BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 018759
         (351 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|2DC0|A Chain A, Crystal Structure Of Amidase
 pdb|2DC0|B Chain B, Crystal Structure Of Amidase
          Length = 434

 Score = 30.4 bits (67), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 35/130 (26%), Positives = 56/130 (43%), Gaps = 24/130 (18%)

Query: 100 SKVEKEDAKNQEERLSMEVRSLLVAGTALSVARKRLQESNRLLAGEKGYGHLQKLQKMLR 159
           +++ ++  K   E  S +VR  L+AG AL+               EK Y      ++ LR
Sbjct: 294 ARIHEKALKEHPEGFSPQVREALLAGLALT---------------EKDYRDAVAEREALR 338

Query: 160 MRQQFMISQV-SFLYPVKILVGPK---QEQELESFPSGNRSGNSAASKPVNPGSLTILGL 215
           +     +  V + L PV+ L  P    +E ELES   G+R      + P      ++LG+
Sbjct: 339 LELVKALRGVDALLLPVQPLPAPPLGTEEVELESGRKGHREAFITLTLP-----FSLLGV 393

Query: 216 HLTILPFTKM 225
               LPF K+
Sbjct: 394 PTLALPFAKV 403


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.316    0.131    0.366 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,019,095
Number of Sequences: 62578
Number of extensions: 276952
Number of successful extensions: 552
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 551
Number of HSP's gapped (non-prelim): 3
length of query: 351
length of database: 14,973,337
effective HSP length: 100
effective length of query: 251
effective length of database: 8,715,537
effective search space: 2187599787
effective search space used: 2187599787
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)