+- |-+-||++.+++++.|- T Consensus 20 ~~~~VGKI~kDQVeDYA~RKg~~leeaERWLa 51 (59) T 3bul_A 20 QAYAVAQIQRDQVEDYARRKGMSVTEVERWLA 51 (59) T ss_dssp GGCCCCCBCHHHHHHHHHHTTCCHHHHHHHTG T ss_pred CCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHH T ss_conf 66737867688999999865999999998740 No 4 >>1msk_A Cobalamin-dependent methionine synthase; methyltransferase, transferase, methionine biosynthesis, vitamin B12; HET: SAM; 1.80A {Escherichia coli K12} (A:1-25,A:295-331) Probab=69.87 E-value=4.7 Score=19.27 Aligned_cols=31 Identities=16% Similarity=0.343 Sum_probs=25.9 Q ss_pred EEEEECCCCHHHHH-HHHHCCCCHHHHHHHHH Q ss_conf 54221238999999-99946889899999999 Q gi|254781061|r 360 HGATISDINPEHLY-YLMARGISKNQACSMLS 390 (428) Q Consensus 360 Hgatvg~id~e~lf-Yl~sRGi~~~~A~~lli 390 (428) ..-+||+|++||+- |-.-||++.+++++.|- T Consensus 23 ~~yaVGKI~kDQveDYA~RKg~~~~e~ERWLa 54 (62) T 1msk_A 23 QAYAVAQIQRDQVEDYARRKGMSVTEVERWLA 54 (62) T ss_dssp TTCCCCCBCHHHHHHHHHHHTCCHHHHHHHHG T ss_pred CCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHH T ss_conf 67826756688999999974999999998740 No 5 >>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol protease, UBL conjugation pathway, metal-binding, zinc-finger,structural genomics; 2.80A {Homo sapiens} (A:637-706) Probab=67.18 E-value=4.1 Score=19.68 Aligned_cols=32 Identities=6% Similarity=0.081 Sum_probs=27.7 Q ss_pred EEEEECCCCHHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 54221238999999999468898999999999 Q gi|254781061|r 360 HGATISDINPEHLYYLMARGISKNQACSMLSH 391 (428) Q Consensus 360 Hgatvg~id~e~lfYl~sRGi~~~~A~~lli~ 391 (428) .......+|++.|-.|++.|++++.|++-|.. T Consensus 8 ~~~~~~~~d~~~i~~L~~MGF~~~~a~kAL~~ 39 (70) T 3ihp_A 8 DEPKAPMLDESVIIQLVEMGFPMDACRKAVYY 39 (70) T ss_dssp ---------CHHHHHHHHHTCCHHHHHHHHHH T ss_pred CCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHH T ss_conf 23345544415565676438887875666652 No 6 >>2o2k_A Methionine synthase; C-shaped, twisted anti-parallel beta sheet, beta-meander region, transferase; 1.60A {Homo sapiens} (A:1-24,A:306-355) Probab=66.00 E-value=4.9 Score=19.09 Aligned_cols=37 Identities=16% Similarity=0.262 Sum_probs=28.5 Q ss_pred EEEECCCCHHHHH-HHHHCCCCHHHHHHHHHHHHHHHHHHHCC Q ss_conf 4221238999999-99946889899999999999999988589 Q gi|254781061|r 361 GATISDINPEHLY-YLMARGISKNQACSMLSHAFMSEIVEDLN 402 (428) Q Consensus 361 gatvg~id~e~lf-Yl~sRGi~~~~A~~lli~gF~~~~i~~i~ 402 (428) +-+||+|++||+- |-.-||++.++|++.| .+.+..-| T Consensus 23 ~~aVGKI~kDQVeDYA~RKG~~leeaERWL-----APnL~Ydp 60 (74) T 2o2k_A 23 SEAVGKISKDQVEDYALRKNISVAEVEKWL-----GPILGYDT 60 (74) T ss_dssp GCCCCCBCHHHHHHHHHHHTCCHHHHHHHT-----GGGBSCC- T ss_pred CCCCCCCCHHHHHHHHHHCCCCHHHHHHHH-----CCCCCCCC T ss_conf 681575668999999987499999999985-----10117892 No 7 >>3ip4_B Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B; multi protein complex, ligase, ATP-binding, nucleotide- binding; 1.90A {Staphylococcus aureus subsp} PDB: 2df4_B 2dqn_B* 2g5h_B 2g5i_B* 2f2a_B (B:293-411) Probab=61.87 E-value=9.3 Score=17.07 Aligned_cols=57 Identities=14% Similarity=0.187 Sum_probs=44.2 Q ss_pred HHHHHHHHHC-CCCHHHHHHHH----HHHHHHHHHHHCCCH-HHHHHHHHHHHHHHHHCCCCC Q ss_conf 9999999946-88989999999----999999998858978-999999999999974138761 Q gi|254781061|r 369 PEHLYYLMAR-GISKNQACSML----SHAFMSEIVEDLNDQ-VLQFSIEEILSSWLKNNSANM 425 (428) Q Consensus 369 ~e~lfYl~sR-Gi~~~~A~~ll----i~gF~~~~i~~i~~~-~~~~~~~~~i~~~l~~~~~~~ 425 (428) ++..=.|++. ||+..+|+.|+ +..|+.++++...+. .+.+|+...+-+.|++++..+ T Consensus 5 ~~~~~Rl~~~ygLs~~~A~~L~~~~~l~~yFe~~~~~~~~~k~~anwi~~el~~~ln~~~~~~ 67 (119) T 3ip4_B 5 DERKAKYVNELGLPAYDAHVLTLTKEMSDFFESTIEHGADVKLTSNWLMGGVNEYLNKNQVEL 67 (119) T ss_dssp HHHHHHHHHTSCCCHHHHHHHTSSHHHHHHHHHHHTTTCCHHHHHHHHHTHHHHHHHHTTCCG T ss_pred HHHHHHHHHHHCCCHHHHHHHHCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCC T ss_conf 999999998709987875543100677888887764366348899999999988754025644 No 8 >>2au3_A DNA primase; zinc ribbon, toprim, RNA polymerase, DNA replication, transferase; HET: DNA; 2.00A {Aquifex aeolicus} (A:96-224) Probab=61.34 E-value=8 Score=17.55 Aligned_cols=10 Identities=10% Similarity=0.125 Sum_probs=3.7 Q ss_pred HHHHHHHHCC Q ss_conf 9999999828 Q gi|254781061|r 34 RLLCDFRTQG 43 (428) Q Consensus 34 ~a~~~F~~~G 43 (428) +|++=+++.| T Consensus 30 ~a~~YL~~Rg 39 (129) T 2au3_A 30 EASEYVKSRG 39 (129) T ss_dssp HHHHHHHHTT T ss_pred HHHHHHHHCC T ss_conf 7999988648 No 9 >>3ic3_A Putative pyruvate dehydrogenase; structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics; HET: MSE BGC; 1.80A {Rhodopseudomonas palustris} (A:) Probab=51.50 E-value=14 Score=15.89 Aligned_cols=28 Identities=14% Similarity=0.248 Sum_probs=24.5 Q ss_pred HHHHHCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 9999468898999999999999999885 Q gi|254781061|r 373 YYLMARGISKNQACSMLSHAFMSEIVED 400 (428) Q Consensus 373 fYl~sRGi~~~~A~~lli~gF~~~~i~~ 400 (428) -|-++-|+++++|..