RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

Query= gi|254781057|ref|YP_003065470.1| hypothetical protein
CLIBASIA_04795 [Candidatus Liberibacter asiaticus str. psy62]
         (43 letters)



>gnl|CDD|29561 cd00737, endolysin_autolysin, Endolysins and autolysins are found
          in viruses and bacteria, respectively. The ds DNA
          phages of eubacteria use endolysins or muralytic
          enzymes in conjunction with hollin, a small membrane
          protein, to degrade the peptidoglycan found in
          bacterial cell walls. Similarly, bacteria produce
          autolysins to facilitate the biosynthesis of its cell
          wall hetropolymer peptidoglycan and cell division.
          Both endolysin and autolysin enzymes cleave the
          glycosidic beta 1,4-bonds between the N-acetylmuramic
          acid and the N-acetylglucosamine of the peptidoglycan..
          Length = 133

 Score = 53.3 bits (128), Expect = 1e-08
 Identities = 20/35 (57%), Positives = 26/35 (74%)

Query: 7  ILNALIEITKRYEGLKLTAYRDPGGTWTIGYGHSG 41
          I  A + + KR+EG +LT Y+DP G WTIGYGH+G
Sbjct: 1  ISQAGLALIKRFEGCRLTPYKDPAGVWTIGYGHTG 35


>gnl|CDD|33567 COG3772, COG3772, Phage-related lysozyme (muraminidase) [General
          function prediction only].
          Length = 152

 Score = 50.3 bits (120), Expect = 1e-07
 Identities = 19/41 (46%), Positives = 25/41 (60%)

Query: 1  MNGSSKILNALIEITKRYEGLKLTAYRDPGGTWTIGYGHSG 41
          +   + I    I + K +EG +L  YRDP G WTIGYGH+G
Sbjct: 1  IGAMASISEIGIALIKEFEGCRLDPYRDPAGVWTIGYGHTG 41


>gnl|CDD|29559 cd00735, bacteriophage_T4-like_lysozyme, Bacteriophage T4-like
          lysozymes hydrolyse the beta-1,4-glycosidic bond
          between N-acetylmuramic acid (MurNAc) and
          N-acetylglucosamine (GlcNAc) in peptidoglycan
          heteropolymers of prokaryotic cell walls.  Members
          include a variety of bacteriophages (T4, RB49, RB69,
          Aeh1) as well as Dictyostelium. .
          Length = 164

 Score = 29.6 bits (66), Expect = 0.18
 Identities = 13/27 (48%), Positives = 17/27 (62%)

Query: 13 EITKRYEGLKLTAYRDPGGTWTIGYGH 39
          E+ ++ EGL+L  Y D  G  TIG GH
Sbjct: 4  EMLRQDEGLRLKVYWDTEGYPTIGIGH 30


>gnl|CDD|185687 cd02178, GH16_beta_agarase, Beta-agarase, member of glycosyl
          hydrolase family 16.  Beta-agarase is a glycosyl
          hydrolase family 16 (GH16) member that hydrolyzes the
          internal beta-1,4-linkage of agarose, a hydrophilic
          polysaccharide found in the cell wall of Rhodophyceaea,
          marine red algae. Agarose is a linear chain of
          galactose units linked by alternating L-alpha-1,3- and
          D-beta-1,4-linkages that are additionally modified by a
          3,6-anhydro-bridge. Agarose forms thermo-reversible
          gels that are widely used in the food industry or as a
          laboratory medium. While beta-agarases are also found
          in two other families derived from the sequence-based
          classification of glycosyl hydrolases (GH50, and GH86)
          the GH16 members are most abundant.  This domain adopts
          a curved  beta-sandwich conformation, with a
          tunnel-shaped active site cavity, referred to as a
          jellyroll fold.
          Length = 258

 Score = 25.0 bits (55), Expect = 4.1
 Identities = 8/23 (34%), Positives = 10/23 (43%)

Query: 21 LKLTAYRDPGGTWTIGYGHSGSC 43
          L L+A R PG     GY  +   
Sbjct: 67 LVLSATRHPGTELGNGYKVTTGS 89


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.315    0.136    0.424 

Gapped
Lambda     K      H
   0.267   0.0740    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 502,321
Number of extensions: 14342
Number of successful extensions: 50
Number of sequences better than 10.0: 1
Number of HSP's gapped: 50
Number of HSP's successfully gapped: 7
Length of query: 43
Length of database: 6,263,737
Length adjustment: 17
Effective length of query: 26
Effective length of database: 5,896,384
Effective search space: 153305984
Effective search space used: 153305984
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: 42 (22.0 bits)
S2: 51 (23.4 bits)