RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781134|ref|YP_003065547.1| hypothetical protein
CLIBASIA_05180 [Candidatus Liberibacter asiaticus str. psy62]
         (320 letters)



>gnl|CDD|184752 PRK14573, PRK14573, bifunctional D-alanyl-alanine synthetase
           A/UDP-N-acetylmuramate--L-alanine ligase; Provisional.
          Length = 809

 Score = 28.6 bits (64), Expect = 2.2
 Identities = 16/59 (27%), Positives = 23/59 (38%), Gaps = 11/59 (18%)

Query: 171 FFGDYEGTFWQGD---ISGSDNARPFIGIYLSPFHAIDPRLGFQRRACVAHLSLQAYQR 226
           FF D EG FW  +   I G   A PF+  ++        R G+     V  L +    +
Sbjct: 739 FFLDEEGNFWLSEMNPIPGMTEASPFLTAFV--------RKGWTYEQIVHQLIIDGLHK 789


>gnl|CDD|163400 TIGR03688, pupylate_PafA2, proteasome accessory factor PafA2.  This
           protein family is paralogous to (and distinct from) the
           PafA (proteasome accessory factor) first described in
           Mycobacterium tuberculosis (see TIGR03686). Members of
           both this family and TIGR03686 itself tend to cluster
           with each other, with the ubiquitin analog Pup
           (TIGR03687) associated with targeting to the proteasome,
           and with proteasome subunits themselves.
          Length = 485

 Score = 27.8 bits (62), Expect = 3.5
 Identities = 11/28 (39%), Positives = 18/28 (64%), Gaps = 1/28 (3%)

Query: 233 ARANYDHSYPEFSKETISNNPMDNGIWD 260
           AR   DH++PE+S   ++ NP D  ++D
Sbjct: 89  ARFYVDHAHPEYSSPEVT-NPRDAVLYD 115


>gnl|CDD|129705 TIGR00618, sbcc, exonuclease SbcC.  This family is based on the
           phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
           Stanford University).
          Length = 1042

 Score = 28.0 bits (62), Expect = 3.7
 Identities = 6/28 (21%), Positives = 13/28 (46%)

Query: 81  ISMKNILLQEEKTNLPLSWPIQEQWEQA 108
           ++    LL+E +T++        + E A
Sbjct: 699 LAQCQTLLRELETHIEEYDREFNEIENA 726


>gnl|CDD|128425 smart00115, CASc, Caspase, interleukin-1 beta converting enzyme
           (ICE) homologues.  Cysteine aspartases that mediate
           programmed cell death (apoptosis). Caspases are
           synthesised as zymogens and activated by proteolysis of
           the peptide backbone adjacent to an aspartate. The
           resulting two subunits associate to form an
           (alpha)2(beta)2-tetramer which is the active enzyme.
           Activation of caspases can be mediated by other caspase
           homologues.
          Length = 241

 Score = 26.8 bits (60), Expect = 7.7
 Identities = 15/46 (32%), Positives = 20/46 (43%), Gaps = 4/46 (8%)

Query: 11  FSWSTESGDGLSTLCVFLSTLGEVAVYGGDNPDDSSSFSLKAIYHI 56
           F+   E  D  S +CV LS   E  +YG     D S   L  I+ +
Sbjct: 64  FAERPEHSDSDSFVCVLLSHGEEGGIYG----TDHSPLPLDEIFSL 105


  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
   0.320    0.135    0.432 

Gapped
Lambda     K      H
   0.267   0.0656    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,233,142
Number of extensions: 324038
Number of successful extensions: 491
Number of sequences better than 10.0: 1
Number of HSP's gapped: 491
Number of HSP's successfully gapped: 7
Length of query: 320
Length of database: 5,994,473
Length adjustment: 93
Effective length of query: 227
Effective length of database: 3,984,929
Effective search space: 904578883
Effective search space used: 904578883
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: 57 (25.9 bits)