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= 041924
         (66 letters)

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

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



>pdb|2QVS|B Chain B, Crystal Structure Of Type Iia Holoenzyme Of Camp-Dependent
           Protein Kinase
          Length = 310

 Score = 26.6 bits (57), Expect = 3.5,   Method: Composition-based stats.
 Identities = 14/47 (29%), Positives = 24/47 (51%)

Query: 10  VALFSAIAFAERLHLGSLIGAFLIVVGLYCVLWGKKKDRFAVDEQKE 56
           V LF ++  +ER+ +  +IG  +   G   +  G+K D F + E  E
Sbjct: 165 VPLFKSLEMSERMKIVDVIGEKIYKDGERIIAQGEKADSFYIIESGE 211


>pdb|2ZXE|G Chain G, Crystal Structure Of The Sodium - Potassium Pump In The
          E2.2k+.Pi State
 pdb|3A3Y|G Chain G, Crystal Structure Of The Sodium-potassium Pump With
          Bound Potassium And Ouabain
          Length = 74

 Score = 25.4 bits (54), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 11/38 (28%), Positives = 23/38 (60%)

Query: 24 LGSLIGAFLIVVGLYCVLWGKKKDRFAVDEQKEDRNGT 61
          +G ++ A L V+G+  +L GK + +F  +++    +GT
Sbjct: 22 VGLIVAAVLCVIGIIILLAGKCRCKFNQNKRTRSNSGT 59


  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
   0.327    0.144    0.430 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,969,524
Number of Sequences: 62578
Number of extensions: 62840
Number of successful extensions: 111
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 107
Number of HSP's gapped (non-prelim): 4
length of query: 66
length of database: 14,973,337
effective HSP length: 37
effective length of query: 29
effective length of database: 12,657,951
effective search space: 367080579
effective search space used: 367080579
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 45 (21.9 bits)