+|+.+|-.|+.+. T Consensus 63 aya~~~g~~~~eal~~I~~~F~~E~~~P 90 (101) T 3ic3_A 63 SYARESEYTEDEALERIVEXFEAELSRP 90 (101) T ss_dssp HHHHTSSCCHHHHHHHHHHHHHHHHTSC T ss_pred HHHHHCCCCHHHHHHHHHHHHHHHHCCC T ss_conf 9987128999999999999998875587 No 10 >>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate; VHS, FYVE, zinc finger, superhelix; HET: CIT; 2.00A {Drosophila melanogaster} (A:84-156) Probab=51.01 E-value=14 Score=15.83 Aligned_cols=46 Identities=11% Similarity=0.197 Sum_probs=26.1 Q ss_pred CCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCC-CCCCCCC Q ss_conf 3279999999999998617887789999999999999828-3239972 Q gi|254781061|r 4 LTAVETMLLQSCDEACQKYYRNQSVVAFRRRLLCDFRTQG-LLPTRKI 50 (428) Q Consensus 4 ~t~~~~~l~~~f~~~~~~~~~~~~~~~~R~~a~~~F~~~G-~lPtkK~ 50 (428) .+.|+..+++....+....++...+.-++ +++..++..| .||..+. T Consensus 16 ~~~Vk~kiL~li~~Wa~~f~~~~~l~~i~-~~Y~~Lk~~G~~FP~~~~ 62 (73) T 1dvp_A 16 HENVRQKMLELVQTWAYAFRSSDKYQAIK-DTMTILKAKGHTFPELRE 62 (73) T ss_dssp CHHHHHHHHHHHHHHHHHTTTCSSCCHHH-HHHHHHHHTTCCCCCCCC T ss_pred CHHHHHHHHHHHHHHHHHCCCCCCCHHHH-HHHHHHHHCCCCCCCCCC T ss_conf 88999999999999999807884408999-999999977866665431 No 11 >>1whc_A RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain, structural genomics, riken structural genomics/proteomics initiative, unknown function; NMR {Mus musculus} (A:) Probab=50.49 E-value=11 Score=16.45 Aligned_cols=30 Identities=20% Similarity=0.182 Sum_probs=25.7 Q ss_pred EEECCCCHHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 221238999999999468898999999999 Q gi|254781061|r 362 ATISDINPEHLYYLMARGISKNQACSMLSH 391 (428) Q Consensus 362 atvg~id~e~lfYl~sRGi~~~~A~~lli~ 391 (428) +..-.+|++.|=.|+.-|+++..|++-|.. T Consensus 3 ~~~~~~d~~~l~~L~eMGF~~~~a~kAL~~ 32 (64) T 1whc_A 3 SGSSGAELTALESLIEMGFPRGRAEKALAL 32 (64) T ss_dssp CCCCCCCCCHHHHHHTTTCCHHHHHHHHHH T ss_pred CCCCCCCHHHHHHHHHCCCCHHHHHHHHHH T ss_conf 887756999999999959999999999999 No 12 >>2crn_A Ubash3A protein; compact three-helix bundle, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} (A:) Probab=49.33 E-value=8.9 Score=17.22 Aligned_cols=30 Identities=27% Similarity=0.261 Sum_probs=25.6 Q ss_pred EEECCCCHHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 221238999999999468898999999999 Q gi|254781061|r 362 ATISDINPEHLYYLMARGISKNQACSMLSH 391 (428) Q Consensus 362 atvg~id~e~lfYl~sRGi~~~~A~~lli~ 391 (428) +..-.+|++.|=.|++-|++++.|++-|.. T Consensus 3 ~~~~~~d~~~l~~L~eMGF~~~~a~kAL~~ 32 (64) T 2crn_A 3 SGSSGSSPSLLEPLLAMGFPVHTALKALAA 32 (64) T ss_dssp CSSCCCSCSSHHHHHHTSCCHHHHHHHHHH T ss_pred CCCCCCCHHHHHHHHHCCCHHHHHHHHHHH T ss_conf 887898848888999836738999999998 No 13 >>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 3.00A {Aquifex aeolicus VF5} (A:1-30,A:103-204) Probab=48.36 E-value=15 Score=15.55 Aligned_cols=73 Identities=10% Similarity=-0.041 Sum_probs=45.4 Q ss_pred EEEEE-EEECCCCEEEEEEEECCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHH-HHHH----CCC----HHHHHHHHHHH Q ss_conf 12124-77138733655422123899999999946889899999999999999-9885----897----89999999999 Q gi|254781061|r 345 VKPEL-EIFADDVQCGHGATISDINPEHLYYLMARGISKNQACSMLSHAFMSE-IVED----LND----QVLQFSIEEIL 414 (428) Q Consensus 345 s~P~L-eI~~ddV~~~Hgatvg~id~e~lfYl~sRGi~~~~A~~lli~gF~~~-~i~~----i~~----~~~~~~~~~~i 414 (428) -.|.| |.. -+-.|..=-+|.-=.+.++=-+|+||+++++|++.+-.=.-.+ -+.. |.+ +.+++.+...+ T Consensus 39 EiPLLfEsg-~~~~~D~Vi~V~a~~e~ri~Rl~~Rg~S~eea~~Ri~sQ~s~eeK~~~AD~VIdN~gsle~L~~qV~~ll 117 (132) T 2if2_A 39 EASLLVEKG-TYKNYDKLIVVYAPYEVCKERAIKRGXSEEDFERRWKKQXPIEEKVKYADYVIDNSGSIEETYKQVKKVY 117 (132) T ss_dssp ECSCSTTTT-CGGGSSEEEEECCCHHHHHHHHHHTCCCHHHHHHHHTTSCCHHHHGGGCSEECCCSSCHHHHHHHHHHHH T ss_pred HHHHHHHCC-CCCCCCEEEEEECCHHHHHHHHHCCCCCHHHHHHHHHHCCCHHHHHHHCCEEEECCCCHHHHHHHHHHHH T ss_conf 344221024-4422667999852200178898702588999999999679989989859999989999999999999999 Q ss_pred HHHH Q ss_conf 9997 Q gi|254781061|r 415 SSWL 418 (428) Q Consensus 415 ~~~l 418 (428) ++.+ T Consensus 118 ~~L~ 121 (132) T 2if2_A 118 EELT 121 (132) T ss_dssp HTTC T ss_pred HHHH T ss_conf 9982 No 14 >>2qsf_X RAD23, UV excision repair protein RAD23; alpha-beta structure, beta hairpin, transglutaminase fold, DNA-damage recognition, DNA repair; HET: DNA; 2.35A {Saccharomyces cerevisiae} PDB: 2qsg_X* 2qsh_X* 1x3z_B* 1x3w_B* 3esw_B* (X:105-171) Probab=48.11 E-value=15 Score=15.53 Aligned_cols=35 Identities=6% Similarity=0.059 Sum_probs=30.5 Q ss_pred EEEEEEECCCCHHHHHHHHHCCCCHHHHHHHHHHH Q ss_conf 65542212389999999994688989999999999 Q gi|254781061|r 358 CGHGATISDINPEHLYYLMARGISKNQACSMLSHA 392 (428) Q Consensus 358 ~~Hgatvg~id~e~lfYl~sRGi~~~~A~~lli~g 392 (428) ..