RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780688|ref|YP_003065101.1| putative flagellar motor switch protein [Candidatus Liberibacter asiaticus str. psy62] (147 letters) >1o6a_A Putative flagelar motor switch protein FLIN; TM0680A, C- terminal proteolytic fragment of TM0680A, structural genomics, JCSG, PSI; 1.85A {Thermotoga maritima} SCOP: b.139.1.1 PDB: 1yab_A Length = 96 Score = 75.1 bits (185), Expect = 5e-15 Identities = 31/85 (36%), Positives = 56/85 (65%), Gaps = 3/85 (3%) Query: 63 EKSTDNFDLIMNIPVKMQIILGSCCMQISNLVNLSKGDVITLDKRVGESVDITINNQKIA 122 E +D +L+++IP+K+ + LG M + ++ + G +I LDK GE VDI +N + IA Sbjct: 7 EVPSDKLELLLDIPLKVTVELGRTRMTLKRVLEMIHGSIIELDKLTGEPVDILVNGKLIA 66 Query: 123 KGEITIMEEDDTHFGVRVIEILNAQ 147 +GE+ +++E +FGVR+ EI++ + Sbjct: 67 RGEVVVIDE---NFGVRITEIVSPK 88 >1o9y_A HRCQ2; secretory protein, HRP, type III secretion system, phytopathogenicity; 2.29A {Pseudomonas syringae} SCOP: b.139.1.1 Length = 84 Score = 62.5 bits (152), Expect = 4e-11 Identities = 11/78 (14%), Positives = 33/78 (42%), Gaps = 3/78 (3%) Query: 67 DNFDLIMNIPVKMQIILGSCCMQISNLVNLSKGDVITLDKRVGESVDITINNQKIAKGEI 126 D + ++ + + + G + ++ L L G ++ + + Q +A+GE+ Sbjct: 7 DEPPALDSLALDLTLRCGELRLTLAELRRLDAGTILEVTGISPGHATLCHGEQVVAEGEL 66 Query: 127 TIMEEDDTHFGVRVIEIL 144 +E G+++ ++ Sbjct: 67 VDVEG---RLGLQITRLV 81 >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 = 31.1 bits (70), Expect = 0.093 Identities = 24/88 (27%), Positives = 33/88 (37%), Gaps = 33/88 (37%) Query: 64 KSTDNF---DLIMNIPVKMQIILGSCCMQISNLVNLSKGDVITLDKRVGES--------- 111 K T F D+++N PV + I G KG KR+ E+ Sbjct: 1654 KDTYGFSILDIVINNPVNLTIHFGG-----------EKG------KRIRENYSAMIFETI 1696 Query: 112 VDITINNQKIAKGEITIMEEDDTHFGVR 139 VD + +KI K EI E T + R Sbjct: 1697 VDGKLKTEKIFK-EIN---EHSTSYTFR 1720 Score = 29.5 bits (66), Expect = 0.29 Identities = 28/161 (17%), Positives = 48/161 (29%), Gaps = 62/161 (38%) Query: 6 SKISYIKDNLEGRSMHIDN---PLQDTNVSSP------TNNSEMLIQKNDVDNISEPISS 56 S+I + + R + N P V+SP S+++ D+ + ++ Sbjct: 405 SRIPFSE-----RKLKFSNRFLP-----VASPFHSHLLVPASDLI--NKDLVKNNVSFNA 452 Query: 57 DSNNI----------LEKSTDNFDLIMNIP--VKMQIILGSCCMQI--SNLVNLSKGDVI 102 I L + + I V I + + Sbjct: 453 KDIQIPVYDTFDGSDLRVLSGS---I--SERIVDC--I---IRLPVKWETTTQFK----A 498 Query: 103 T--LDKRVGESVDITINNQKIAKGEITIMEEDDTHFGVRVI 141 T LD G + + G +T +D T GVRVI Sbjct: 499 THILDFGPGGASGL---------GVLTHRNKDGT--GVRVI 528 >1zdv_A Outer membrane usher protein FIMD; beta sheet, alpha helix, membrane protein; NMR {Escherichia coli} SCOP: b.167.1.1 Length = 115 Score = 26.4 bits (58), Expect = 2.9 Identities = 8/23 (34%), Positives = 12/23 (52%) Query: 111 SVDITINNQKIAKGEITIMEEDD 133 VDI +NN +A ++T D Sbjct: 10 RVDIYLNNGYMATRDVTFNTGDS 32 >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 = 25.9 bits (56), Expect = 3.2 Identities = 24/113 (21%), Positives = 40/113 (35%), Gaps = 23/113 (20%) Query: 30 NVSSPTNNSEMLIQKNDVDNISEPISSDSNNILEKSTDNFDLIM--NIPVKMQI-ILGSC 86 N+ + +N E +S P ++ N +E +IM ++ +KM + I G Sbjct: 1146 NMKATSNTLEEFEHGRTPAEMSRPATTTRNGFMEAQGAGIQIIMQADLALKMGVPIYGIV 1205 Query: 87 CMQISNLVNLSKGDVITLDKRVGESVDITINNQKIAKGEITIMEEDDTHFGVR 139 M T ++G SV KG +T E H V+ Sbjct: 1206 AM------------AATATDKIGRSVPAP------GKGILTTAREH--HSSVK 1238 >3c9g_A UPF0200/UPF0201 protein AF_1395; uncharacterized UPF0201 protein AF_135, structural genomics, PSI-II, dimer; 2.30A {Archaeoglobus fulgidus dsm 4304} Length = 142 Score = 25.8 bits (57), Expect = 4.2 Identities = 9/39 (23%), Positives = 16/39 (41%), Gaps = 1/39 (2%) Query: 104 LDKRV-GESVDITINNQKIAKGEITIMEEDDTHFGVRVI 141 + K G+ V I +N Q I +E+ ++V Sbjct: 73 ILKGRNGKEVTIYLNKQTATVSRINFCDENAVLSPIKVT 111 >2c0y_A Procathepsin S; proenzyme, proteinase, hydrolase, thiol protease, prosegment binding loop, glycoprotein, lysosome, protease, zymogen; 2.1A {Homo sapiens} Length = 315 Score = 25.0 bits (53), Expect = 6.4 Identities = 10/37 (27%), Positives = 14/37 (37%) Query: 51 SEPISSDSNNILEKSTDNFDLIMNIPVKMQIILGSCC 87 + S+ N IL S D + VK Q G+ Sbjct: 88 NITYKSNPNRILPDSVDWREKGCVTEVKYQGSCGAAW 124 >3bwu_D FIMD, outer membrane usher protein FIMD, N-terminal domain; usher, N-terminal domain, ternary complex with chaperone and pilus subunit, chaperone, structural protein, mebrane protein; 1.76A {Escherichia coli K12} SCOP: b.167.1.1 PDB: 1ze3_D 1zdx_A Length = 125 Score = 24.8 bits (54), Expect = 8.3 Identities = 8/23 (34%), Positives = 12/23 (52%) Query: 111 SVDITINNQKIAKGEITIMEEDD 133 VDI +NN +A ++T D Sbjct: 34 RVDIYLNNGYMATRDVTFNTGDS 56 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 0.313 0.131 0.351 Gapped Lambda K H 0.267 0.0600 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,146,632 Number of extensions: 47438 Number of successful extensions: 127 Number of sequences better than 10.0: 1 Number of HSP's gapped: 127 Number of HSP's successfully gapped: 20 Length of query: 147 Length of database: 5,693,230 Length adjustment: 84 Effective length of query: 63 Effective length of database: 3,656,734 Effective search space: 230374242 Effective search space used: 230374242 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 52 (24.1 bits)