RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254781094|ref|YP_003065507.1| glycyl-tRNA synthetase subunit beta [Candidatus Liberibacter asiaticus str. psy62] (702 letters) >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 = 67.7 bits (165), Expect = 8e-12 Identities = 94/581 (16%), Positives = 175/581 (30%), Gaps = 208/581 (35%) Query: 188 ITYG---HRFHAP---HPIKVQSLDHYIRDLEEAMVLLDPECRRNAILNDAHRLASAVG- 240 +++G H P I Q + + + L E + + A + +G Sbjct: 11 LSHGSLEHVLLVPTASFFIASQLQEQFNKILPEP---TEGFAADDEPTTPAELVGKFLGY 67 Query: 241 -LELVEDKD--LLEEIIGLVEWVQVFMGSFDKKYLC----------LPEELIRLTIKTNQ 287 LVE +++ + + + F+ YL L +E + Sbjct: 68 VSSLVEPSKVGQFDQV------LNLCLTEFENCYLEGNDIHALAAKLLQE---NDTTLVK 118 Query: 288 KCFVTRTREGVLANCFILVSNIQ----------ASDGGAAIV-----QGNSRVVAARLED 332 + + + + +G A +V QGN+ L D Sbjct: 119 TKELIKN---YITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRD 175 Query: 333 ALH---------FWKRDQNNLPNLSSLKESALKF---NLDLSKPLDQRMARLDMLDVVFH 380 L+ K L L A K L++ + L+ D D + Sbjct: 176 -LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPD-KDYLLS 233 Query: 381 AK-----IG-TQGER--VSRIRVLGKKIAQLIDADVA-------LVDRAIVLSKADLCTE 425 IG Q V+ ++LG +L LV A+ +++ D + Sbjct: 234 IPISCPLIGVIQLAHYVVT-AKLLGFTPGELRSYLKGATGHSQGLV-TAVAIAETD--SW 289 Query: 426 IVREFPELQGK-------IGKE----Y-------AVLQNENISCCDAIEEHLKPRGPLEN 467 F K IG Y ++L+ D++E E Sbjct: 290 --ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILE-------DSLEN-----N--EG 333 Query: 468 VPTNKISIT-VSLADKLDTLINFWAINEK-PSGSK----------------DPYALRRAT 509 VP+ +SI+ ++ +++ +N N P+G + P +L Sbjct: 334 VPSPMLSISNLTQ-EQVQDYVN--KTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLN 390 Query: 510 LGIIRIILENKID---IPLSQ----FIEDQNLILF----FH--------DRLKLYLHDRD 550 L + + + +D IP S+ F N L FH D + L + Sbjct: 391 LTLRKAKAPSGLDQSRIPFSERKLKF---SNRFLPVASPFHSHLLVPASDLINKDLVKNN 447 Query: 551 IR---HDLIEAI----------LRPENDNLL-TIVDLIKHLN-------EF-------F- 581 + D+ I LR + ++ IVD I L +F F Sbjct: 448 VSFNAKDI--QIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFG 505 Query: 582 ---SSAKGEKFLLSAK-------RIFQILA--IEEKKNREI 610 +S G +L+ + R+ I+A ++ + + Sbjct: 506 PGGASGLG---VLTHRNKDGTGVRV--IVAGTLDINPDDDY 541 Score = 49.9 bits (119), Expect = 2e-06 Identities = 73/416 (17%), Positives = 124/416 (29%), Gaps = 179/416 (43%) Query: 82 IDGFLRSTG--LQTISDCQIKKDPK-------KG-DVYLAVLRKP-KRLIEDVLKTIVPV 130 + ++ + L + + +G ++ L L P +D L + +P+ Sbjct: 184 VGDLIKFSAETLSELI-----RTTLDAEKVFTQGLNI-LEWLENPSNTPDKDYLLS-IPI 236 Query: 131 A------IQKVPW----------PKSMR----WSTTHSP-------IS-AFSWIRPLKSI 162 + IQ + P +R +T HS I+ SW +S Sbjct: 237 SCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSW----ESF 292 Query: 163 LCILVAEDAKEKIIDLDLKEIPCGNITYGHRFH--APH----PIKVQ-SLDH-------- 207 + K I + L I G R + P+ P ++ SL++ Sbjct: 293 ------FVSVRKAITV-LFFI-------GVRCYEAYPNTSLPPSILEDSLENNEGVPSPM 338 Query: 208 -YIRDLEEAMV--LLD------PECRRNAI-L-NDAHRL------ASAVGLELVEDKDLL 250 I +L + V ++ P ++ I L N A L S GL L L Sbjct: 339 LSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNL-----TL 393 Query: 251 EEI---IGL-----------VEWVQVF--MGS-FDKKYLCLPEELIR-------LTIKTN 286 + GL +++ F + S F L +LI ++ Sbjct: 394 RKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAK 453 Query: 287 Q-KCFVTRTREGVLANCFILVSNIQASDGGAAIVQGNSRVVAARLEDALHFWKRDQNNLP 345 + V T +G S+++ G I R+V + + W Sbjct: 454 DIQIPVYDTFDG---------SDLRVLSGS--IS---ERIVDCIIRLPVK-W-------- 490 Query: 346 NLSSLKESALKFN----LD-----LS--KPLDQRMARLDMLDVVFHAKIGTQGERV 390 E+ +F LD S L R K GT G RV Sbjct: 491 ------ETTTQFKATHILDFGPGGASGLGVLTHRN------------KDGT-GVRV 527 Score = 46.1 bits (109), Expect = 3e-05 Identities = 33/150 (22%), Positives = 51/150 (34%), Gaps = 53/150 (35%) Query: 50 HRLFLYLKGLSP-HSP------EKIEERLGPRVGAGKKAIDGFLRSTGLQTISDCQIKKD 102 +R FL + SP HS + I + L + + D QI Sbjct: 418 NR-FLPVA--SPFHSHLLVPASDLINKDLVKN----NVSFNA----------KDIQI--- 457 Query: 103 PKKGDVYL----AVLRKPKRLIEDVLKTIVP-VAIQKVPWPKSMRWSTTHSPISAFSWIR 157 P VY + LR + + IV + V W + ++ TH I F Sbjct: 458 P----VYDTFDGSDLRVLS---GSISERIVDCIIRLPVKWETTTQFKATH--ILDFG--- 505 Query: 158 PLK-SILCILVAEDAKE----KII---DLD 179 P S L +L + K+ ++I LD Sbjct: 506 PGGASGLGVLTHRN-KDGTGVRVIVAGTLD 534 Score = 36.1 bits (83), Expect = 0.029 Identities = 56/301 (18%), Positives = 89/301 (29%), Gaps = 163/301 (54%) Query: 2 PD--FLLEIYSEEIPARMQHKAAEDLSIILIGLLKEEGVIYQNMRQYW--------TPHR 51 PD +LL S IP +S LIG++ Q + Y TP Sbjct: 226 PDKDYLL---S--IP----------ISCPLIGVI-------Q-LAHYVVTAKLLGFTPGE 262 Query: 52 LFLYLKGLSPHS--------------PEKIEERLGPRVGAGKKAID-----G-------- 84 L YLKG + HS E + +KAI G Sbjct: 263 LRSYLKGATGHSQGLVTAVAIAETDSWESFFV-------SVRKAITVLFFIGVRCYEAYP 315 Query: 85 --FLRSTGLQ--------------TISDCQIKK-----D------PKKGDVYLA------ 111 L + L+ +IS+ ++ + P V ++ Sbjct: 