RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780269|ref|YP_003064682.1| leucyl/phenylalanyl-tRNA--protein transferase [Candidatus Liberibacter asiaticus str. psy62] (179 letters) >2cxa_A Leucyl/phenylalanyl-tRNA-protein transferase; aminoacyl-tRNA, protein degradation, structural genomics, NPPSFA; HET: MSE; 1.60A {Escherichia coli} SCOP: d.108.1.6 PDB: 2dps_A 2dpt_A* 2z3o_A* 2z3k_A* 2z3l_A* 2z3m_A* 2z3n_A* 2z3p_A* Length = 256 Score = 193 bits (492), Expect = 2e-50 Identities = 60/174 (34%), Positives = 86/174 (49%), Gaps = 4/174 (2%) Query: 1 MADSANSQDISWIKPLRRGIIPLETFHTPKRLKKYIRRELYDIRINTAFESVISACAQKT 60 I W P R ++ E+ H + +K++ +R Y + +N AF VI C + Sbjct: 66 WFSP--GDPILWWSPDPRAVLWPESLHISRSMKRFHKRSPYRVTMNYAFGQVIEGC--AS 121 Query: 61 QKRPTTWINMTIQKAYIDLFYMGYAHTIEAWKKDVLVGGLYGVSLGAVFFGESMFSHMEN 120 + TWI + +AY L +G+AH+IE W++D LVGG+YGV+ G +F GESMFS MEN Sbjct: 122 DREEGTWITRGVVEAYHRLHELGHAHSIEVWREDELVGGMYGVAQGTLFCGESMFSRMEN 181 Query: 121 ASKICLTHLVKHLKKRQFLLLDIQFITNHLRQFGAIEITHVQYAKLLENALKHP 174 ASK L + L+D Q + +H GA EI Y L Sbjct: 182 ASKTALLVFCEEFIGHGGKLIDCQVLNDHTASLGACEIPRRDYLNYLNQMRLGR 235 >2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 1688 Score = 32.5 bits (73), Expect = 0.052 Identities = 29/114 (25%), Positives = 49/114 (42%), Gaps = 28/114 (24%) Query: 86 HTIEAWKKDVLV-GGLYG-------------VSLGAVFFGESMFSHMENASKIC--LTHL 129 H+ E+W + V G + G ++ G G FS E A + LT Sbjct: 655 HS-ESWANQLTVCGAIIGWTRGTGLMSANNIIAEGIEKMGVRTFSQKEMAFNLLGLLTPE 713 Query: 130 VKHLKKRQFLLLDI----QFITNHLRQFGA------IEITHVQYAKLLENALKH 173 V L ++ ++ D+ QF+ L++F A +E + V+ A +E AL+H Sbjct: 714 VVELCQKSPVMADLNGGLQFVP-ELKEFTAKLRKELVETSEVRKAVSIETALEH 766 >2pff_B Fatty acid synthase subunit beta; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 2006 Score = 29.5 bits (66), Expect = 0.48 Identities = 37/183 (20%), Positives = 64/183 (34%), Gaps = 61/183 (33%) Query: 9 DI-SWIK------------------PLRRGIIPLE----TFH----TPKRLKKYIRRELY 41 +I W++ PL G+I L T TP L+ Y++ Sbjct: 214 NILEWLENPSNTPDKDYLLSIPISCPLI-GVIQLAHYVVTAKLLGFTPGELRSYLK---- 268 Query: 42 DIRINTAFES--VISACAQKTQKRPTTW--INMTIQKAYIDLFYMGY-AHTIEAWKKDVL 96 S +++A A +W ++++KA LF++G + EA+ L Sbjct: 269 ----GATGHSQGLVTAVAIAET---DSWESFFVSVRKAITVLFFIGVRCY--EAYPNTSL 319 Query: 97 VGGLYGVSLGAVFFGESMFSHMENASKICLTHLVKHLKKRQFLLLDIQFITN-HLRQFGA 155 + SL E + S M + S + + ++ K TN HL Sbjct: 320 PPSILEDSLEN---NEGVPSPMLSISNLTQEQVQDYVNK-----------TNSHLPAGKQ 365 Query: 156 IEI 158 +EI Sbjct: 366 VEI 368 Score = 27.2 bits (60), Expect = 2.0 Identities = 10/61 (16%), Positives = 21/61 (34%), Gaps = 17/61 (27%) Query: 119 ENASKICLTHLVKHLKKRQFLLLDIQFITNHLRQFGAIEITHVQYAKLLENALKHPEISF 178 E + LV +FL ++++ + Q+ ++L L E + Sbjct: 53 EPTTPA---ELVG-----KFL----GYVSSLVE-----PSKVGQFDQVLNLCLTEFENCY 95 Query: 179 L 179 L Sbjct: 96 L 96 Score = 26.4 bits (58), Expect = 3.9 Identities = 9/61 (14%), Positives = 16/61 (26%), Gaps = 17/61 (27%) Query: 38 RELYDIRINTAF-ESVISACAQKTQ---KRPTTWINMTIQKAYIDLFYMGYAHTIEAWKK 