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= psy11848
         (184 letters)

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

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



>pdb|3N1G|C Chain C, Crystal Structure Of Dhhn Bound To Bocfn3
 pdb|3N1G|D Chain D, Crystal Structure Of Dhhn Bound To Bocfn3
 pdb|3N1M|C Chain C, Crystal Structure Of Ihhn Bound To Bocfn3
 pdb|3N1P|C Chain C, Crystal Structure Of Ihhn Bound To Bocfn3
          Length = 111

 Score = 29.3 bits (64), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 9/23 (39%), Positives = 16/23 (69%)

Query: 122 RVSFWVIIECFNQGGHGTFSNLI 144
             S+ + ++CFN+GG   FSN++
Sbjct: 77  ETSYDIKMQCFNEGGESEFSNVM 99


>pdb|3D1M|C Chain C, Crystal Structure Of Sonic Hedgehog Bound To The Third
           Fniii Domain Of Cdo
 pdb|3D1M|D Chain D, Crystal Structure Of Sonic Hedgehog Bound To The Third
           Fniii Domain Of Cdo
 pdb|3N1F|C Chain C, Crystal Structure Of Ihhn Bound To Cdofn3
 pdb|3N1F|D Chain D, Crystal Structure Of Ihhn Bound To Cdofn3
 pdb|3N1Q|C Chain C, Crystal Structure Of Dhhn Bound To Cdofn3
 pdb|3N1Q|D Chain D, Crystal Structure Of Dhhn Bound To Cdofn3
 pdb|3N1Q|F Chain F, Crystal Structure Of Dhhn Bound To Cdofn3
          Length = 102

 Score = 29.3 bits (64), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 9/23 (39%), Positives = 16/23 (69%)

Query: 122 RVSFWVIIECFNQGGHGTFSNLI 144
             S+ + ++CFN+GG   FSN++
Sbjct: 75  ETSYDIKMQCFNEGGESEFSNVM 97


>pdb|1X4Y|A Chain A, Solution Structure Of The 3rd Fibronectin Type Iii Domain
           From Mouse Biregional Cell Adhesion
           Molecule-RelatedDOWN- Regulated Oncogenes (Cdon) Binding
           Protein
          Length = 114

 Score = 28.9 bits (63), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 9/23 (39%), Positives = 16/23 (69%)

Query: 122 RVSFWVIIECFNQGGHGTFSNLI 144
             S+ + ++CFN+GG   FSN++
Sbjct: 79  ETSYDIKMQCFNEGGESEFSNVM 101


  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
   0.328    0.140    0.479 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,892,773
Number of Sequences: 62578
Number of extensions: 227205
Number of successful extensions: 441
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 438
Number of HSP's gapped (non-prelim): 9
length of query: 184
length of database: 14,973,337
effective HSP length: 93
effective length of query: 91
effective length of database: 9,153,583
effective search space: 832976053
effective search space used: 832976053
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 48 (23.1 bits)