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= 035243
         (69 letters)

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

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



>pdb|1GCW|A Chain A, Co Form Hemoglobin From Mustelus Griseus
 pdb|1GCW|C Chain C, Co Form Hemoglobin From Mustelus Griseus
 pdb|1GCV|A Chain A, Deoxy Form Hemoglobin From Mustelus Griseus
 pdb|1GCV|C Chain C, Deoxy Form Hemoglobin From Mustelus Griseus
          Length = 140

 Score = 28.9 bits (63), Expect = 0.73,   Method: Compositional matrix adjust.
 Identities = 9/27 (33%), Positives = 16/27 (59%)

Query: 21 LLIQVPGRNRFFEFGNFQTSGASILVH 47
          L +  PG   +FE+ ++  +GA + VH
Sbjct: 32 LFVTHPGSKSYFEYKDYSAAGAKVQVH 58


>pdb|3HMK|A Chain A, Crystal Structure Of Serine Racemase
 pdb|3HMK|B Chain B, Crystal Structure Of Serine Racemase
 pdb|3L6C|A Chain A, X-Ray Crystal Structure Of Rat Serine Racemase In
          Complex Wi Malonate A Potent Inhibitor
 pdb|3L6C|B Chain B, X-Ray Crystal Structure Of Rat Serine Racemase In
          Complex Wi Malonate A Potent Inhibitor
          Length = 339

 Score = 26.6 bits (57), Expect = 3.7,   Method: Composition-based stats.
 Identities = 11/27 (40%), Positives = 18/27 (66%)

Query: 16 LLSPGLLIQVPGRNRFFEFGNFQTSGA 42
          +L+  +L Q+ GRN FF+   FQ +G+
Sbjct: 28 VLTSSILNQIAGRNLFFKCELFQKTGS 54


  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
   0.336    0.153    0.489 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,963,530
Number of Sequences: 62578
Number of extensions: 61871
Number of successful extensions: 130
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: 128
Number of HSP's gapped (non-prelim): 2
length of query: 69
length of database: 14,973,337
effective HSP length: 39
effective length of query: 30
effective length of database: 12,532,795
effective search space: 375983850
effective search space used: 375983850
T: 11
A: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 45 (21.9 bits)