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= 006039
         (663 letters)

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

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



>pdb|1NYP|A Chain A, 4th Lim Domain Of Pinch Protein
 pdb|1U5S|B Chain B, Nmr Structure Of The Complex Between Nck-2 Sh3 Domain
          And Pinch-1 Lim4 Domain
          Length = 66

 Score = 34.7 bits (78), Expect = 0.16,   Method: Composition-based stats.
 Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 2/49 (4%)

Query: 20 GFMGHPMCEFCRTPFYGD--NELYTHMSTEHYTCHICQRQHPGQYEYYK 66
          G MG P+C  CR P  G   N +      EH+ C  C++   G   Y +
Sbjct: 1  GSMGVPICGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKPFLGHRHYER 49


>pdb|1U5E|A Chain A, Crystal Structure Of A N-Terminal Fragment Of Skap-Hom
           Containing Both The Helical Dimerization Domain And The
           Ph Domain
 pdb|1U5E|B Chain B, Crystal Structure Of A N-Terminal Fragment Of Skap-Hom
           Containing Both The Helical Dimerization Domain And The
           Ph Domain
 pdb|2OTX|A Chain A, Crystal Structure Of A N-Terminal Fragment Of Skap-Hom
           Containing Both The Helical Dimerization Domain And The
           Ph Domain
 pdb|2OTX|B Chain B, Crystal Structure Of A N-Terminal Fragment Of Skap-Hom
           Containing Both The Helical Dimerization Domain And The
           Ph Domain
          Length = 211

 Score = 29.3 bits (64), Expect = 7.3,   Method: Composition-based stats.
 Identities = 18/50 (36%), Positives = 22/50 (44%), Gaps = 5/50 (10%)

Query: 185 DHGDAEDIDTLIQPFESLATTDSELASRYLQALGQNSRTAPLEESSFPPL 234
           D GDAED D    PF   A T S  + RY           P + + FPP+
Sbjct: 54  DKGDAEDGDEYDDPFAGPADTISLASERY-----DKDDDGPSDGNQFPPI 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
   0.314    0.130    0.378 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,436,572
Number of Sequences: 62578
Number of extensions: 744928
Number of successful extensions: 1310
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1310
Number of HSP's gapped (non-prelim): 4
length of query: 663
length of database: 14,973,337
effective HSP length: 105
effective length of query: 558
effective length of database: 8,402,647
effective search space: 4688677026
effective search space used: 4688677026
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.8 bits)