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= 042197
         (249 letters)

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

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



>pdb|1OO0|A Chain A, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
 pdb|1RK8|B Chain B, Structure Of The Cytosolic Protein Pym Bound To The Mago-
           Y14 Core Of The Exon Junction Complex
 pdb|2X1G|B Chain B, Crystal Structure Of Importin13 - Mago-Y14 Complex
 pdb|2X1G|D Chain D, Crystal Structure Of Importin13 - Mago-Y14 Complex
          Length = 147

 Score = 28.9 bits (63), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 11/30 (36%), Positives = 17/30 (56%)

Query: 31  VIKKKSTEGFSCFPYIIALLNCLLYTWYAL 60
           V + K  EG  CF Y++  L CL+++   L
Sbjct: 111 VNRSKDPEGLRCFYYLVQDLKCLVFSLIGL 140


>pdb|1HL6|B Chain B, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
           Complex
 pdb|1HL6|D Chain D, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
           Complex
          Length = 149

 Score = 28.5 bits (62), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 11/30 (36%), Positives = 17/30 (56%)

Query: 31  VIKKKSTEGFSCFPYIIALLNCLLYTWYAL 60
           V + K  EG  CF Y++  L CL+++   L
Sbjct: 111 VNRSKDPEGLRCFYYLVQDLKCLVFSLIGL 140


  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    0.142    0.441 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,829,336
Number of Sequences: 62578
Number of extensions: 256969
Number of successful extensions: 793
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 791
Number of HSP's gapped (non-prelim): 4
length of query: 249
length of database: 14,973,337
effective HSP length: 96
effective length of query: 153
effective length of database: 8,965,849
effective search space: 1371774897
effective search space used: 1371774897
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: 50 (23.9 bits)