++.++...+++.|==|++=|+++..|++-|... T Consensus 16 ~~~~~~~~~~~~~~i~~L~~MGF~~~~a~~AL~~~ 50 (67) T 2qsf_X 16 GSFQVDYTPEDDQAISRLCELGFERDLVIQVYFAC 50 (67) T ss_dssp -EECCCCCHHHHHHHHHHHTTTCCHHHHHHHHHHT T ss_pred CCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHH T ss_conf 87766788114999999998499999999999990 No 15 >>1vek_A UBP14, ubiquitin-specific protease 14, putative; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Arabidopsis thaliana} (A:) Probab=47.98 E-value=15 Score=15.51 Aligned_cols=32 Identities=16% Similarity=0.077 Sum_probs=26.6 Q ss_pred EEEEECCCCHHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 54221238999999999468898999999999 Q gi|254781061|r 360 HGATISDINPEHLYYLMARGISKNQACSMLSH 391 (428) Q Consensus 360 Hgatvg~id~e~lfYl~sRGi~~~~A~~lli~ 391 (428) -+.....+|++.|=.|++-|+++..|++-|.. T Consensus 21 ~~~~~~~~d~~~l~~L~~MGF~~~~a~kAL~~ 52 (84) T 1vek_A 21 MESAQPVANEEIVAQLVSMGFSQLHCQKAAIN 52 (84) T ss_dssp CCSCCCCCCHHHHHHHHHHTCCHHHHHHHHHH T ss_pred CCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHH T ss_conf 67688989999999999959999999999999 No 16 >>1oqy_A HHR23A, UV excision repair protein RAD23 homolog A; DNA repair, proteasome-mediated degradation, protein- protein interaction, replication; NMR {Homo sapiens} (A:309-368) Probab=45.94 E-value=14 Score=15.75 Aligned_cols=33 Identities=12% Similarity=0.028 Sum_probs=27.6 Q ss_pred EEEEEECCCCHHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 554221238999999999468898999999999 Q gi|254781061|r 359 GHGATISDINPEHLYYLMARGISKNQACSMLSH 391 (428) Q Consensus 359 ~Hgatvg~id~e~lfYl~sRGi~~~~A~~lli~ 391 (428) ...++..+.++++|=.|++=|++++.|++-|.. T Consensus 8 ~~~~~~~~~~e~~i~~L~~MGF~~~~a~~AL~~ 40 (60) T 1oqy_A 8 MNYIQVTPQEKEAIERLKALGFPESLVIQAYFA 40 (60) T ss_dssp CSSCCCCTTTHHHHHHHHHHTCCSHHHHHHTSS T ss_pred CCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHH T ss_conf 787889989999999999849998999999998 No 17 >>2dag_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5 (USP 5), UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens} (A:) Probab=43.58 E-value=18 Score=15.05 Aligned_cols=29 Identities=10% Similarity=0.122 Sum_probs=25.3 Q ss_pred EECCCCHHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 21238999999999468898999999999 Q gi|254781061|r 363 TISDINPEHLYYLMARGISKNQACSMLSH 391 (428) Q Consensus 363 tvg~id~e~lfYl~sRGi~~~~A~~lli~ 391 (428) +...+|++.|=-|+.-|+++..|++-|.. T Consensus 4 ~~~~~d~~~l~~L~eMGF~~~~a~kAL~~ 32 (74) T 2dag_A 4 GSSGLDESVIIQLVEMGFPMDACRKAVYY 32 (74) T ss_dssp CCCSSCHHHHHHHHHHSCCHHHHHHHHHH T ss_pred CCCCCCHHHHHHHHHCCCCHHHHHHHHHH T ss_conf 88998999999999959999999999999 No 18 >>2dkj_A Serine hydroxymethyltransferase; PLP dependent enzyme, structural genomics, NPPSFA; HET: PLP; 1.15A {Thermus thermophilus HB8} (A:1-32,A:277-407) Probab=42.89 E-value=18 Score=14.97 Aligned_cols=40 Identities=8% Similarity=0.173 Sum_probs=32.1 Q ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH Q ss_conf 994688989999999999999998858978999999999999 Q gi|254781061|r 375 LMARGISKNQACSMLSHAFMSEIVEDLNDQVLQFSIEEILSS 416 (428) Q Consensus 375 l~sRGi~~~~A~~lli~gF~~~~i~~i~~~~~~~~~~~~i~~ 416 (428) +.+||+.+++-+. +-.|+..++....++.+|..+.+...+ T Consensus 120 iTtRG~~e~d~~~--IA~lI~~vL~~~~~e~ik~~V~~L~~~ 159 (163) T 2dkj_A 120 ITTRGFTPEEMPL--VAELIDRALLEGPSEALREEVRRLALA 159 (163) T ss_dssp HHHTTCCGGGHHH--HHHHHHHHHHHCCCHHHHHHHHHHHHT T ss_pred HHHCCCCHHHHHH--HHHHHHHHHHCCCHHHHHHHHHHHHHH T ss_conf 9857998899999--999999999649869999999999982 No 19 >>1yqf_A Hypothetical protein LMAJ011689; structural genomics, PSI, protein structure initiative, structural genomics of pathogenic protozoa consortium; 2.30A {Leishmania major} (A:) Probab=41.70 E-value=19 Score=14.85 Aligned_cols=39 Identities=18% Similarity=0.354 Sum_probs=27.8 Q ss_pred EEEEECCCCHH----HHHHHHHCCCCHHHHHHHHHHHHHHHHH Q ss_conf 54221238999----9999994688989999999999999998 Q gi|254781061|r 360 HGATISDINPE----HLYYLMARGISKNQACSMLSHAFMSEIV 398 (428) Q Consensus 360 Hgatvg~id~e----~lfYl~sRGi~~~~A~~lli~gF~~~~i 398 (428) -|.-...||++ -+=||..|||+.+-|..|.-.....|-- T Consensus 147 ~GP~f~~LD~~Lq~~~~~yL~erGI~~~la~fl~~~~~~kE~~ 189 (203) T 1yqf_A 147 TGPLVHELDYDLLNCVMTYLEKRGVDEKLGEFVVLYSFWAEQQ 189 (203) T ss_dssp CCCCGGGSBHHHHHHHHHHHHHTTCSHHHHHHHHHHHHHHHHH T ss_pred CCCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH T ss_conf 7988021389999999999999399999999999999999999 No 20 >>2g3q_A Protein YBL047C; endocytosis, solution structure, UBA domain, endocytosis/signaling protein complex; NMR {Saccharomyces cerevisiae} (A:) Probab=38.02 E-value=21 Score=14.46 Aligned_cols=29 Identities=14% Similarity=0.125 Sum_probs=24.6 Q ss_pred CCCCHHHHHHHHHCCCCHHHHHHHHHHHH Q ss_conf 23899999999946889899999999999 Q gi|254781061|r 365 SDINPEHLYYLMARGISKNQACSMLSHAF 393 (428) Q Consensus 365 g~id~e~lfYl~sRGi~~~~A~~lli~gF 393 (428) ++.