RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= gi|254780304|ref|YP_003064717.1| DNA protecting protein DprA
[Candidatus Liberibacter asiaticus str. psy62]
         (34 letters)



>gnl|CDD|129815 TIGR00732, dprA, DNA protecting protein DprA.  Disruption of this
           gene in both Haemophilus influenzae and Helicobacter
           pylori drastically reduces the efficiency of
           transformation with exogenous DNA, but with different
           levels of effect on chromosomal (linear) and plasmid
           (circular) DNA. This difference suggests the DprA is not
           active in recombination, and it has been shown not to
           affect DNA binding, leaving the intermediate step in
           natural transformation, DNA processing. In Strep.
           pneumoniae, inactivation of dprA had no effect on the
           uptake of DNA. All of these data indicated that DprA is
           required at a later stage in transformation.
           Subsequently DprA and RecA were both shown in S.
           pneumoniae to be required to protect incoming ssDNA from
           immediate degradation. Role of DprA in non-transformable
           species is not known. The gene symbol smf was assigned
           in E. coli, but without assignment of function.
          Length = 220

 Score = 36.9 bits (86), Expect = 0.001
 Identities = 14/32 (43%), Positives = 21/32 (65%)

Query: 1   MAGGLDCLYPPENRNLLEEIWDNGGIAISEIP 32
           +  GLD +YP +N  L  +I +NGG+ +SE P
Sbjct: 104 LGTGLDQIYPRQNSKLAAKIAENGGLLLSEYP 135


>gnl|CDD|182686 PRK10736, PRK10736, hypothetical protein; Provisional.
          Length = 374

 Score = 30.7 bits (70), Expect = 0.089
 Identities = 12/30 (40%), Positives = 17/30 (56%)

Query: 4   GLDCLYPPENRNLLEEIWDNGGIAISEIPF 33
           GL+ +YP  +  L E I + GG  +SE P 
Sbjct: 170 GLENIYPRRHARLAESIIEQGGALVSEFPL 199


>gnl|CDD|128765 smart00489, DEXDc3, DEAD-like helicases superfamily. 
          Length = 289

 Score = 25.4 bits (56), Expect = 3.7
 Identities = 10/27 (37%), Positives = 12/27 (44%), Gaps = 3/27 (11%)

Query: 11 PENRNLLEEIW---DNGGIAISEIPFG 34
          P     +EE+    D G I I E P G
Sbjct: 11 PIQYEFMEELKRVLDRGKIGILESPTG 37


>gnl|CDD|128764 smart00488, DEXDc2, DEAD-like helicases superfamily. 
          Length = 289

 Score = 25.4 bits (56), Expect = 3.7
 Identities = 10/27 (37%), Positives = 12/27 (44%), Gaps = 3/27 (11%)

Query: 11 PENRNLLEEIW---DNGGIAISEIPFG 34
          P     +EE+    D G I I E P G
Sbjct: 11 PIQYEFMEELKRVLDRGKIGILESPTG 37


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.318    0.147    0.481 

Gapped
Lambda     K      H
   0.267   0.0608    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 606,114
Number of extensions: 17305
Number of successful extensions: 54
Number of sequences better than 10.0: 1
Number of HSP's gapped: 54
Number of HSP's successfully gapped: 7
Length of query: 34
Length of database: 5,994,473
Length adjustment: 8
Effective length of query: 26
Effective length of database: 5,821,609
Effective search space: 151361834
Effective search space used: 151361834
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: 50 (23.3 bits)