RPS-BLAST 2.2.22 [Sep-27-2009]

Database: pdb70 
           24,244 sequences; 5,693,230 total letters

Searching..................................................done

Query= gi|254781081|ref|YP_003065494.1| hypothetical protein
CLIBASIA_04915 [Candidatus Liberibacter asiaticus str. psy62]
         (93 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 = 28.4 bits (63), Expect = 0.38
 Identities = 10/45 (22%), Positives = 16/45 (35%), Gaps = 12/45 (26%)

Query: 32  DELSDLTQRYD-YLLLNKHLLVDNLKSYLDKFGSLISDFHRNSES 75
           +EL DL   Y  Y      L+ D     +      +S+  R +  
Sbjct: 171 EELRDL---YQTY----HVLVGD----LIKFSAETLSELIRTTLD 204



 Score = 28.4 bits (63), Expect = 0.43
 Identities = 8/53 (15%), Positives = 19/53 (35%), Gaps = 6/53 (11%)

Query: 21 DFASDSDQITSDELSDLTQRYDYL-LLNKHLLVDNLKSYLDKFGSLISDFHRN 72
           FA+D +  T  EL        +L  ++  +    +  +       +++F   
Sbjct: 47 GFAADDEPTTPAELV-----GKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENC 94


>1r1m_A Outer membrane protein class 4; 1.90A {Neisseria meningitidis}
          SCOP: d.79.7.1
          Length = 164

 Score = 27.4 bits (60), Expect = 0.82
 Identities = 12/57 (21%), Positives = 21/57 (36%), Gaps = 1/57 (1%)

Query: 8  AYAEERYSVLLDLDFASDSDQITSDELSDLTQRYDYLLLNKHLLVDNLKSYLDKFGS 64
           Y +E  S+     F  D D + ++   +L      L       V  ++ + D  GS
Sbjct: 5  QYVDETISLSAKTLFGFDKDSLRAEAQDNLKVLAQRLSRTNIQSVR-VEGHTDFMGS 60


>2zf8_A MOTY, component of sodium-driven polar flagellar motor; beta
           barrel, 2-layer sandwich, flagellum, structural protein;
           2.85A {Vibrio alginolyticus}
          Length = 278

 Score = 26.0 bits (57), Expect = 1.8
 Identities = 10/43 (23%), Positives = 19/43 (44%)

Query: 22  FASDSDQITSDELSDLTQRYDYLLLNKHLLVDNLKSYLDKFGS 64
           +    DQ+T      L+Q  DY+  N+ + +  + +Y D    
Sbjct: 166 YERQGDQLTKASKKRLSQIADYIRHNQDIDLVLVATYTDSTDG 208


>3oon_A Outer membrane protein (TPN50); protein structure initiative,
          PSI-2, structural genomics, MI center for structural
          genomics, MCSG; 1.79A {Borrelia burgdorferi}
          Length = 123

 Score = 25.1 bits (55), Expect = 3.7
 Identities = 8/42 (19%), Positives = 16/42 (38%)

Query: 11 EERYSVLLDLDFASDSDQITSDELSDLTQRYDYLLLNKHLLV 52
           +  ++  D++F  +S QI   E   +      L   K   +
Sbjct: 10 NKGINLSFDIEFYPNSFQILQKEYKKIDLIAKLLEKFKKNNI 51


>2kgw_A Outer membrane protein A; OMPA- like, cell membrane,
          transmembrane; NMR {Mycobacterium tuberculosis}
          Length = 129

 Score = 24.7 bits (54), Expect = 4.6
 Identities = 10/43 (23%), Positives = 15/43 (34%), Gaps = 1/43 (2%)

Query: 22 FASDSDQITSDELSDLTQRYDYLLLNKHLLVDNLKSYLDKFGS 64
          F +D   +   +   L +  D L       V  +  Y D  GS
Sbjct: 28 FGNDGASLIPADYEILNRVADKLKACPDARVT-INGYTDNTGS 69


>1gtz_A 3-dehydroquinate dehydratase; lyase, type II dehydroquinase,
          shikimate pathway, dodecameric quaternary structure;
          HET: DHK; 1.6A {Streptomyces coelicolor} SCOP:
          c.23.13.1 PDB: 2bt4_A* 1v1j_A* 2cjf_A* 1d0i_A 1gu0_A
          1gu1_A*
          Length = 156

 Score = 24.7 bits (54), Expect = 5.2
 Identities = 6/30 (20%), Positives = 8/30 (26%)

Query: 51 LVDNLKSYLDKFGSLISDFHRNSESELVRC 80
          +           G  +     N E ELV  
Sbjct: 36 VEALCVKAAAAHGGTVDFRQSNHEGELVDW 65


  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
   0.311    0.129    0.346 

Gapped
Lambda     K      H
   0.267   0.0680    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 712,190
Number of extensions: 25766
Number of successful extensions: 85
Number of sequences better than 10.0: 1
Number of HSP's gapped: 84
Number of HSP's successfully gapped: 19
Length of query: 93
Length of database: 5,693,230
Length adjustment: 60
Effective length of query: 33
Effective length of database: 4,238,590
Effective search space: 139873470
Effective search space used: 139873470
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 (21.8 bits)
S2: 50 (23.1 bits)