|++.+=-|+.=|+++++|++-|.... T Consensus 1 s~~~~~~v~~L~~MGF~~~~a~~AL~~~~ 29 (43) T 2g3q_A 1 TTPKSLAVEELSGMGFTEEEAHNALEKCN 29 (43) T ss_dssp CCHHHHHHHHHHTTTSCHHHHHHHHHHHT T ss_pred CCCCHHHHHHHHHCCCCHHHHHHHHHHCC T ss_conf 98849999999976999999999999929 No 21 >>2cpw_A CBL-interacting protein STS-1 variant; ubiquitin associated domain, UBA, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} (A:) Probab=36.12 E-value=22 Score=14.38 Aligned_cols=31 Identities=16% Similarity=0.122 Sum_probs=26.7 Q ss_pred EEEECCCCHHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 4221238999999999468898999999999 Q gi|254781061|r 361 GATISDINPEHLYYLMARGISKNQACSMLSH 391 (428) Q Consensus 361 gatvg~id~e~lfYl~sRGi~~~~A~~lli~ 391 (428) ....-.+|++.|=.|++=|+++..|++-|.. T Consensus 12 ~~~~~~~d~~~v~~L~~MGF~~~~a~kAL~~ 42 (64) T 2cpw_A 12 QRPGTIKHGSALDVLLSMGFPRARAQKALAS 42 (64) T ss_dssp CSSCSSSCCCHHHHHHHHTCCHHHHHHHHHH T ss_pred CCCCCCCCHHHHHHHHHCCCCHHHHHHHHHH T ss_conf 9998898999999999969989999999999 No 22 >>1wji_A Tudor domain containing protein 3; UBA domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} (A:) Probab=34.42 E-value=24 Score=14.06 Aligned_cols=32 Identities=19% Similarity=0.163 Sum_probs=26.8 Q ss_pred EEECCCCHHHHHHHHHCCCCHHHHHHHHHHHH Q ss_conf 22123899999999946889899999999999 Q gi|254781061|r 362 ATISDINPEHLYYLMARGISKNQACSMLSHAF 393 (428) Q Consensus 362 atvg~id~e~lfYl~sRGi~~~~A~~lli~gF 393 (428) ++.-.+|++.|=-|++=|+++..|++-|.... T Consensus 3 ~~~~~~~~~~i~~L~~MGF~~~~a~~AL~~~~ 34 (63) T 1wji_A 3 SGSSGVDEKALKHITEMGFSKEASRQALMDNG 34 (63) T ss_dssp SSCCSSCHHHHHHHHTTTCCHHHHHHHHHHTT T ss_pred CCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHC T ss_conf 88775599999999996999999999999959 No 23 >>1ify_A HHR23A, UV excision repair protein RAD23 homolog A; ubiquitin associated domain, UBA domain, ubiquitin proteosome pathway, DNA binding protein; NMR {Homo sapiens} (A:) Probab=33.61 E-value=25 Score=13.97 Aligned_cols=31 Identities=13% Similarity=0.229 Sum_probs=25.9 Q ss_pred EECCCCHHHHHHHHHCCCCHHHHHHHHHHHH Q ss_conf 2123899999999946889899999999999 Q gi|254781061|r 363 TISDINPEHLYYLMARGISKNQACSMLSHAF 393 (428) Q Consensus 363 tvg~id~e~lfYl~sRGi~~~~A~~lli~gF 393 (428) ..++.|++.+=.|+.=|++++.|++-|.... T Consensus 3 ~~~~~~e~~v~~L~~MGF~~~~a~~AL~~~~ 33 (49) T 1ify_A 3 VTGSEYETMLTEIMSMGYERERVVAALRASY 33 (49) T ss_dssp CCSHHHHHHHHHHHHTTCCHHHHHHHHHTTT T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 2421699999999980027999999999871 No 24 >>2csb_A Topoisomerase V, TOP61; topoisomerase IB, helix-turn-helix, helix- hairpin-helix, HHH motif, three helix bundle; 2.30A {Methanopyrus kandleri} (A:472-519) Probab=32.84 E-value=25 Score=13.89 Aligned_cols=15 Identities=33% Similarity=0.596 Sum_probs=12.7 Q ss_pred HCCCCHHHHHHHHHH Q ss_conf 468898999999999 Q gi|254781061|r 377 ARGISKNQACSMLSH 391 (428) Q Consensus 377 sRGi~~~~A~~lli~ 391 (428) -|||+++.|++++-. T Consensus 2 irgidreraerllkk 16 (48) T 2csb_A 2 IRGIDRERAERLLKK 16 (48) T ss_dssp STTCCHHHHHHHHHH T ss_pred ECCCCHHHHHHHHHH T ss_conf 016568999999998 No 25 >>1r5l_A Alpha-TTP, protein (alpha-tocopherol transfer protein); ataxia with vitamin E deficiency, transport protein; HET: MSE VIV; 1.50A {Homo sapiens} (A:1-74) Probab=32.23 E-value=26 Score=13.82 Aligned_cols=32 Identities=19% Similarity=0.248 Sum_probs=24.0 Q ss_pred EECCCCHH-HHHHHHHCCCCHHHHHHHHHHHHH Q ss_conf 21238999-999999468898999999999999 Q gi|254781061|r 363 TISDINPE-HLYYLMARGISKNQACSMLSHAFM 394 (428) Q Consensus 363 tvg~id~e-~lfYl~sRGi~~~~A~~lli~gF~ 394 (428) .....|+. -|-||++|..+-+.|.+||..-+- T Consensus 27 ~~~~~dD~~llrFLrarkf~ve~A~~~l~~~~~ 59 (74) T 1r5l_A 27 APLPLTDSFLLRFLRARDFDLDLAWRLLKNYYK 59 (74) T ss_dssp SSSCCCHHHHHHHHHHTTTCHHHHHHHHHHHHH T ss_pred CCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHH T ss_conf 999999899999985658999999999999999 No 26 >>1dv0_A DNA repair protein HHR23A; helical bundle, DNA binding protein; HET: DNA; NMR {Homo sapiens} (A:) Probab=32.10 E-value=18 Score=14.96 Aligned_cols=27 Identities=15% Similarity=0.084 Sum_probs=22.3 Q ss_pred CCCCHHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 238999999999468898999999999 Q gi|254781061|r 365 SDINPEHLYYLMARGISKNQACSMLSH 391 (428) Q Consensus 365 g~id~e~lfYl~sRGi~~~~A~~lli~ 391 (428) ++.|++.+=-|++=|+++..|++.