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= 045113
         (821 letters)

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

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



>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
           Receptors Of Jawless Vertebrates By Module Engineering
 pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
           Receptors Of Jawless Vertebrates By Module Engineering
          Length = 272

 Score = 32.0 bits (71), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 24/81 (29%), Positives = 39/81 (48%), Gaps = 1/81 (1%)

Query: 538 ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADE-FWKMKKLRHLNFG 596
           + L+ L YL L    L+SLP   F+ L NL  LD+ ++ +    +  F K+ +L+ L   
Sbjct: 130 DKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLY 189

Query: 597 SITLPAHPGNYCGSLENLNFI 617
              L + P      L +L +I
Sbjct: 190 QNQLKSVPDGVFDRLTSLQYI 210


>pdb|3M19|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
           Vlra.R5.1
 pdb|3M19|B Chain B, Crystal Structure Of Variable Lymphocyte Receptor
           Vlra.R5.1
          Length = 251

 Score = 30.0 bits (66), Expect = 5.1,   Method: Composition-based stats.
 Identities = 16/40 (40%), Positives = 25/40 (62%), Gaps = 1/40 (2%)

Query: 534 PSEI-ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM 572
           PS + + L+ L+ L+LN   L+S+P   F+ L NL TL +
Sbjct: 123 PSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSL 162


>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
           Vlra.R2.1 In Complex With Hen Egg Lysozyme
          Length = 251

 Score = 30.0 bits (66), Expect = 5.1,   Method: Composition-based stats.
 Identities = 16/40 (40%), Positives = 25/40 (62%), Gaps = 1/40 (2%)

Query: 534 PSEI-ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDM 572
           PS + + L+ L+ L+LN   L+S+P   F+ L NL TL +
Sbjct: 123 PSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSL 162


>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
           Receptors Of Jawless Vertebrates By Module Engineering
          Length = 279

 Score = 30.0 bits (66), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 27/93 (29%), Positives = 43/93 (46%), Gaps = 4/93 (4%)

Query: 538 ENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTADE-FWKMKKLRHLNFG 596
           + L+ L YL L    L+SLP   F+ L NL  LD+  + +    +  F K+ +L+ L+  
Sbjct: 130 DKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLKQLSLN 189

Query: 597 SITLPAHPGNYCGSLENLNFISAL---YPCCCT 626
              L + P      L +L  I  L   + C C+
Sbjct: 190 DNQLKSVPDGVFDRLTSLTHIWLLNNPWDCACS 222


>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
           Receptors A29
          Length = 270

 Score = 29.6 bits (65), Expect = 7.3,   Method: Compositional matrix adjust.
 Identities = 24/85 (28%), Positives = 39/85 (45%), Gaps = 1/85 (1%)

Query: 534 PSEIENLSLLRYLKLNIPSLKSLPLSFFNYLLNLYTLDMPFSYIDHTAD-EFWKMKKLRH 592
           P   ++L+ L YL L    L+SLP   F+ L +L  L +  + +    +  F K+ +L+ 
Sbjct: 126 PRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKT 185

Query: 593 LNFGSITLPAHPGNYCGSLENLNFI 617
           L   +  L   P     SLE L  +
Sbjct: 186 LKLDNNQLKRVPEGAFDSLEKLKML 210


  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
   0.322    0.138    0.430 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,201,065
Number of Sequences: 62578
Number of extensions: 927436
Number of successful extensions: 1669
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1666
Number of HSP's gapped (non-prelim): 7
length of query: 821
length of database: 14,973,337
effective HSP length: 107
effective length of query: 714
effective length of database: 8,277,491
effective search space: 5910128574
effective search space used: 5910128574
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (26.2 bits)