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= 048146
         (401 letters)

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

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



>pdb|3VO8|A Chain A, Staphylococcus Aureus Ftsz Gdp-Form
 pdb|3VO8|B Chain B, Staphylococcus Aureus Ftsz Gdp-Form
          Length = 392

 Score = 33.5 bits (75), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 15/34 (44%), Positives = 22/34 (64%), Gaps = 2/34 (5%)

Query: 278 IYTTLINPLTKYAVIITPIATALEDTP--HLRKS 309
           I+ T+INP  +  +++T IAT  +D P  H RKS
Sbjct: 295 IFGTVINPELQDEIVVTVIATGFDDKPTSHGRKS 328


>pdb|4DXD|A Chain A, Staphylococcal Aureus Ftsz In Complex With 723
          Length = 396

 Score = 33.5 bits (75), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 15/34 (44%), Positives = 22/34 (64%), Gaps = 2/34 (5%)

Query: 278 IYTTLINPLTKYAVIITPIATALEDTP--HLRKS 309
           I+ T+INP  +  +++T IAT  +D P  H RKS
Sbjct: 299 IFGTVINPELQDEIVVTVIATGFDDKPTSHGRKS 332


  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
   0.328    0.143    0.435 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,160,230
Number of Sequences: 62578
Number of extensions: 380142
Number of successful extensions: 823
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 823
Number of HSP's gapped (non-prelim): 4
length of query: 401
length of database: 14,973,337
effective HSP length: 101
effective length of query: 300
effective length of database: 8,652,959
effective search space: 2595887700
effective search space used: 2595887700
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (24.6 bits)