316 NTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAK 375 Query: 112 --V--------------LRKPKRLIEDVLKTIVPVAI-Q-KVPWPK-SMRWSTTHSPISA 152 V LRK K P + Q ++P+ + +++S P+++ Sbjct: 376 NLVVSGPPQSLYGLNLTLRKAK----------APSGLDQSRIPFSERKLKFSNRFLPVAS 425 Query: 153 FSWIRPLKSILCILVAEDAKEKII-DL----------DLKEIP-------------CGNI 188 P S L L A + I DL D++ IP G+I Sbjct: 426 -----PFHSHL--L--VPASDLINKDLVKNNVSFNAKDIQ-IPVYDTFDGSDLRVLSGSI 475 Query: 189 T 189 + Sbjct: 476 S 476 >1f7u_A Arginyl-tRNA synthetase; RNA-protein complex, aminoacylation, ligase, ligase/RNA complex; HET: PSU 1MG 2MG H2U M2G 5MC 5MU 1MA ARG; 2.20A {Saccharomyces cerevisiae} SCOP: a.27.1.1 c.26.1.1 d.67.2.1 PDB: 1bs2_A* 1f7v_A* Length = 607 Score = 43.5 bits (102), Expect = 1e-04 Identities = 13/98 (13%), Positives = 34/98 (34%) Query: 595 RIFQILAIEEKKNREISLEISPQYLLLEAEKRLYAVISDFGTHIQESMDHKRYHQIGDLL 654 R+ + +E + L A K L ++ + ++ ++ + L Sbjct: 495 RLRSVERNASGITQEKWINADFSLLKEPAAKLLIRLLGQYPDVLRNAIKTHEPTTVVTYL 554 Query: 655 HSICEPIEIFFDQVLVNVDDREVRDNRLSLLQYIKNII 692 + + +D + V E+ RL+L + ++ Sbjct: 555 FKLTHQVSSCYDVLWVAGQTEELATARLALYGAARQVL 592 >2zue_A Arginyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, ligase, nucleotide-binding, protein biosynthesis, ligase/RNA complex; HET: ANP; 2.00A {Pyrococcus horikoshii} PDB: 2zuf_A Length = 629 Score = 40.4 bits (93), Expect = 0.001 Identities = 20/102 (19%), Positives = 43/102 (42%), Gaps = 4/102 (3%) Query: 595 RIFQILAIEEKKNREISLEISPQ----YLLLEAEKRLYAVISDFGTHIQESMDHKRYHQI 650 R IL E++ ++ E + L E E+ L ++S F ++++ + H I Sbjct: 513 RCSSILRKAEEEGIKVDPETLFKNADFTKLSERERELVIMLSKFPRIVEQAGKDVKPHLI 572 Query: 651 GDLLHSICEPIEIFFDQVLVNVDDREVRDNRLSLLQYIKNII 692 + + F+ V + VR+ RL L+ ++ ++ Sbjct: 573 AWFANELASLFNKFYMDHPVLKAEEGVREARLLLVMAVEQVL 614 >1ekg_A Frataxin; freidreich'S ataxia, iron transport, mitochondrial, disease, metal transport; 1.80A {Homo sapiens} SCOP: d.82.2.1 PDB: 1ly7_A Length = 127 Score = 35.6 bits (82), Expect = 0.038 Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 4/67 (5%) Query: 635 GTHIQESMDHKRYHQIGD-LLHSICEPIEIFFDQVLVNVD-DREVRDNRLSLLQYIKNII 692 G+H+ S+D Y ++ + L S+ E E D+ D D L+ ++ ++ Sbjct: 1 GSHM-GSLDETTYERLAEETLDSLAEFFEDLADKPYTFEDYDVSFGSGVLT-VKLGGDLG 58 Query: 693 LIVINVQ 699 VIN Q Sbjct: 59 TYVINKQ 65 >1iq0_A Arginyl-tRNA synthetase; riken structural genomics/proteomics initiative, RSGI, structural