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= 037848
         (643 letters)

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

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



>pdb|2VH5|L Chain L, Crystal Structure Of Hras(G12v) - Anti-Ras Fv (Disulfide
           Free Mutant) Complex
          Length = 104

 Score = 30.0 bits (66), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 3/47 (6%)

Query: 545 SSVSGINGGKVTKSVSCHQSLYPYLLYYCH---SVPKVRVYEADVLD 588
           SS+S   G +VT +V   QS+  YL +Y       PK+ +Y A VL 
Sbjct: 8   SSLSASVGDRVTITVRASQSISSYLNWYQQKPGEAPKLLIYSASVLQ 54


>pdb|1OP8|A Chain A, Crystal Structure Of Human Granzyme A
 pdb|1OP8|B Chain B, Crystal Structure Of Human Granzyme A
 pdb|1OP8|C Chain C, Crystal Structure Of Human Granzyme A
 pdb|1OP8|D Chain D, Crystal Structure Of Human Granzyme A
 pdb|1OP8|E Chain E, Crystal Structure Of Human Granzyme A
 pdb|1OP8|F Chain F, Crystal Structure Of Human Granzyme A
          Length = 234

 Score = 28.9 bits (63), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 21/74 (28%), Positives = 31/74 (41%), Gaps = 4/74 (5%)

Query: 531 TTQNANGSKRRVTISSVSGINGGKVTKSVSCHQSLYPYLLYYCHSVPKVRVYEADVLDVV 590
           T  + N +KR   I     I   + TK +   +  +PY  Y     P  R  +  +L + 
Sbjct: 38  TAAHCNLNKRSQVILGAHSITREEPTKQIMLVKKEFPYPCYD----PATREGDLKLLQLT 93

Query: 591 SNAKINHGVAICHI 604
             AKIN  V I H+
Sbjct: 94  EKAKINKYVTILHL 107


>pdb|1ORF|A Chain A, The Oligomeric Structure Of Human Granzyme A Reveals The
           Molecular Determinants Of Substrate Specificity
          Length = 234

 Score = 28.9 bits (63), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 21/74 (28%), Positives = 31/74 (41%), Gaps = 4/74 (5%)

Query: 531 TTQNANGSKRRVTISSVSGINGGKVTKSVSCHQSLYPYLLYYCHSVPKVRVYEADVLDVV 590
           T  + N +KR   I     I   + TK +   +  +PY  Y     P  R  +  +L + 
Sbjct: 38  TAAHCNLNKRSQVILGAHSITREEPTKQIMLVKKEFPYPCYD----PATREGDLKLLQLT 93

Query: 591 SNAKINHGVAICHI 604
             AKIN  V I H+
Sbjct: 94  EKAKINKYVTILHL 107


  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    0.130    0.383 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,762,689
Number of Sequences: 62578
Number of extensions: 860983
Number of successful extensions: 1479
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1463
Number of HSP's gapped (non-prelim): 26
length of query: 643
length of database: 14,973,337
effective HSP length: 105
effective length of query: 538
effective length of database: 8,402,647
effective search space: 4520624086
effective search space used: 4520624086
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: 55 (25.8 bits)