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= psy10771
         (100 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 = 27.7 bits (60), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 1/37 (2%)

Query: 62 EEIALHQEHIEKIEALD-KWCKHLRILLLHSNIISKL 97
          + 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 = 27.7 bits (60), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 1/37 (2%)

Query: 62 EEIALHQEHIEKIEALD-KWCKHLRILLLHSNIISKL 97
          + 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: 51  AEHNDKEIGTLEEIALHQEHIEKIEALDKWCKHLRIL 87
           A H   E GTL  +A+  E  EKI   DK   HL++L
Sbjct: 82  AGHTQLEPGTLTAVAIGPEKDEKI---DKITGHLKLL 115


>pdb|2VL7|A Chain A, Structure Of S. Tokodaii Xpd4
          Length = 540

 Score = 26.2 bits (56), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 20/40 (50%)

Query: 29  FVKLKKLSLFWTTVSEDLVRKRAEHNDKEIGTLEEIALHQ 68
           F  L    L +  VS+D+VRKR E   K  G  E+  +H 
Sbjct: 453 FESLVLAGLPYPNVSDDMVRKRIERLSKLTGKDEDSIIHD 492


>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 = 25.4 bits (54), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 13/39 (33%), Positives = 23/39 (58%)

Query: 60  TLEEIALHQEHIEKIEALDKWCKHLRILLLHSNIISKLG 98
           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
   0.324    0.138    0.410 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,751,625
Number of Sequences: 62578
Number of extensions: 90667
Number of successful extensions: 337
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 330
Number of HSP's gapped (non-prelim): 25
length of query: 100
length of database: 14,973,337
effective HSP length: 66
effective length of query: 34
effective length of database: 10,843,189
effective search space: 368668426
effective search space used: 368668426
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 45 (21.9 bits)