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= 013597
         (439 letters)

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

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



>pdb|3NA8|A Chain A, Crystal Structure Of A Putative Dihydrodipicolinate
           Synthetase From Pseudomonas Aeruginosa
 pdb|3NA8|B Chain B, Crystal Structure Of A Putative Dihydrodipicolinate
           Synthetase From Pseudomonas Aeruginosa
 pdb|3NA8|C Chain C, Crystal Structure Of A Putative Dihydrodipicolinate
           Synthetase From Pseudomonas Aeruginosa
 pdb|3NA8|D Chain D, Crystal Structure Of A Putative Dihydrodipicolinate
           Synthetase From Pseudomonas Aeruginosa
          Length = 315

 Score = 28.9 bits (63), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 26/111 (23%), Positives = 51/111 (45%), Gaps = 15/111 (13%)

Query: 9   SLAFRVMRLCRPSLHVEPPLRVDPTDLFIGEDIFDDPI------AASNLPPLIS-SDVTT 61
           +L   + RL    +H   PL       ++ +  +D+ +       A  +P ++S SD+TT
Sbjct: 46  ALGRSIERLIDGGVHAIAPLGSTGEGAYLSDPEWDEVVDFTLKTVAHRVPTIVSVSDLTT 105

Query: 62  NKSSDLTYRSRFLLHDSADSIGLSGLLVLPQAFGAIYLGETFCSYISINNS 112
            K+     R++F     A+S+G   + VLP ++  +   E F  Y ++  +
Sbjct: 106 AKT---VRRAQF-----AESLGAEAVXVLPISYWKLNEAEVFQHYRAVGEA 148


  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
   0.318    0.136    0.392 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,547,145
Number of Sequences: 62578
Number of extensions: 503163
Number of successful extensions: 1073
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: 1072
Number of HSP's gapped (non-prelim): 3
length of query: 439
length of database: 14,973,337
effective HSP length: 102
effective length of query: 337
effective length of database: 8,590,381
effective search space: 2894958397
effective search space used: 2894958397
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)