|+. T Consensus 1 t~~de~~i~~L~~MGF~~~~a~~AL~~ 27 (47) T 1dv0_A 1 GSQEKEAIERLKALGFPESLVIQAYFA 27 (47) T ss_dssp --CCHHHHTTTTTTTCCHHHHHHHHTT T ss_pred CHHHHHHHHHHHHCCCCHHHHHHHHHH T ss_conf 916899999999839988899999998 No 27 >>1aua_A Phosphatidylinositol transfer protein SEC14P; phospholipid-binding protein, peripheral golgi membrane protein, phospholipid exchange; HET: BOG; 2.50A {Saccharomyces cerevisiae} (A:21-93) Probab=31.99 E-value=26 Score=13.79 Aligned_cols=27 Identities=22% Similarity=0.222 Sum_probs=20.1 Q ss_pred CHHHHHHHHHCCCCHHHHHHHHHHHHH Q ss_conf 999999999468898999999999999 Q gi|254781061|r 368 NPEHLYYLMARGISKNQACSMLSHAFM 394 (428) Q Consensus 368 d~e~lfYl~sRGi~~~~A~~lli~gF~ 394 (428) |.--+=||++|+.+-++|.+||...+- T Consensus 32 D~~LlRFLrAr~~~v~~A~~~l~~~l~ 58 (73) T 1aua_A 32 DSTLLRFLRARKFDVQLAKEMFENCEK 58 (73) T ss_dssp HHHHHHHHHHTTTCHHHHHHHHHHHHH T ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHH T ss_conf 999999998758999999999999999 No 28 >>3eaf_A ABC transporter, substrate binding protein; PSI2, NYSGXRC, structural genomics, protein structure initiative; 2.00A {Aeropyrum pernix} (A:1-121,A:262-350) Probab=31.86 E-value=26 Score=13.78 Aligned_cols=50 Identities=24% Similarity=0.262 Sum_probs=39.6 Q ss_pred HHHCCCCHHHHHHHHHHHHHHH-----HHHHCCCHHHHHHHHHHHHHHHHHCCCC Q ss_conf 9946889899999999999999-----9885897899999999999997413876 Q gi|254781061|r 375 LMARGISKNQACSMLSHAFMSE-----IVEDLNDQVLQFSIEEILSSWLKNNSAN 424 (428) Q Consensus 375 l~sRGi~~~~A~~lli~gF~~~-----~i~~i~~~~~~~~~~~~i~~~l~~~~~~ 424 (428) -+..|.++++-.--.+.||.+- .|+....+.++++--+.+.+.|+.+.-. T Consensus 136 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 190 (210) T 3eaf_A 136 ARXNGVSEDQINLRVVQGFVNVWLLIKAIESVTSQDLQERGGEALKEALEANTFD 190 (210) T ss_dssp HHHTTCCGGGCCHHHHHHHHHHHHHHHHHTTSCHHHHHHHTHHHHHHHHHHCCBC T ss_pred HHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCC T ss_conf 9985699998875999999999999999999747489988899999998518866 No 29 >>1yqg_A Pyrroline-5-carboxylate reductase; structural genomics, PSI, protein structure initiative, midwest center for structural genomics; 1.90A {Neisseria meningitidis MC58} (A:167-224) Probab=30.60 E-value=28 Score=13.63 Aligned_cols=36 Identities=17% Similarity=0.255 Sum_probs=24.3 Q ss_pred HHHCCCCHHHHHHHHHHHHHHHHH--HH--CCCHHHHHHH Q ss_conf 994688989999999999999998--85--8978999999 Q gi|254781061|r 375 LMARGISKNQACSMLSHAFMSEIV--ED--LNDQVLQFSI 410 (428) Q Consensus 375 l~sRGi~~~~A~~lli~gF~~~~i--~~--i~~~~~~~~~ 410 (428) -..-||++++|++|..+.|+.-.- .+ ..-+.+++.+ T Consensus 16 gv~~Gl~~~~A~~lv~qt~~Gsa~ll~~~~~~p~~L~~~V 55 (58) T 1yqg_A 16 AIRQGFDXAEARALSLATFKGAVALAEQTGEDFEKLQKNV 55 (58) T ss_dssp HHHTTCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHT T ss_pred HHHCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHC T ss_conf 5513830767788999999999999986599999999876 No 30 >>2e1z_A Propionate kinase; TDCD, native, acetate kinase, nucleotide, AP4A, ADP, ATP, AMPPNP, transferase; HET: B4P; 1.98A {Salmonella typhimurium} (A:174-393) Probab=30.42 E-value=28 Score=13.61 Aligned_cols=32 Identities=9% Similarity=0.226 Sum_probs=26.9 Q ss_pred EEEEECCCCHHHHHHHHH-CCCCHHHHHHHHHH Q ss_conf 542212389999999994-68898999999999 Q gi|254781061|r 360 HGATISDINPEHLYYLMA-RGISKNQACSMLSH 391 (428) Q Consensus 360 Hgatvg~id~e~lfYl~s-RGi~~~~A~~lli~ 391 (428) -+.-.|.||+..++||+- -|++.++..++|.. T Consensus 73 m~tRsG~ldp~~l~~l~~~~~~s~~e~~~~Ln~ 105 (220) T 2e1z_A 73 MGTRSGDVDFGAMAWIAKETGQTLSDLERVVNK 105 (220) T ss_dssp CSSCCCSCCHHHHHHHHHHHCCCHHHHHHHHHH T ss_pred CCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHC T ss_conf 789899988189999998709999999998630 No 31 >>1wiv_A UBP14, ubiquitin-specific protease 14; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Arabidopsis thaliana} (A:) Probab=30.34 E-value=28 Score=13.60 Aligned_cols=38 Identities=18% Similarity=0.211 Sum_probs=32.2 Q ss_pred CEEEEEEEECCCCHHHHHHHHHCCCCHHHHHHHHHHHH Q ss_conf 33655422123899999999946889899999999999 Q gi|254781061|r 356 VQCGHGATISDINPEHLYYLMARGISKNQACSMLSHAF 393 (428) Q Consensus 356 V~~~Hgatvg~id~e~lfYl~sRGi~~~~A~~lli~gF 393 (428) ....+.......|++.|=-|++=|++++.|++-|.... T Consensus 17 ~~~~~~~~~~~~~~~~i~~L~~MGF~~~~a~~AL~~~~ 54 (73) T 1wiv_A 17 IDAPISHQTSDIDQSSVDTLLSFGFAEDVARKALKASG 54 (73) T ss_dssp SSCCSCCSSCSSCHHHHHHHHHHTCCHHHHHHHHHHTT T ss_pred CCCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHCC T ss_conf 67887778899899999999946999999999999919 No 32 >>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol protease, UBL conjugation pathway, metal-binding, zinc-finger,structural genomics; 2.80A {Homo sapiens} (A:707-781) Probab=28.81 E-value=30 Score=13.42 Aligned_cols=33 Identities=18% Similarity=0.202 Sum_probs=27.9 Q ss_pred EEEECCCCHHHHHHHHHCCCCHHHHHHHHHHHH Q ss_conf 422123899999999946889899999999999 Q gi|254781061|r 361 GATISDINPEHLYYLMARGISKNQACSMLSHAF 393 (428) Q Consensus 361 gatvg~id~e~lfYl~sRGi~~~~A~~lli~gF 393 (428) ..