RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780209|ref|YP_003064622.1| hypothetical protein
CLIBASIA_00470 [Candidatus Liberibacter asiaticus str. psy62]
         (51 letters)



>gnl|CDD|133096 cd06238, Peptidase_M14-like_1_1, Peptidase M14-like domain of a
          functionally uncharacterized subgroup of the M14 family
          of metallocarboxypeptidases (MCPs). The M14 family are
          zinc-binding carboxypeptidases (CPs) which hydrolyze
          single, C-terminal amino acids from polypeptide chains,
          and have a recognition site for the free C-terminal
          carboxyl group, which is a key determinant of
          specificity. Two major subfamilies of the M14 family,
          defined based on sequence and structural homology, are
          the A/B and N/E subfamilies.  Enzymes belonging to the
          A/B subfamily are normally synthesized as inactive
          precursors containing preceding signal peptide,
          followed by an N-terminal pro-region linked to the
          enzyme; these proenzymes are called
          procarboxypeptidases. The A/B enzymes can be further
          divided based on their substrate specificity;
          Carboxypeptidase A-like (CPA-like) enzymes favor
          hydrophobic residues while carboxypeptidase B-like
          (CPB-like) enzymes only cleave the basic residues
          lysine or arginine. The A forms have slightly different
          specificities, with Carboxypeptidase A1 (CPA1)
          preferring aliphatic and small aromatic residues, and
          CPA2 preferring the bulky aromatic side chains. Enzymes
          belonging to the N/E subfamily enzymes are not produced
          as inactive precursors and instead rely on their
          substrate specificity and subcellular
          compartmentalization to prevent inappropriate cleavage.
          They contain an extra C-terminal transthyretin-like
          domain, thought to be involved in folding or formation
          of oligomers.  MCPs can also be classified based on
          their involvement in specific physiological processes;
          the pancreatic MCPs participate only in alimentary
          digestion and include carboxypeptidase A and B (A/B
          subfamily), while others, namely regulatory MCPs or the
          N/E subfamily, are involved in more selective
          reactions, mainly in non-digestive tissues and fluids,
          acting on blood coagulation/fibrinolysis, inflammation
          and local anaphylaxis, pro-hormone and neuropeptide
          processing, cellular response and others.   Another MCP
          subfamily, is that of succinylglutamate desuccinylase
          /aspartoacylase, which hydrolyzes N-acetyl-L-aspartate
          (NAA), and deficiency in which is the established cause
          of Canavan disease. Another subfamily (referred to as
          subfamily C) includes an exceptional type of activity
          in the MCP family, that of dipeptidyl-peptidase
          activity of gamma-glutamyl-(L)-meso-diaminopimelate
          peptidase I which is involved in bacterial cell wall
          metabolism.
          Length = 271

 Score = 25.7 bits (57), Expect = 3.3
 Identities = 7/16 (43%), Positives = 10/16 (62%)

Query: 31 SKEEQARIEQIRAEAR 46
          S E  AR++QIR +  
Sbjct: 17 SPENIARLDQIREDHL 32


  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
   0.319    0.132    0.361 

Gapped
Lambda     K      H
   0.267   0.0752    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 541,542
Number of extensions: 16801
Number of successful extensions: 82
Number of sequences better than 10.0: 1
Number of HSP's gapped: 82
Number of HSP's successfully gapped: 5
Length of query: 51
Length of database: 6,263,737
Length adjustment: 24
Effective length of query: 27
Effective length of database: 5,745,121
Effective search space: 155118267
Effective search space used: 155118267
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (23.4 bits)