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= psy10521
         (66 letters)

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

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



>pdb|2V5R|A Chain A, Structural Basis For Dscam Isoform Specificity
 pdb|2V5R|B Chain B, Structural Basis For Dscam Isoform Specificity
          Length = 391

 Score = 60.5 bits (145), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 26/49 (53%), Positives = 37/49 (75%)

Query: 9   GKYVVLSSGDLYVFNATPNDGYKSYRCRTVNKITGESQASVFQTRLSIT 57
           GKY+VL SG+L++    P DGYKSY+CRT +++TGE++ S  + RL IT
Sbjct: 158 GKYLVLPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVIT 206


>pdb|3DMK|A Chain A, Crystal Structure Of Down Syndrome Cell Adhesion Molecule
           (Dscam) Isoform 1.30.30, N-Terminal Eight Ig Domains
 pdb|3DMK|B Chain B, Crystal Structure Of Down Syndrome Cell Adhesion Molecule
           (Dscam) Isoform 1.30.30, N-Terminal Eight Ig Domains
 pdb|3DMK|C Chain C, Crystal Structure Of Down Syndrome Cell Adhesion Molecule
           (Dscam) Isoform 1.30.30, N-Terminal Eight Ig Domains
          Length = 816

 Score = 59.7 bits (143), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 26/49 (53%), Positives = 37/49 (75%)

Query: 9   GKYVVLSSGDLYVFNATPNDGYKSYRCRTVNKITGESQASVFQTRLSIT 57
           GKY+VL SG+L++    P DGYKSY+CRT +++TGE++ S  + RL IT
Sbjct: 191 GKYLVLPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVIT 239


>pdb|2V5M|A Chain A, Structural Basis For Dscam Isoform Specificity
          Length = 388

 Score = 59.7 bits (143), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 26/49 (53%), Positives = 37/49 (75%)

Query: 9   GKYVVLSSGDLYVFNATPNDGYKSYRCRTVNKITGESQASVFQTRLSIT 57
           GKY+VL SG+L++    P DGYKSY+CRT +++TGE++ S  + RL IT
Sbjct: 156 GKYLVLPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVIT 204


>pdb|2V5S|A Chain A, Structural Basis For Dscam Isoform Specificity
 pdb|2V5S|B Chain B, Structural Basis For Dscam Isoform Specificity
          Length = 394

 Score = 59.3 bits (142), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 26/49 (53%), Positives = 37/49 (75%)

Query: 9   GKYVVLSSGDLYVFNATPNDGYKSYRCRTVNKITGESQASVFQTRLSIT 57
           GKY+VL SG+L++    P DGYKSY+CRT +++TGE++ S  + RL IT
Sbjct: 162 GKYLVLPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVIT 210


>pdb|3AMK|A Chain A, Structure Of The Starch Branching Enzyme I (Bei) From
           Oryza Sativa L
          Length = 702

 Score = 28.5 bits (62), Expect = 1.00,   Method: Composition-based stats.
 Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 1/26 (3%)

Query: 10  KYVVLSSGDL-YVFNATPNDGYKSYR 34
           K +V   GDL +VFN  PN  YK Y+
Sbjct: 599 KVIVFERGDLVFVFNFHPNKTYKGYK 624


>pdb|3AML|A Chain A, Structure Of The Starch Branching Enzyme I (Bei) From
           Oryza Sativa L
          Length = 755

 Score = 28.5 bits (62), Expect = 1.1,   Method: Composition-based stats.
 Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 1/26 (3%)

Query: 10  KYVVLSSGDL-YVFNATPNDGYKSYR 34
           K +V   GDL +VFN  PN  YK Y+
Sbjct: 599 KVIVFERGDLVFVFNFHPNKTYKGYK 624


>pdb|3OQ3|B Chain B, Structural Basis Of Type-I Interferon Sequestration By A
           Poxvirus Decoy Receptor
          Length = 329

 Score = 27.3 bits (59), Expect = 1.9,   Method: Composition-based stats.
 Identities = 10/27 (37%), Positives = 16/27 (59%)

Query: 14  LSSGDLYVFNATPNDGYKSYRCRTVNK 40
           + +GDL++ N T ND ++ Y C    K
Sbjct: 86  VKNGDLWIANYTSNDSHRRYLCTVTTK 112


  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
   0.318    0.133    0.384 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,886,952
Number of Sequences: 62578
Number of extensions: 55059
Number of successful extensions: 126
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 119
Number of HSP's gapped (non-prelim): 9
length of query: 66
length of database: 14,973,337
effective HSP length: 37
effective length of query: 29
effective length of database: 12,657,951
effective search space: 367080579
effective search space used: 367080579
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)