+....|++.|=.|+.=|++++.|++-|..-. T Consensus 7 ~~~~~~~~~~~i~~L~~MGF~~~~a~~AL~~~~ 39 (75) T 3ihp_A 7 SAAADPPPEDCVTTIVSMGFSRDQALKALRATN 39 (75) T ss_dssp ------CCHHHHHHHHTTTCCHHHHHHHHHHTT T ss_pred CCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHCC T ss_conf 001355547765104541679999999998626 No 33 >>1vg5_A RSGI RUH-014, rhomboid family protein; UBA domain, cDNA, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} (A:) Probab=27.96 E-value=30 Score=13.32 Aligned_cols=35 Identities=20% Similarity=0.157 Sum_probs=29.7 Q ss_pred EEEEEECCCCHHHHHHHHHCCCCHHHHHHHHHHHH Q ss_conf 55422123899999999946889899999999999 Q gi|254781061|r 359 GHGATISDINPEHLYYLMARGISKNQACSMLSHAF 393 (428) Q Consensus 359 ~Hgatvg~id~e~lfYl~sRGi~~~~A~~lli~gF 393 (428) .+.......|+++|==|++=|+++++|++-|.... T Consensus 20 ~~~~~~~~~~e~~i~~L~~MGF~~~~a~~AL~~~~ 54 (73) T 1vg5_A 20 PQSQGRVAASEEQIQKLVAMGFDRTQVEVALAAAD 54 (73) T ss_dssp SSSCCCSCCCHHHHHHHHTTTCCHHHHHHHHHHHT T ss_pred CCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHC T ss_conf 88888878689999999993999999999999958 No 34 >>2v6z_M DNA polymerase epsilon subunit 2; DNA replication, DPOE2, transferase, AAA protein family; HET: DNA; NMR {Homo sapiens} (M:) Probab=26.62 E-value=32 Score=13.16 Aligned_cols=33 Identities=24% Similarity=0.364 Sum_probs=15.5 Q ss_pred HCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCC Q ss_conf 17887789999999999999828323997247425 Q gi|254781061|r 21 KYYRNQSVVAFRRRLLCDFRTQGLLPTRKIENWHY 55 (428) Q Consensus 21 ~~~~~~~~~~~R~~a~~~F~~~G~lPtkK~E~WKy 55 (428) .++-+.....+|++....|+=.| | .-|.|.=+| T Consensus 20 ~~~~~~~~~~LRk~IvsaFkL~G-l-~Lr~EAs~Y 52 (99) T 2v6z_M 20 RLQVDMAPERLRSRALSAFKLRG-L-LLRGEAIKY 52 (99) T ss_dssp -----CCHHHHHHHHHHHHHHTT-C-EECHHHHHH T ss_pred HHHHHHCHHHHHHHHHHHHHHHC-E-EECHHHHHH T ss_conf 77620088999999998861200-0-353889999 No 35 >>2rcy_A Pyrroline carboxylate reductase; malaria, structural genomics, pyrroline reductase, oxidoreductase, structural genomics consortium; HET: NAP; 2.30A {Plasmodium falciparum 3D7} (A:169-226) Probab=25.66 E-value=33 Score=13.04 Aligned_cols=38 Identities=13% Similarity=0.125 Sum_probs=25.4 Q ss_pred HHHHHCCCCHHHHHHHHHHHHHHHHH--HH--CCCHHHHHHH Q ss_conf 99994688989999999999999998--85--8978999999 Q gi|254781061|r 373 YYLMARGISKNQACSMLSHAFMSEIV--ED--LNDQVLQFSI 410 (428) Q Consensus 373 fYl~sRGi~~~~A~~lli~gF~~~~i--~~--i~~~~~~~~~ 410 (428) -.-...||++++|++|..+.|..-.- .+ .+-+.+++.+ T Consensus 14 ~a~v~~Gl~~~~A~~l~~qt~~Gsa~ll~~s~~~p~~l~~~V 55 (58) T 2rcy_A 14 DAGVKNGLSRELSKNLVLQTIKGSVEXVKKSDQPVQQLKDNI 55 (58) T ss_dssp HHHHHTTCCHHHHHHHHHHHHHHHHHHHHHCSSCHHHHHHHH T ss_pred HHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHC T ss_conf 886507971567689999999999887504799999999847 No 36 >>2izz_A Pyrroline-5-carboxylate reductase 1; amino-acid biosynthesis, NADP, oxidoreductase, proline biosynthesis; HET: NAD; 1.95A {Homo sapiens} PDB: 2ger_A 2gr9_A* 2gra_A* (A:198-256) Probab=25.48 E-value=34 Score=13.01 Aligned_cols=38 Identities=11% Similarity=0.090 Sum_probs=25.6 Q ss_pred HHHHHCCCCHHHHHHHHHHHHHHHH--HHH--CCCHHHHHHH Q ss_conf 9999468898999999999999999--885--8978999999 Q gi|254781061|r 373 YYLMARGISKNQACSMLSHAFMSEI--VED--LNDQVLQFSI 410 (428) Q Consensus 373 fYl~sRGi~~~~A~~lli~gF~~~~--i~~--i~~~~~~~~~ 410 (428) -.-...||++++|++|..+.|..-+ +.+ ..-..+++.+ T Consensus 15 ~agv~~Gl~~~~A~~l~~~~~~Gta~ll~~s~~~p~~L~~~V 56 (59) T 2izz_A 15 DGGVKMGLPRRLAVRLGAQALLGAAKMLLHSEQHPGQLKDNV 56 (59) T ss_dssp HHHHHTTCCHHHHHHHHHHHHHHHHHHHHHCSSCHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHC T ss_conf 988764236888898999999999999987299999999807 No 37 >>2dak_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5, USP 5, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens} (A:) Probab=24.74 E-value=35 Score=12.92 Aligned_cols=32 Identities=19% Similarity=0.188 Sum_probs=26.5 Q ss_pred EEECCCCHHHHHHHHHCCCCHHHHHHHHHHHH Q ss_conf 22123899999999946889899999999999 Q gi|254781061|r 362 ATISDINPEHLYYLMARGISKNQACSMLSHAF 393 (428) Q Consensus 362 atvg~id~e~lfYl~sRGi~~~~A~~lli~gF 393 (428) +....+|++.|=-|++=|+++..|++-|.... T Consensus 3 ~~~~~~~~~~i~~L~~MGF~~~~a~~AL~~~~ 34 (63) T 2dak_A 3 SGSSGPPEDCVTTIVSMGFSRDQALKALRATN 34 (63) T ss_dssp CCSCCCCHHHHHHHHHHTCCHHHHHHHHHHTT T ss_pred CCCCCCCHHHHHHHHHCCCCHHHHHHHHHHCC T ss_conf 88899899999999996999999999999909 No 38 >>1wgn_A UBAP1, ubiquitin associated protein; ubiquitin associated protein 1 (UBAP1), UBA domain, structural genomics; NMR {Homo sapiens} (A:) Probab=23.94 E-value=31 Score=13.22 Aligned_cols=31 Identities=10% Similarity=0.067 Sum_probs=25.5 Q ss_pred EEECCCCHHHHHHHHHCCCCHHHHHHHHHHH Q ss_conf 2212389999999994688989999999999 Q gi|254781061|r 362 ATISDINPEHLYYLMARGISKNQACSMLSHA 392 (428) Q Consensus 362 atvg~id~e~lfYl~sRGi~~~~A~~lli~g 392 (428) ......