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= 038129
         (118 letters)

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

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



>pdb|2QQO|A Chain A, Crystal Structure Of The A2b1b2 Domains From Human
          Neuropilin-2
 pdb|2QQO|B Chain B, Crystal Structure Of The A2b1b2 Domains From Human
          Neuropilin-2
          Length = 460

 Score = 27.7 bits (60), Expect = 1.6,   Method: Composition-based stats.
 Identities = 14/41 (34%), Positives = 19/41 (46%)

Query: 13 PSDCIFAPYFPANDPHRFACVHKIYGSSKVGNMLQDLPVEL 53
          P+  I +P FP   PH   C   I    K+  +LQ L  +L
Sbjct: 15 PNGTIESPGFPEKYPHNLDCTFTILAKPKMEIILQFLIFDL 55


>pdb|2QQK|A Chain A, Neuropilin-2 A1a2b1b2 Domains In Complex With A
           Semaphorin-Blocking Fab
 pdb|2QQL|A Chain A, Neuropilin-2 A1a2b1b2 Domains In Complex With A
           Semaphorin-Blocking Fab
          Length = 579

 Score = 27.7 bits (60), Expect = 1.8,   Method: Composition-based stats.
 Identities = 14/41 (34%), Positives = 19/41 (46%)

Query: 13  PSDCIFAPYFPANDPHRFACVHKIYGSSKVGNMLQDLPVEL 53
           P+  I +P FP   PH   C   I    K+  +LQ L  +L
Sbjct: 134 PNGTIESPGFPEKYPHNLDCTFTILAKPKMEIILQFLIFDL 174


>pdb|3EN0|A Chain A, The Structure Of Cyanophycinase
 pdb|3EN0|B Chain B, The Structure Of Cyanophycinase
 pdb|3EN0|C Chain C, The Structure Of Cyanophycinase
          Length = 291

 Score = 25.4 bits (54), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 10/29 (34%), Positives = 17/29 (58%)

Query: 79  MISLLQQQIHNAESQLVKARAEIAVLGSH 107
           ++  ++Q++HN E  L    A  AV+G H
Sbjct: 133 LMDRIRQRVHNGEISLAGTSAGAAVMGHH 161


  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    0.137    0.420 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,638,644
Number of Sequences: 62578
Number of extensions: 66274
Number of successful extensions: 159
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 155
Number of HSP's gapped (non-prelim): 4
length of query: 118
length of database: 14,973,337
effective HSP length: 81
effective length of query: 37
effective length of database: 9,904,519
effective search space: 366467203
effective search space used: 366467203
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)