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= 024963
         (260 letters)

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

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



>pdb|3PFO|A Chain A, Crystal Structure Of A Putative Acetylornithine
           Deacetylase (Rpa2325) From Rhodopseudomonas Palustris
           Cga009 At 1.90 A Resolution
 pdb|3PFO|B Chain B, Crystal Structure Of A Putative Acetylornithine
           Deacetylase (Rpa2325) From Rhodopseudomonas Palustris
           Cga009 At 1.90 A Resolution
          Length = 433

 Score = 29.3 bits (64), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 6/74 (8%)

Query: 188 DVDLTEKFDYSSAVALL--GFSLILAILRSFNVRDE----AARVMVAAPLLAFVTTHILY 241
           D   T+ F   +   L+  GF    A+     V ++    A +    APL A ++T +  
Sbjct: 320 DAQATDSFLSENPAELVWSGFQADPAVCEPGGVAEDVLTAAHKAAFNAPLDARLSTAVND 379

Query: 242 LNFYKLDYGIRPLC 255
             +Y +DYGI  LC
Sbjct: 380 TRYYSVDYGIPALC 393


  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
   0.329    0.142    0.483 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,096,944
Number of Sequences: 62578
Number of extensions: 323509
Number of successful extensions: 729
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 729
Number of HSP's gapped (non-prelim): 2
length of query: 260
length of database: 14,973,337
effective HSP length: 97
effective length of query: 163
effective length of database: 8,903,271
effective search space: 1451233173
effective search space used: 1451233173
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 50 (23.9 bits)