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= 025912
         (246 letters)

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

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



>pdb|3TJ0|A Chain A, Crystal Structure Of Influenza B Virus Nucleoprotein
 pdb|3TJ0|B Chain B, Crystal Structure Of Influenza B Virus Nucleoprotein
          Length = 562

 Score = 29.3 bits (64), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 26/106 (24%), Positives = 47/106 (44%), Gaps = 9/106 (8%)

Query: 50  RIAIQHSDIQSLLQDN--QRLAATHVALKQELSLAEQELRHLSSVAASVKAERDAEVREL 107
           R+ +  S I +       +R  AT VA+K   +L  + +R +    A     RD + +  
Sbjct: 219 RVGLDPSLISTFAGSTIPRRSGATGVAIKGGGTLVAEAIRFIGRAMADRGLLRDIKAKTA 278

Query: 108 YEKSL-----KLDA--ELRVIESMHAELDRVRADIEKLCVIKQEMI 146
           YEK L     K  A  +  +++ +    +   ADIE L ++ + M+
Sbjct: 279 YEKILLNLKNKCSAPQQKALVDQVIGSRNPGIADIEDLTLLARSMV 324


>pdb|1NI2|A Chain A, Structure Of The Active Ferm Domain Of Ezrin
 pdb|1NI2|B Chain B, Structure Of The Active Ferm Domain Of Ezrin
          Length = 296

 Score = 27.3 bits (59), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 12/36 (33%), Positives = 20/36 (55%)

Query: 39  QHSPSLHHLEDRIAIQHSDIQSLLQDNQRLAATHVA 74
           QH  +    EDRI + H++ + +L+DN  L    +A
Sbjct: 159 QHKLTRDQWEDRIQVWHAEHRGMLKDNAMLEYLKIA 194


  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
   0.314    0.128    0.340 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,674,735
Number of Sequences: 62578
Number of extensions: 187501
Number of successful extensions: 719
Number of sequences better than 100.0: 43
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 33
Number of HSP's that attempted gapping in prelim test: 697
Number of HSP's gapped (non-prelim): 53
length of query: 246
length of database: 14,973,337
effective HSP length: 96
effective length of query: 150
effective length of database: 8,965,849
effective search space: 1344877350
effective search space used: 1344877350
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)