genomics, ligase; 2.30A {Thermus thermophilus} SCOP: a.27.1.1 c.26.1.1 d.67.2.1 Length = 592 Score = 33.7 bits (76), Expect = 0.13 Identities = 18/101 (17%), Positives = 36/101 (35%), Gaps = 10/101 (9%) Query: 599 ILAIEEKKNREISLEISPQYLLLEAEKRLYAVISDFGTHIQESMDHKRYHQIGDLLHSIC 658 +I K + ++S E+ L + DF + E+ + + H + L + Sbjct: 480 AHSILRKAGEWGAPDLS---QATPYERALALDLLDFEEAVLEAAEERTPHVLAQYLLDLA 536 Query: 659 -------EPIEIFFDQVLVNVDDREVRDNRLSLLQYIKNII 692 E V +R+ RLSL+Q ++ + Sbjct: 537 ASWNAYYNARENGQPATPVLTAPEGLRELRLSLVQSLQRTL 577 >2z1a_A 5'-nucleotidase; metal-binding, nucleotide-binding, hydrolase, structural genomics, NPPSFA; HET: THM; 1.75A {Thermus thermophilus HB8} SCOP: d.114.1.1 d.159.1.2 Length = 552 Score = 33.0 bits (74), Expect = 0.22 Identities = 34/199 (17%), Positives = 62/199 (31%), Gaps = 29/199 (14%) Query: 291 VTRTREGVLANCFILVSNIQASDGGAAIVQGNSRVVAARLEDALHFWKRDQNNLPNL--- 347 V R RE L N + + G I N + A + + LP Sbjct: 347 VVRRRESNLGNLITDGMLWKTRNAGTQIALQNGGGIRASIPKGPITVGKVYEVLPFGNTL 406 Query: 348 -------SSLKESALKFNLDLSKPLDQRMARLDMLDVVFHAKIGTQGERVSRIRVLGKKI 400 + AL+ + + R ++ L F G RV R+ V +K Sbjct: 407 VVMDLKGKEILA-ALENGVSQWENTAGRFLQVSGLRYAFDLS-RPAGSRVVRVEVKTEKG 464 Query: 401 AQLIDAD----VALVDRAIVLSKADLCTEIVREFPELQGKIGKEYAVLQNENISCCDAIE 456 +D + V + + + + D F L+ G + S ++ Sbjct: 465 YVPLDLEATYRVVVNN--FIANGGD-------GFTVLKEAQGYRV----DTGFSDAESFM 511 Query: 457 EHLKPRGPLENVPTNKISI 475 ++LK +E +I + Sbjct: 512 DYLKELKVVEAGLEGRIEV 530 >1woj_A CNP, cnpase, 2',3'-cyclic-nucleotide 3'-phosphodiesterase; hydrolase; 1.80A {Homo sapiens} PDB: 2ilx_A Length = 214 Score = 31.0 bits (70), Expect = 1.1 Identities = 18/75 (24%), Positives = 33/75 (44%), Gaps = 4/75 (5%) Query: 323 SRVVAARL---EDALHFWKRDQNNLPNLSSL-KESALKFNLDLSKPLDQRMARLDMLDVV 378 + AR+ E L W D + L +L + S L + ++ LD+L+++ Sbjct: 108 PKTTGARVELSEQQLQLWPSDVDKLSPTDNLPRGSRAHITLGCAADVEAVQTGLDLLEIL 167 Query: 379 FHAKIGTQGERVSRI 393 K G++GE V + Sbjct: 168 RQEKGGSRGEEVGEL 182 >1q87_A 39 kDa initiator binding protein; INR, core promoter, DNA binding protein; 2.32A {Trichomonas vaginalis} SCOP: e.47.1.1 PDB: 1q88_A 1q89_A Length = 221 Score = 30.0 bits (67), Expect = 1.7 Identities = 13/67 (19%), Positives = 24/67 (35%), Gaps = 6/67 (8%) Query: 514 RIILENKIDIPLSQFIEDQNLILFFHDRLKLYLHDRDIRHDLIEAILRPENDNLLTIVDL 573 R+ + + IE + K + ++I AI+ P+ + + DL Sbjct: 45 