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= 025103
         (258 letters)

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

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



>pdb|3H5K|A Chain A, Crystal Structure Of The Ribosome Inactivating Protein
           Pdl1
 pdb|3H5K|B Chain B, Crystal Structure Of The Ribosome Inactivating Protein
           Pdl1
 pdb|3LE7|A Chain A, Crystal Structure Of Pd-L1 From P. Dioica In Complex With
           Adenine
 pdb|3LE7|B Chain B, Crystal Structure Of Pd-L1 From P. Dioica In Complex With
           Adenine
          Length = 261

 Score = 29.6 bits (65), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 24/94 (25%), Positives = 44/94 (46%), Gaps = 7/94 (7%)

Query: 74  GSVAGEDVKMASFVDEINAYTYLYPMELPSKKFLFKWVESRKPERYSSAAPLSPNARLRI 133
           G ++G+    +SF D+  A   L  +++ S+   FK++E++    ++     SPN ++  
Sbjct: 149 GKISGQ----SSFTDKTEAKFLLVAIQMVSEAARFKYIENQVKTNFNR--DFSPNDKILD 202

Query: 134 VSERVDIIDNLIISVTIGP-PNVQFLKSKDKSTW 166
           + E    I   I   T G  P    LK+ D + W
Sbjct: 203 LEENWGKISTAIHDATNGALPKPLELKNADGTKW 236


  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    0.132    0.396 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,603,342
Number of Sequences: 62578
Number of extensions: 229246
Number of successful extensions: 477
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 476
Number of HSP's gapped (non-prelim): 4
length of query: 258
length of database: 14,973,337
effective HSP length: 97
effective length of query: 161
effective length of database: 8,903,271
effective search space: 1433426631
effective search space used: 1433426631
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: 50 (23.9 bits)