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= 022254
         (300 letters)

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

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



>pdb|4F6O|A Chain A, Crystal Structure Of The Yeast Metacaspase Yca1
          Length = 350

 Score = 31.6 bits (70), Expect = 0.54,   Method: Compositional matrix adjust.
 Identities = 28/104 (26%), Positives = 44/104 (42%), Gaps = 23/104 (22%)

Query: 162 VVDSGPNDHIFIFYSDHGGPG----------------VLGMPTSRYIYADELIDVLKKKH 205
           V D+ PND +F+ YS HGG                   +   T   I  DE+ D++ K  
Sbjct: 122 VKDAQPNDSLFLHYSGHGGQTEDLDGDEEDGMDDVIYPVDFETQGPIIDDEMHDIMVKPL 181

Query: 206 ASGNYKSLVFYLEACESGSIFEGLLPEGLNIYATTASNAEESSW 249
             G   + +F  ++C SG++ +  LP     Y+T     E + W
Sbjct: 182 QQGVRLTALF--DSCHSGTVLD--LPY---TYSTKGIIKEPNIW 218


>pdb|2YEW|B Chain B, Modeling Barmah Forest Virus Structural Proteins
 pdb|2YEW|E Chain E, Modeling Barmah Forest Virus Structural Proteins
 pdb|2YEW|H Chain H, Modeling Barmah Forest Virus Structural Proteins
 pdb|2YEW|K Chain K, Modeling Barmah Forest Virus Structural Proteins
          Length = 427

 Score = 30.0 bits (66), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 14/42 (33%), Positives = 24/42 (57%), Gaps = 2/42 (4%)

Query: 181 PGVLGMPTSRYIYADELIDVLKKKHASGNYKSLV--FYLEAC 220
           PG  G+P S  +   EL+  L + + + NYK++V   Y++ C
Sbjct: 21  PGYAGLPLSLVVIKSELVPSLVQDYITCNYKTVVPSPYIKCC 62


  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
   0.318    0.139    0.428 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,911,273
Number of Sequences: 62578
Number of extensions: 545121
Number of successful extensions: 1030
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1028
Number of HSP's gapped (non-prelim): 2
length of query: 300
length of database: 14,973,337
effective HSP length: 98
effective length of query: 202
effective length of database: 8,840,693
effective search space: 1785819986
effective search space used: 1785819986
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)