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= 041686
         (325 letters)

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

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



>pdb|2JII|A Chain A, Structure Of Vaccinia Related Kinase 3
 pdb|2JII|B Chain B, Structure Of Vaccinia Related Kinase 3
          Length = 352

 Score = 28.5 bits (62), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 2/37 (5%)

Query: 24  AWRPWPNMKHNSSEYIYGNSKKYEGSSEFVHMKYHMG 60
           A+R  P+ KH +  Y+ G+   +EG  EF+ M  H G
Sbjct: 208 AFRYCPSGKHVA--YVEGSRSPHEGDLEFISMDLHKG 242


>pdb|2H6O|A Chain A, Epstein Barr Virus Major Envelope Glycoprotein
          Length = 470

 Score = 28.1 bits (61), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 17/35 (48%), Positives = 19/35 (54%), Gaps = 2/35 (5%)

Query: 155 TARSKPLPINPKGG--LYLLLTSTDVYVQDFCGQV 187
           T RSK LPIN   G    + L S DVY QD  G +
Sbjct: 105 TMRSKKLPINITAGEEQQVSLESVDVYFQDVFGTM 139


  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
   0.320    0.135    0.442 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,347,637
Number of Sequences: 62578
Number of extensions: 352326
Number of successful extensions: 711
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: 711
Number of HSP's gapped (non-prelim): 2
length of query: 325
length of database: 14,973,337
effective HSP length: 99
effective length of query: 226
effective length of database: 8,778,115
effective search space: 1983853990
effective search space used: 1983853990
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)