RLTQKTDGTVMRDFLIEKAA------EYFKQPEQPKQNAIEVISAIMAPQEEQTKSKADL 98 Query: 574 IKHLNEF 580 K L F Sbjct: 99 YKFLAMF 105 >2g5f_A COG0147: anthranilate/para-aminobenzoate synthases component I; beta sandwhich, structural genomics, PSI; 1.80A {Mycobacterium tuberculosis H37RV} SCOP: d.161.1.1 PDB: 2i6y_A Length = 450 Score = 29.0 bits (64), Expect = 3.1 Identities = 7/56 (12%), Positives = 19/56 (33%), Gaps = 1/56 (1%) Query: 512 IIRIILENKIDIPLSQFIEDQNLILFFHDRLKLYLHDRDIRHDLIEAILRPENDNL 567 + PL++ + I+ ++L+ R + I+ +L + Sbjct: 118 RYGLQQRLAPHTPLARVFSPRTRIMVSEKEIRLFDAGIRHR-EAIDRLLATGVREV 172 >2pml_X PFPK7, Ser/Thr protein kinase; phosphorylation, transferase; HET: ANP; 2.60A {Plasmodium falciparum} PDB: 2pmn_X* 2pmo_X* Length = 348 Score = 28.9 bits (64), Expect = 4.1 Identities = 20/99 (20%), Positives = 40/99 (40%), Gaps = 4/99 (4%) Query: 500 KDPYALRRATLGIIRIILENKIDIPLSQFIEDQNLILFFHDRLKLYLHDRDIRHDLIEAI 559 P++L+ + + + I I+ PL + L +L + DI D ++ Sbjct: 249 VVPFSLKISLVELFNNIRTKNIEYPLDRNHFLYPLTNKKSTCSNNFLSNEDI--DFLKLF 306 Query: 560 LRPENDNLLTIVDLIKHLNEFFSSAKGEKFLLSAKRIFQ 598 LR +T D +KH E+ + E +K +++ Sbjct: 307 LRKNPAERITSEDALKH--EWLADTNIEDLREFSKELYK 343 >3lls_A 3-ketoacyl-(acyl-carrier-protein) reductase; niaid, emerald biostructures, UW, SBRI, oxidoreductase, structural genomics; 2.40A {Mycobacterium tuberculosis} Length = 475 Score = 28.7 bits (64), Expect = 4.6 Identities = 22/102 (21%), Positives = 37/102 (36%), Gaps = 7/102 (6%) Query: 315 GAAIVQGNSRVVAARLEDALHFWKRDQNNLPNLSSLKESALKFNL-DLSKPLDQRMARLD 373 G+ ++ G RVV + NNL + L F+ +++P A L Sbjct: 67 GSLLIGGAGRVVEPLRAALEKDYDLVGNNLGGRWADSFGGLVFDATGITEP-----AGLK 121 Query: 374 MLDVVFHAKIGTQGERVSRIRVLGKKIAQLIDADVALVDRAI 415 L F + G R R+ V+G + + RA+ Sbjct: 122 GLHEFFTPVLRNLG-RCGRVVVVGGTPEAAASTNERIAQRAL 162 >1muk_A Minor core protein lambda 3; single subunit polymerase fold, fingers, PALM, thumb, right hand configuration, viral protein; 2.50A {Reovirus SP} SCOP: e.8.1.4 PDB: 1mwh_A* 1n1h_A* 1n35_A* 1n38_A* 1uon_A* 2cse_1 Length = 1267 Score = 28.4 bits (63), Expect = 5.7 Identities = 16/61 (26%), Positives = 24/61 (39%), Gaps = 1/61 (1%) Query: 136 PWPKSMRWSTTHSPISAFSWIRPLKSILCILVAEDAKEKIIDLDLKEIPCGNITYGHRFH 195 PK R T P W+R + L + A +D+ L++I G + G RF Sbjct: 1199 LLPKDGRHLNTDIP-PRMGWLRAILRFLGAGMVMTATGVAVDIYLEDIHGGGRSLGQRFM 1257 Query: 196 A 196 Sbjct: 1258 T 1258 >1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154 