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= 048418
         (798 letters)

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

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



>pdb|2O01|F Chain F, The Structure Of A Plant Photosystem I Supercomplex At 3.4
           Angstrom Resolution
 pdb|3LW5|F Chain F, Improved Model Of Plant Photosystem I
          Length = 154

 Score = 32.0 bits (71), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 28/61 (45%), Gaps = 4/61 (6%)

Query: 613 QFPPR----LTHLSFSNTELMEDPMPALEKMPLLQVLKLKQNSYSGRKLTCGSDGFPNLK 668
           QF  R    L  L  S     +D  PAL     ++  K + ++Y    L CGSDG P+L 
Sbjct: 13  QFAKREKQALKKLQASLKLYADDSAPALAIKATMEKTKKRFDNYGKYGLLCGSDGLPHLI 72

Query: 669 V 669
           V
Sbjct: 73  V 73


>pdb|2WSC|F Chain F, Improved Model Of Plant Photosystem I
 pdb|2WSE|F Chain F, Improved Model Of Plant Photosystem I
 pdb|2WSF|F Chain F, Improved Model Of Plant Photosystem I
          Length = 231

 Score = 30.8 bits (68), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 28/61 (45%), Gaps = 4/61 (6%)

Query: 613 QFPPR----LTHLSFSNTELMEDPMPALEKMPLLQVLKLKQNSYSGRKLTCGSDGFPNLK 668
           QF  R    L  L  S     +D  PAL     ++  K + ++Y    L CGSDG P+L 
Sbjct: 90  QFAKREKQALKKLQASLKLYADDSAPALAIKATMEKTKKRFDNYGKYGLLCGSDGLPHLI 149

Query: 669 V 669
           V
Sbjct: 150 V 150


  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
   0.322    0.138    0.434 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,968,631
Number of Sequences: 62578
Number of extensions: 860060
Number of successful extensions: 1479
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1475
Number of HSP's gapped (non-prelim): 6
length of query: 798
length of database: 14,973,337
effective HSP length: 107
effective length of query: 691
effective length of database: 8,277,491
effective search space: 5719746281
effective search space used: 5719746281
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)