+++.|=-|++=|++++.|++-|... T Consensus 13 ~~~~~~~~~~i~~L~~MGF~~~~a~~AL~~~ 43 (63) T 1wgn_A 13 QMLSPSERQCVETVVNMGYSYECVLRAMKKK 43 (63) T ss_dssp HTCCHHHHHHHHHHHHHHCCHHHHHHHHHHH T ss_pred CCCCHHHHHHHHHHHHCCCCHHHHHHHHHHH T ss_conf 3468057999999998699899999999992 No 39 >>3khy_A Propionate kinase; csgid, IDP01739, ATP-binding, nucleotide-binding, transferase, structural genomics; 1.98A {Francisella tularensis subsp} (A:159-370) Probab=23.50 E-value=36 Score=12.76 Aligned_cols=32 Identities=22% Similarity=0.374 Sum_probs=27.9 Q ss_pred EEEEECCCCHHHHHHHHHC-CCCHHHHHHHHHH Q ss_conf 5422123899999999946-8898999999999 Q gi|254781061|r 360 HGATISDINPEHLYYLMAR-GISKNQACSMLSH 391 (428) Q Consensus 360 Hgatvg~id~e~lfYl~sR-Gi~~~~A~~lli~ 391 (428) -|.-.|.||+..++||+-. |++.++.+++|-. T Consensus 72 m~tRsG~idp~~l~~l~~~~~~s~~~l~~~Ln~ 104 (212) T 3khy_A 72 XGTRSGCIDPSIFAYISDNLGWSVTEITNXLNK 104 (212) T ss_dssp CSSCCCSCCTTHHHHHHHHHCCCHHHHHHHHHH T ss_pred CCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHH T ss_conf 899888988499999999749999999999635 No 40 >>2ztd_A Holliday junction ATP-dependent DNA helicase RUVA; recombination, branch migration, DNA binding, oligomerization, acidic PIN; 2.40A {Mycobacterium tuberculosis} PDB: 2ztc_A 2zte_A 2h5x_A 1bvs_A (A:155-212) Probab=22.99 E-value=37 Score=12.69 Aligned_cols=51 Identities=14% Similarity=0.109 Sum_probs=35.4 Q ss_pred EEEECCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH Q ss_conf 42212389999999994688989999999999999998858978999999999999 Q gi|254781061|r 361 GATISDINPEHLYYLMARGISKNQACSMLSHAFMSEIVEDLNDQVLQFSIEEILSS 416 (428) Q Consensus 361 gatvg~id~e~lfYl~sRGi~~~~A~~lli~gF~~~~i~~i~~~~~~~~~~~~i~~ 416 (428) .++.+..-+|.+-=|.+-|+++.+|.+.+-.- ...-|+..+.+.|...+.. T Consensus 3 ~~~~~~~~~da~~AL~aLGy~~~ea~~av~~v-----~~~~~~~~~~elIr~ALk~ 53 (58) T 2ztd_A 3 STNGHAVRSPVVEALVGLGFAAKQAEEATDTV-----LAANHDATTSSALRSALSL 53 (58) T ss_dssp -----CCHHHHHHHHHHTTCCHHHHHHHHHHH-----HHHCTTCCHHHHHHHHHHH T ss_pred CCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHH-----HHCCCCCCHHHHHHHHHHH T ss_conf 35653216899999997599989999999999-----8408999999999999999 No 41 >>3c24_A Putative oxidoreductase; YP_511008.1, structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2; HET: MSE; 1.62A {Jannaschia SP} (A:196-267) Probab=22.97 E-value=28 Score=13.63 Aligned_cols=28 Identities=14% Similarity=0.168 Sum_probs=17.3 Q ss_pred EECCCCHHHHHHHHHC-CCCHHHHHHHHH Q ss_conf 2123899999999946-889899999999 Q gi|254781061|r 363 TISDINPEHLYYLMAR-GISKNQACSMLS 390 (428) Q Consensus 363 tvg~id~e~lfYl~sR-Gi~~~~A~~lli 390 (428) |.+..=.|++-=--.| |++++.|+.+|. T Consensus 6 ~ll~~mreA~dE~V~r~GVP~~aArdfLl 34 (72) T 3c24_A 6 PFVETXVHAVDECADRYGIDRQAALDFXI 34 (72) T ss_dssp HHHHHHHHHHHHHHHHHCCCHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHCCCCHHHHHHHHH T ss_conf 99999999999999984998999999986 No 42 >>2hoq_A Putative HAD-hydrolase PH1655; haloacid dehalogenase, structural genomics, NPPSFA; 1.70A {Pyrococcus horikoshii OT3} (A:13-95) Probab=22.79 E-value=35 Score=12.86 Aligned_cols=37 Identities=16% Similarity=0.304 Sum_probs=27.7 Q ss_pred CCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHH Q ss_conf 8778999999999999982832399724742588789775 Q gi|254781061|r 24 RNQSVVAFRRRLLCDFRTQGLLPTRKIENWHYTDLKNILK 63 (428) Q Consensus 24 ~~~~~~~~R~~a~~~F~~~G~lPtkK~E~WKyT~l~~l~~ 63 (428) .+....--|+.|.+.-..-| ||...+|.++ -|..+.+ T Consensus 4 tS~~a~~ARk~Ai~~Mi~aG-L~~~~e~Ay~--~L~eiI~ 40 (83) T 2hoq_A 4 TSKLAEIARKNAIENMIRHG-LPVDFETAYS--ELIELIK 40 (83) T ss_dssp HHHHHHHHHHHHHHHHHHTT-CCSCHHHHHH--HHHHHHH T ss_pred CHHHHHHHHHHHHHHHHHCC-CCCCHHHHHH--HHHHHHH T ss_conf 87889999999999998737-9967999999--9999999 No 43 >>1ryp_D 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} (D:) Probab=22.78 E-value=38 Score=12.66 Aligned_cols=60 Identities=10% Similarity=0.003 Sum_probs=42.4 Q ss_pred EEEEECCCCHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHH--------------------HCCCHHHHHHHHHHHHH Q ss_conf 5422123899999999946---889899999999999999988--------------------58978999999999999 Q gi|254781061|r 360 HGATISDINPEHLYYLMAR---GISKNQACSMLSHAFMSEIVE--------------------DLNDQVLQFSIEEILSS 416 (428) Q Consensus 360 Hgatvg~id~e~lfYl~sR---Gi~~~~A~~lli~gF~~~~i~--------------------~i~~~~~~~~~~~~i~~ 416 (428) +.+++|.=.....-+|..+ .++.++|..++.+++..-.