Score = 28.0 bits (61), Expect = 7.4 Identities = 14/57 (24%), Positives = 19/57 (33%), Gaps = 27/57 (47%) Query: 587 EKFLLSAKRIFQILAIEEKKNREISLEISPQYLLLEAEKRLYAVISDFGTHIQESMD 643 EK Q L KK L+A +LYA S I+ +M+ Sbjct: 18 EK---------QAL----KK--------------LQASLKLYADDSAPALAIKATME 47 Score = 27.7 bits (60), Expect = 9.2 Identities = 7/18 (38%), Positives = 11/18 (61%), Gaps = 2/18 (11%) Query: 349 SLK--ESALKFNLDLSKP 364 +LK +++LK D S P Sbjct: 21 ALKKLQASLKLYADDSAP 38 >1j1b_A Glycogen synthase kinase-3 beta; complex, TAU, AMPPNP, transferase; HET: ANP; 1.80A {Homo sapiens} SCOP: d.144.1.7 PDB: 1i09_A* 1j1c_A* 2jld_A* 3du8_A* 1pyx_A* 1q41_A* 1q3w_A* 1q3d_A* 1q4l_A* 1q5k_A* 3i4b_A* 1r0e_A* 1gng_A* 2o5k_A* 2ow3_A* 3f7z_A* 1h8f_A* 3f88_A* 1uv5_A* 1o9u_A* Length = 420 Score = 27.9 bits (61), Expect = 7.9 Identities = 13/68 (19%), Positives = 21/68 (30%), Gaps = 6/68 (8%) Query: 554 DLIEAILRPENDNLLTIVDLIKHLNEFFSSAKGEKFLLSAKR----IFQILAIEEKKNRE 609 L +L LT ++ H FF + L R +F E N Sbjct: 315 ALCSRLLEYTPTARLTPLEACAH--SFFDELRDPNVKLPNGRDTPALFNFTTQELSSNPP 372 Query: 610 ISLEISPQ 617 ++ + P Sbjct: 373 LATILIPP 380 >1ri5_A MRNA capping enzyme; methyltransferase, M7G, messenger RNA CAP, structural genomics, PSI, protein structure initiative; 2.10A {Encephalitozoon cuniculi} SCOP: c.66.1.34 PDB: 1ri2_A* 1ri3_A* 1ri1_A* 1ri4_A 1z3c_A* 2hv9_A* Length = 298 Score = 27.6 bits (60), Expect = 9.9 Identities = 13/80 (16%), Positives = 28/80 (35%), Gaps = 4/80 (5%) Query: 172 KEKIIDLDLKEIPCGNITYGHRFHAPHPIKVQSLDHYIRDLEEAMVLLDPECRRNAILND 231 ++ I++ K+ N Y + ++S+ Y L +++ Sbjct: 177 RDVILER-YKQGRMSNDFYKIELEKMEDVPMESVREYRFTLLDSVNNCIEYFVD---FTR 232 Query: 232 AHRLASAVGLELVEDKDLLE 251 +GL LVE K ++ Sbjct: 233 MVDGFKRLGLSLVERKGFID 252 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 0.322 0.140 0.406 Gapped Lambda K H 0.267 0.0594 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 6,189,846 Number of extensions: 307260 Number of successful extensions: 1025 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1020 Number of HSP's successfully gapped: 34 Length of query: 702 Length of database: 5,693,230 Length adjustment: 99 Effective length of query: 603 Effective length of database: 3,293,074 Effective search space: 1985723622 Effective search space used: 1985723622 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 60 (27.2 bits)