RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780431|ref|YP_003064844.1| hypothetical protein
CLIBASIA_01580 [Candidatus Liberibacter asiaticus str. psy62]
         (178 letters)



>3ebe_A Protein MCM10 homolog; OB-fold, zinc finger, CCCH, DNA replication,
           metal-binding, nucleus, zinc, zinc-finger; 2.30A
           {Xenopus laevis} PDB: 3h15_A
          Length = 200

 Score = 27.8 bits (62), Expect = 1.3
 Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 11/43 (25%)

Query: 140 KDFSFCGS-----DVCN------DSPYCDYHKKLAYQRVNDRR 171
            D   C +     D C       D  YC YH +  Y++V+ +R
Sbjct: 149 VDLGTCKARKKNGDPCTQMVNLNDCEYCQYHVQAQYKKVSSKR 191


>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 = 26.1 bits (57), Expect = 4.6
 Identities = 11/51 (21%), Positives = 28/51 (54%), Gaps = 6/51 (11%)

Query: 60   NRKNVTL---GSTSPKTRQSSNVYICEPVLKGQLPVVRSKRKSKSMEKNNT 107
            N  N+T+   G    + R++ +  I E ++ G+L   ++++  K + +++T
Sbjct: 1668 NPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKL---KTEKIFKEINEHST 1715


>2q1z_A RPOE, ECF SIGE; ECF sigma factor, cupin fold, zinc binding
           transcription factor; 2.40A {Rhodobacter sphaeroides 2}
           PDB: 2z2s_A
          Length = 184

 Score = 25.7 bits (55), Expect = 5.4
 Identities = 3/42 (7%), Positives = 16/42 (38%), Gaps = 1/42 (2%)

Query: 1   MVWTVERIDKLKKFWSEGLSASQIAVQLGGVTRNAVIGKLHR 42
                 +   +++ +   L+  ++A +  G+    +  ++  
Sbjct: 134 ARLPEAQRALIERAFFGDLTHRELAAET-GLPLGTIKSRIRL 174


>3hug_A RNA polymerase sigma factor; ECF sigma factor, zinc binding
          anti-sigma factor, oxidative stress, transcription
          regulation; 2.35A {Mycobacterium tuberculosis}
          Length = 92

 Score = 25.7 bits (57), Expect = 6.3
 Identities = 10/26 (38%), Positives = 13/26 (50%), Gaps = 1/26 (3%)

Query: 17 EGLSASQIAVQLGGVTRNAVIGKLHR 42
           G S +QIA  L G+    V  +LH 
Sbjct: 52 RGWSTAQIATDL-GIAEGTVKSRLHY 76


  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
   0.317    0.132    0.395 

Gapped
Lambda     K      H
   0.267   0.0733    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,418,874
Number of extensions: 57255
Number of successful extensions: 128
Number of sequences better than 10.0: 1
Number of HSP's gapped: 128
Number of HSP's successfully gapped: 8
Length of query: 178
Length of database: 5,693,230
Length adjustment: 86
Effective length of query: 92
Effective length of database: 3,608,246
Effective search space: 331958632
Effective search space used: 331958632
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.2 bits)