-. .++.+++.+++.+.-++ T Consensus 158 ~~~a~G~g~~~~~~~Le~~~~~~lt~~ea~~l~~~~l~~~~~~d~~s~~~iei~vi~kdg~~~~~~~~ei~~~l~~~~~~ 237 (241) T 1ryp_D 158 SAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQTGAKNIEITVVKPDSDIVALSSEEINQYVTQIEQE 237 (241) T ss_dssp SEEEESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHCSCSTTEEEEEEETTTEEEECCHHHHHHHHHHHTHH T ss_pred EEEECCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCEEECCHHHHHHHHHHHHHH T ss_conf 24504824899999999863105568999999999999999975589881699999889998997999999999999878 Q ss_pred HHH Q ss_conf 974 Q gi|254781061|r 417 WLK 419 (428) Q Consensus 417 ~l~ 419 (428) +++ T Consensus 238 ~~~ 240 (241) T 1ryp_D 238 KQE 240 (241) T ss_dssp HHC T ss_pred HHC T ss_conf 745 No 44 >>1bf6_A Phosphotriesterase homology protein; hypothetical protein; 1.70A {Escherichia coli} (A:1-88,A:234-291) Probab=22.45 E-value=38 Score=12.61 Aligned_cols=27 Identities=19% Similarity=0.170 Sum_probs=18.1 Q ss_pred CCCCHHHHHHHHHCCCCHHHHHHHHHH Q ss_conf 238999999999468898999999999 Q gi|254781061|r 365 SDINPEHLYYLMARGISKNQACSMLSH 391 (428) Q Consensus 365 g~id~e~lfYl~sRGi~~~~A~~lli~ 391 (428) +-|-.+-+=+|+.||+++++-.+|++. T Consensus 113 ~~i~~~~iP~L~~~Gv~~e~I~~ilv~ 139 (146) T 1bf6_A 113 DYLLTTFIPQLRQSGFSQADVDVMLRE 139 (146) T ss_dssp THHHHTHHHHHHHTTCCHHHHHHHHTH T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHH T ss_conf 069999999999759999999999999 No 45 >>1veg_A NEDD8 ultimate buster-1; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Mus musculus} (A:) Probab=22.23 E-value=38 Score=12.58 Aligned_cols=38 Identities=16% Similarity=0.096 Sum_probs=31.5 Q ss_pred CCEEEEEEEECCCCHHHHHHHHHCCCCHHHHHHHHHHH Q ss_conf 73365542212389999999994688989999999999 Q gi|254781061|r 355 DVQCGHGATISDINPEHLYYLMARGISKNQACSMLSHA 392 (428) Q Consensus 355 dV~~~Hgatvg~id~e~lfYl~sRGi~~~~A~~lli~g 392 (428) +.........-.+|++.|=-|+.=|++++.|++-|... T Consensus 16 ~~~~~~~~~~~~~~~~~i~~L~~MGF~~~~a~~AL~~~ 53 (83) T 1veg_A 16 DADPENNSRQASPSQESINQLVYMGFDTVVAEAALRVF 53 (83) T ss_dssp CSCSSCCSSSCCCCHHHHHHHHHHSCCHHHHHHHHHHT T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHH T ss_conf 78876565547977888999998342388899999996 No 46 >>3krn_A Protein C14A4.5, confirmed by transcript evidence; RNAse PH domain, homodimer, exosome, cell-death-related DNAse; 3.92A {Caenorhabditis elegans} (A:121-222) Probab=21.12 E-value=40 Score=12.43 Aligned_cols=87 Identities=7% Similarity=-0.044 Sum_probs=51.0 Q ss_pred EEEECCCCEEEEECCCCCCCCCCCCCCCEEEEEE-EECCCEEEEEEEEEEEECCCCEEEEEEEECCCCHHHHHHHHHCCC Q ss_conf 3000488527874101013664100000000046-612871798121247713873365542212389999999994688 Q gi|254781061|r 302 RNIVLEKSTGVFQGAVHVSSEAQGSNARMTANTL-LFSNEGSFYVKPELEIFADDVQCGHGATISDINPEHLYYLMARGI 380 (428) Q Consensus 302 k~vl~d~s~~vf~G~i~V~~~a~~t~~~q~~~~l-lLs~~a~~~s~P~LeI~~ddV~~~Hgatvg~id~e~lfYl~sRGi 380 (428) ++.+..-+-++.+|.+.|++...--......-.+ .++...+. .+..--.+-|.+.+++++-.+.-|. T Consensus 4 ~~~v~av~vg~i~g~~iiDPt~~E~~~s~~~l~va~~~~~~~~------------~~i~~~~~~g~~~~~~l~~al~~a~ 71 (102) T 3krn_A 4 ETVFCGVLIVRVKDELIIDPTAKQEAASTGRVLFSVCKGSDGH------------PEVCAMDAIGHWDFIQLEAAWSLAQ 71 (102) T ss_dssp TSCCCCCCCEECSSSEESSCCTTTTTSCC-CCCCEECCCSSSS------------CCEEEECCBSSCTTHHHHTHHHHTT T ss_pred CCCCCEEEEEEECCEEEECCCHHHHHCCCCEEEEEEECCCCCC------------EEEEEEECCCCCCHHHHHHHHHHHH T ss_conf 4664237999985858878898999527854999997899983------------1999962468709999999999999 Q ss_pred CHHHHHHHHHHHHHHHHHHH Q ss_conf 98999999999999999885 Q gi|254781061|r 381 SKNQACSMLSHAFMSEIVED 400 (428) Q Consensus 381 ~~~~A~~lli~gF~~~~i~~ 400 (428) ..-....-+++.++.+...+ T Consensus 72 ~~~~~i~~~~~~~l~~~~~k 91 (102) T 3krn_A 72 PSASAIFDFYKTVMKRKLSV 91 (102) T ss_dssp HHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHCC T ss_conf 99999999999999977461 No 47 >>2ahr_A Putative pyrroline carboxylate reductase; pyrroline reductase, proline biosynthesis, NAD(P)binding protein, rossmann fold; HET: NAP; 2.15A {Streptococcus pyogenes m1 gas} (A:168-225) Probab=20.50 E-value=42 Score=12.34 Aligned_cols=37 Identities=14% Similarity=0.209 Sum_probs=24.5 Q ss_pred HHHHCCCCHHHHHHHHHHHHHHHH--HHH--CCCHHHHHHH Q ss_conf 999468898999999999999999--885--8978999999 Q gi|254781061|r 374 YLMARGISKNQACSMLSHAFMSEI--VED--LNDQVLQFSI 410 (428) Q Consensus 374 Yl~sRGi~~~~A~~lli~gF~~~~--i~~--i~~~~~~~~~ 410 (428) .-...||++++|++|..+-++.-. +.+ ..-..+++.+ T Consensus 15 agv~~Gl~~~~A~~l~~qt~~Gsa~ll~~~~~~p~~L~~~V 55 (58) T 2ahr_A 15 AGVKNGIPKAKALEIVTQTVLASASNLKTSSQSPHDFIDAI 55 (58) T ss_dssp HHHHTTCCHHHHHHHHHHHHHHHHHHHHHSSSCHHHHHHHH T ss_pred HHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHC T ss_conf 55672266999999989999987888874799999999865 Done!