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= 030030
         (184 letters)

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

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



>pdb|2Q6D|A Chain A, Crystal Structure Of Infectious Bronchitis Virus (Ibv)
           Main Protease
 pdb|2Q6D|B Chain B, Crystal Structure Of Infectious Bronchitis Virus (Ibv)
           Main Protease
 pdb|2Q6D|C Chain C, Crystal Structure Of Infectious Bronchitis Virus (Ibv)
           Main Protease
 pdb|2Q6F|A Chain A, Crystal Structure Of Infectious Bronchitis Virus (Ibv)
           Main Protease In Complex With A Michael Acceptor
           Inhibitor N3
 pdb|2Q6F|B Chain B, Crystal Structure Of Infectious Bronchitis Virus (Ibv)
           Main Protease In Complex With A Michael Acceptor
           Inhibitor N3
          Length = 309

 Score = 29.6 bits (65), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 26/104 (25%), Positives = 49/104 (47%), Gaps = 9/104 (8%)

Query: 25  CGACNAVAEELERGLSKEKTRNHLDLRHRL----DSKGQREGKLIDYRVSELRVVELLDG 80
            GAC +V   +E+G+      +HL+L + L    D  G+  G  +D  V++ RV    D 
Sbjct: 142 AGACGSVGFNIEKGVVNFFYMHHLELPNALHTGTDLMGEFYGGYVDEEVAQ-RVPP--DN 198

Query: 81  LC-DKMQDYTLEKIDSTRQDWIRVDNW-ENLSISKQEAKAYAND 122
           L  + +  +    I S ++       W E+ ++S ++   +A+D
Sbjct: 199 LVTNNIVAWLYAAIISVKESSFSQPKWLESTTVSIEDYNRWASD 242


  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    0.131    0.369 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,069,625
Number of Sequences: 62578
Number of extensions: 190974
Number of successful extensions: 442
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 441
Number of HSP's gapped (non-prelim): 6
length of query: 184
length of database: 14,973,337
effective HSP length: 93
effective length of query: 91
effective length of database: 9,153,583
effective search space: 832976053
effective search space used: 832976053
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 48 (23.1 bits)