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= psy5414
         (62 letters)

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

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



>pdb|1OZN|A Chain A, 1.5a Crystal Structure Of The Nogo Receptor Ligand
          Binding Domain Reveals A Convergent Recognition
          Scaffold Mediating Inhibition Of Myelination
          Length = 285

 Score = 28.9 bits (63), Expect = 0.72,   Method: Composition-based stats.
 Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 1/37 (2%)

Query: 24 EEIALHQEHIEKIEALD-KWCKHLRILLLHSNIISKL 59
          + I LH   I  + A   + C++L IL LHSN+++++
Sbjct: 35 QRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARI 71


>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
          Length = 285

 Score = 28.9 bits (63), Expect = 0.75,   Method: Composition-based stats.
 Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 1/37 (2%)

Query: 24 EEIALHQEHIEKIEALD-KWCKHLRILLLHSNIISKL 59
          + I LH   I  + A   + C++L IL LHSN+++++
Sbjct: 34 QRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARI 70


>pdb|2ZV3|A Chain A, Crystal Structure Of Project Mj0051 From
           Methanocaldococcus Jannaschii Dsm 2661
 pdb|2ZV3|B Chain B, Crystal Structure Of Project Mj0051 From
           Methanocaldococcus Jannaschii Dsm 2661
 pdb|2ZV3|C Chain C, Crystal Structure Of Project Mj0051 From
           Methanocaldococcus Jannaschii Dsm 2661
 pdb|2ZV3|D Chain D, Crystal Structure Of Project Mj0051 From
           Methanocaldococcus Jannaschii Dsm 2661
 pdb|2ZV3|E Chain E, Crystal Structure Of Project Mj0051 From
           Methanocaldococcus Jannaschii Dsm 2661
 pdb|2ZV3|F Chain F, Crystal Structure Of Project Mj0051 From
           Methanocaldococcus Jannaschii Dsm 2661
 pdb|2ZV3|G Chain G, Crystal Structure Of Project Mj0051 From
           Methanocaldococcus Jannaschii Dsm 2661
 pdb|2ZV3|H Chain H, Crystal Structure Of Project Mj0051 From
           Methanocaldococcus Jannaschii Dsm 2661
 pdb|2ZV3|I Chain I, Crystal Structure Of Project Mj0051 From
           Methanocaldococcus Jannaschii Dsm 2661
          Length = 115

 Score = 26.6 bits (57), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 16/37 (43%), Positives = 20/37 (54%), Gaps = 3/37 (8%)

Query: 13  AEHNDKEIGTLEEIALHQEHIEKIEALDKWCKHLRIL 49
           A H   E GTL  +A+  E  EKI   DK   HL++L
Sbjct: 82  AGHTQLEPGTLTAVAIGPEKDEKI---DKITGHLKLL 115


>pdb|2FT3|A Chain A, Crystal Structure Of The Biglycan Dimer Core Protein
 pdb|2FT3|B Chain B, Crystal Structure Of The Biglycan Dimer Core Protein
 pdb|2FT3|C Chain C, Crystal Structure Of The Biglycan Dimer Core Protein
 pdb|2FT3|D Chain D, Crystal Structure Of The Biglycan Dimer Core Protein
 pdb|2FT3|E Chain E, Crystal Structure Of The Biglycan Dimer Core Protein
 pdb|2FT3|F Chain F, Crystal Structure Of The Biglycan Dimer Core Protein
          Length = 332

 Score = 25.0 bits (53), Expect = 9.8,   Method: Composition-based stats.
 Identities = 13/39 (33%), Positives = 23/39 (58%)

Query: 22  TLEEIALHQEHIEKIEALDKWCKHLRILLLHSNIISKLG 60
           TL E+ L    + ++ A     K L+++ LH+N I+K+G
Sbjct: 242 TLRELHLDNNKLSRVPAGLPDLKLLQVVYLHTNNITKVG 280


  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
   0.321    0.137    0.391 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,684,107
Number of Sequences: 62578
Number of extensions: 49441
Number of successful extensions: 171
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 165
Number of HSP's gapped (non-prelim): 9
length of query: 62
length of database: 14,973,337
effective HSP length: 33
effective length of query: 29
effective length of database: 12,908,263
effective search space: 374339627
effective search space used: 374339627
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)