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= 026004
         (245 letters)

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

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



>pdb|3POY|A Chain A, Crystal Structure Of The Alpha-Neurexin-1 Ectodomain, Lns
           2-6
          Length = 1019

 Score = 28.1 bits (61), Expect = 5.2,   Method: Composition-based stats.
 Identities = 11/38 (28%), Positives = 19/38 (50%)

Query: 136 RVTCAGELEVRVRFSGFNNTEDEWVNVKTAVRQRSIPL 173
           R+ C         F+G+N  ++EW  V+   R +S+ L
Sbjct: 503 RINCNSSKGPETLFAGYNLNDNEWHTVRVVRRGKSLKL 540


>pdb|3R05|A Chain A, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), With
           Splice Insert Ss3
 pdb|3R05|B Chain B, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), With
           Splice Insert Ss3
          Length = 1254

 Score = 27.7 bits (60), Expect = 6.0,   Method: Composition-based stats.
 Identities = 11/38 (28%), Positives = 19/38 (50%)

Query: 136 RVTCAGELEVRVRFSGFNNTEDEWVNVKTAVRQRSIPL 173
           R+ C         F+G+N  ++EW  V+   R +S+ L
Sbjct: 728 RINCNSSKGPETLFAGYNLNDNEWHTVRVVRRGKSLKL 765


  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
   0.320    0.134    0.413 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,001,272
Number of Sequences: 62578
Number of extensions: 191452
Number of successful extensions: 519
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 516
Number of HSP's gapped (non-prelim): 5
length of query: 245
length of database: 14,973,337
effective HSP length: 96
effective length of query: 149
effective length of database: 8,965,849
effective search space: 1335911501
effective search space used: 1335911501
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: 50 (23.9 bits)