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)