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= 003920
         (786 letters)

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

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



>pdb|2JNZ|A Chain A, Solution Structure Of Phl P 3, A Major Allergen From
          Timothy Grass Pollen
          Length = 108

 Score = 30.4 bits (67), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 16/48 (33%), Positives = 27/48 (56%)

Query: 11 KRGSVQVDYLINLQEIRPCSLLKEVSLDKDGSETFSELTNEGNDEECE 58
          ++GS     +++++  RP   L EV L + GSE +  LT +GN  E +
Sbjct: 20 QKGSDPKKLVLDIKYTRPGDSLAEVELRQHGSEEWEPLTKKGNVWEVK 67


>pdb|3FT1|A Chain A, Crystal Structure Of Pollen Allergen Phl P 3
 pdb|3FT1|B Chain B, Crystal Structure Of Pollen Allergen Phl P 3
 pdb|3FT1|C Chain C, Crystal Structure Of Pollen Allergen Phl P 3
 pdb|3FT1|D Chain D, Crystal Structure Of Pollen Allergen Phl P 3
 pdb|3FT9|A Chain A, X-Ray Crystal Structure Of Pollen Allergen - Phl P 3
          Length = 100

 Score = 30.0 bits (66), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 16/48 (33%), Positives = 27/48 (56%)

Query: 11 KRGSVQVDYLINLQEIRPCSLLKEVSLDKDGSETFSELTNEGNDEECE 58
          ++GS     +++++  RP   L EV L + GSE +  LT +GN  E +
Sbjct: 9  QKGSDPKKLVLDIKYTRPGDSLAEVELRQHGSEEWEPLTKKGNVWEVK 56


  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
   0.314    0.132    0.388 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,420,502
Number of Sequences: 62578
Number of extensions: 915556
Number of successful extensions: 1305
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1302
Number of HSP's gapped (non-prelim): 3
length of query: 786
length of database: 14,973,337
effective HSP length: 107
effective length of query: 679
effective length of database: 8,277,491
effective search space: 5620416389
effective search space used: 5620416389
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.8 bits)