93 R+LY +I A+ + +F G I W + Sbjct: 174 RDLYQTY--HVLVGDLIKFSAETLSELIRTTLDA---------EKVFTQGL--NILEWLE 220 Query: 94 D 94 + Sbjct: 221 N 221 >2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural genomics, NPPSFA; 2.05A {Aquifex aeolicus VF5} PDB: 2ywf_A* 2ywg_A* 2ywh_A* Length = 600 Score = 26.0 bits (57), Expect = 5.5 Identities = 7/26 (26%), Positives = 16/26 (61%) Query: 30 KRLKKYIRRELYDIRINTAFESVISA 55 ++L++ I R+L+++ I A + A Sbjct: 518 EKLRETIPRQLFEVHIQVAKGGKVIA 543 >2iuy_A Avigt4, glycosyltransferase; antibiotics, family GT-4, avilamycin A; HET: MES; 2.1A {Streptomyces viridochromogenes} PDB: 2iv3_A* Length = 342 Score = 25.5 bits (54), Expect = 6.5 Identities = 10/80 (12%), Positives = 25/80 (31%) Query: 15 PLRRGIIPLETFHTPKRLKKYIRRELYDIRINTAFESVISACAQKTQKRPTTWINMTIQK 74 P R + + P+ +++++R D+ + + + A ++ T Sbjct: 59 PAGRPGLTVVPAGEPEEIERWLRTADVDVVHDHSGGVIGPAGLPPGTAFISSHHFTTRPV 118 Query: 75 AYIDLFYMGYAHTIEAWKKD 94 + Y A D Sbjct: 119 NPVGCTYSSRAQRAHCGGGD 138 >3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI, protein structure initiative; HET: IPE; 2.00A {Caulobacter crescentus} Length = 345 Score = 25.4 bits (55), Expect = 8.2 Identities = 7/57 (12%), Positives = 18/57 (31%) Query: 117 HMENASKICLTHLVKHLKKRQFLLLDIQFITNHLRQFGAIEITHVQYAKLLENALKH 173 + + + + +R+ D + + GA++ T A + A Sbjct: 264 AIARSGPREAEFWERAIGRREQTEADFRRARELIIGSGALDATLDLAADYADKAKAA 320 >3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics, PSI-2, protein structure initiative; 1.90A {Rhodobacter capsulatus} Length = 341 Score = 25.0 bits (54), Expect = 9.4 Identities = 8/57 (14%), Positives = 20/57 (35%) Query: 117 HMENASKICLTHLVKHLKKRQFLLLDIQFITNHLRQFGAIEITHVQYAKLLENALKH 173 + A + + ++K D++ + + G +E T + + A K Sbjct: 252 AVALADEAERAFWKRVIEKGDQQDGDLEHAMALMTKHGTLEATRLAAIGWTDTARKA 308 >1cru_A Protein (soluble quinoprotein glucose dehydrogenase); beta-propeller, superbarrel; HET: PQQ; 1.50A {Acinetobacter calcoaceticus} SCOP: b.68.2.1 PDB: 1c9u_A* 1cq1_A* 1qbi_A Length = 454 Score = 25.0 bits (53), Expect = 9.8 Identities = 7/33 (21%), Positives = 11/33 (33%) Query: 80 FYMGYAHTIEAWKKDVLVGGLYGVSLGAVFFGE 112 Y G I W+ +LV L + + Sbjct: 356 VYKGGKKAITGWENTLLVPSLKRGVIFRIKLDP 388 Database: pdb70 Posted date: Jan 26, 2011 11:21 AM Number of letters in database: 5,693,230 Number of sequences in database: 24,244 Lambda K H 0.325 0.138 0.415 Gapped Lambda K H 0.267 0.0524 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,558,176 Number of extensions: 66082 Number of successful extensions: 212 Number of sequences better than 10.0: 1 Number of HSP's gapped: 211 Number of HSP's successfully gapped: 13 Length of query: 179 Length of database: 5,693,230 Length adjustment: 86 Effective length of query: 93 Effective length of database: 3,608,246 Effective search space: 335566878 Effective search space used: 335566878 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 53 (24.7 bits)