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= psy13578
         (94 letters)

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

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



>pdb|2KBV|A Chain A, Structural And Functional Analysis Of Tm Xi Of The Nhe1
          Isoform Of The Na+H+ EXCHANGER
          Length = 28

 Score = 36.6 bits (83), Expect = 0.003,   Method: Composition-based stats.
 Identities = 14/25 (56%), Positives = 21/25 (84%)

Query: 70 DKFVMCYGGLRGAVAFALVLLIDPR 94
          D+F++ YGGLRGA+AF+L  L+D +
Sbjct: 3  DQFIIAYGGLRGAIAFSLGYLLDKK 27


>pdb|2I83|A Chain A, Hyaluronan-Binding Domain Of Cd44 In Its Ligand-Bound
          Form
          Length = 160

 Score = 25.4 bits (54), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 12/38 (31%), Positives = 18/38 (47%)

Query: 27 GSKQSHVTFPGIQQNGSAKQFTSGVILLTAIVNQFRIY 64
          G  + HV  P I  N       +GV +LT+  +Q+  Y
Sbjct: 62 GFIEGHVVIPRIHPNSICAANNTGVYILTSNTSQYDTY 99


>pdb|1POZ|A Chain A, Solution Structure Of The Hyaluronan Binding Domain Of
          Human Cd44
          Length = 159

 Score = 25.4 bits (54), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 12/38 (31%), Positives = 18/38 (47%)

Query: 27 GSKQSHVTFPGIQQNGSAKQFTSGVILLTAIVNQFRIY 64
          G  + HV  P I  N       +GV +LT+  +Q+  Y
Sbjct: 61 GFIEGHVVIPRIHPNSICAANNTGVYILTSNTSQYDTY 98


>pdb|1UUH|A Chain A, Hyaluronan Binding Domain Of Human Cd44
 pdb|1UUH|B Chain B, Hyaluronan Binding Domain Of Human Cd44
          Length = 159

 Score = 25.4 bits (54), Expect = 8.8,   Method: Compositional matrix adjust.
 Identities = 12/38 (31%), Positives = 18/38 (47%)

Query: 27 GSKQSHVTFPGIQQNGSAKQFTSGVILLTAIVNQFRIY 64
          G  + HV  P I  N       +GV +LT+  +Q+  Y
Sbjct: 61 GFIEGHVVIPRIHPNSICAANNTGVYILTSNTSQYDTY 98


  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
   0.330    0.140    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,615,598
Number of Sequences: 62578
Number of extensions: 79966
Number of successful extensions: 236
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 225
Number of HSP's gapped (non-prelim): 15
length of query: 94
length of database: 14,973,337
effective HSP length: 61
effective length of query: 33
effective length of database: 11,156,079
effective search space: 368150607
effective search space used: 368150607
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 45 (21.9 bits)