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= psy13226
         (218 letters)

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

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



>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
            Domain
 pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
            Domain
          Length = 3245

 Score = 27.7 bits (60), Expect = 4.9,   Method: Composition-based stats.
 Identities = 17/101 (16%), Positives = 57/101 (56%), Gaps = 3/101 (2%)

Query: 6    ERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQ 65
            E Q + +++   +K ++++VK E+  QK+  KQ  + Q+    +++  ++++++ + + +
Sbjct: 1933 EAQVKDLQVSLAQKNRELDVKNEQANQKL--KQMVQDQQAAEIKQKDARELQVQLDVRNK 1990

Query: 66   KMEVKEERQGQKMRIKQERKGQKMEVKE-ERQGQKMRIKQE 105
            ++ V++ +    +   +     + EV++ E    ++++KQ+
Sbjct: 1991 EIAVQKVKAYADLEKAEPTGPLREEVEQLENAANELKLKQD 2031


  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
   0.308    0.125    0.308 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,010,864
Number of Sequences: 62578
Number of extensions: 149518
Number of successful extensions: 843
Number of sequences better than 100.0: 39
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 500
Number of HSP's gapped (non-prelim): 255
length of query: 218
length of database: 14,973,337
effective HSP length: 95
effective length of query: 123
effective length of database: 9,028,427
effective search space: 1110496521
effective search space used: 1110496521
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 49 (23.5 bits)