RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

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

Query= psy16178
         (73 letters)



>gnl|CDD|217163 pfam02646, RmuC, RmuC family.  This family contains several
           bacterial RmuC DNA recombination proteins. The function
           of the RMUC protein is unknown but it is suspected that
           it is either a structural protein that protects DNA
           against nuclease action, or is itself involved in DNA
           cleavage at the regions of DNA secondary structures.
          Length = 301

 Score = 30.3 bits (69), Expect = 0.053
 Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 8/56 (14%)

Query: 4   RALRAARAKELVHFKSISSK----LVPFINTVAVYFILFLPSDEPSLFALLIKCLP 55
            AL+A      +H K +S K    L+    T  V  I+FLP++    FA  I+  P
Sbjct: 141 AALKALVRSIRIHIKDLSEKDYWDLIGPETTDFV--IMFLPTE--GAFAEAIRADP 192


>gnl|CDD|235029 PRK02308, uvsE, putative UV damage endonuclease; Provisional.
          Length = 303

 Score = 24.1 bits (53), Expect = 8.6
 Identities = 8/25 (32%), Positives = 12/25 (48%), Gaps = 1/25 (4%)

Query: 3  LRALRAARAKELVHFKSISSKLVPF 27
          LR L+   A   +    +SS L+P 
Sbjct: 51 LRILKYNIAHG-IGLFRLSSSLIPL 74


  Database: CDD.v3.10
    Posted date:  Mar 20, 2013  7:55 AM
  Number of letters in database: 10,937,602
  Number of sequences in database:  44,354
  
Lambda     K      H
   0.333    0.146    0.425 

Gapped
Lambda     K      H
   0.267   0.0729    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,747,712
Number of extensions: 295146
Number of successful extensions: 425
Number of sequences better than 10.0: 1
Number of HSP's gapped: 424
Number of HSP's successfully gapped: 23
Length of query: 73
Length of database: 10,937,602
Length adjustment: 43
Effective length of query: 30
Effective length of database: 9,030,380
Effective search space: 270911400
Effective search space used: 270911400
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (22.0 bits)
S2: 53 (24.2 bits)