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= 023704
         (278 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 = 28.5 bits (62), Expect = 4.6,   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 = 27.7 bits (60), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 5/49 (10%)

Query: 31  LSTRALPPQHSPSLHHL-----EDRIAIQHSDIQSLLQDNQRLAATHVA 74
           LS+  L PQ     H L     EDRI + H++ + +L+DN  L    +A
Sbjct: 146 LSSERLIPQRVMDQHKLTRDQWEDRIQVWHAEHRGMLKDNAMLEYLKIA 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
   0.313    0.128    0.349 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,834,330
Number of Sequences: 62578
Number of extensions: 217627
Number of successful extensions: 598
Number of sequences better than 100.0: 36
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 578
Number of HSP's gapped (non-prelim): 44
length of query: 278
length of database: 14,973,337
effective HSP length: 98
effective length of query: 180
effective length of database: 8,840,693
effective search space: 1591324740
effective search space used: 1591324740
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.3 bits)