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= 023267
         (285 letters)

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

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



>pdb|1BMV|2 Chain 2, Protein-Rna Interactions In An Icosahedral Virus At 3.0
           Angstroms Resolution
          Length = 374

 Score = 30.0 bits (66), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 12/48 (25%)

Query: 38  LWRFFTGSLDFVDPYKIRRLAILSDPYYKCEDNYFIRVKRRNFINLVD 85
           +WR+F G L F        ++ ++ PY KC  ++FI      F NL D
Sbjct: 238 MWRYFVGDLVF-------EVSKMTSPYIKCTVSFFIA-----FGNLAD 273


>pdb|1PGL|2 Chain 2, Bean Pod Mottle Virus (Bpmv), Middle Component
          Length = 370

 Score = 30.0 bits (66), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 12/48 (25%)

Query: 38  LWRFFTGSLDFVDPYKIRRLAILSDPYYKCEDNYFIRVKRRNFINLVD 85
           +WR+F G L F        ++ ++ PY KC  ++FI      F NL D
Sbjct: 238 MWRYFVGDLVF-------EVSKMTSPYIKCTVSFFIA-----FGNLAD 273


>pdb|1PGW|2 Chain 2, Bean Pod Mottle Virus (Bpmv), Top Component
          Length = 351

 Score = 30.0 bits (66), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 12/48 (25%)

Query: 38  LWRFFTGSLDFVDPYKIRRLAILSDPYYKCEDNYFIRVKRRNFINLVD 85
           +WR+F G L F        ++ ++ PY KC  ++FI      F NL D
Sbjct: 219 MWRYFVGDLVF-------EVSKMTSPYIKCTVSFFIA-----FGNLAD 254


  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
   0.325    0.141    0.418 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,099,811
Number of Sequences: 62578
Number of extensions: 320311
Number of successful extensions: 1005
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1001
Number of HSP's gapped (non-prelim): 7
length of query: 285
length of database: 14,973,337
effective HSP length: 98
effective length of query: 187
effective length of database: 8,840,693
effective search space: 1653209591
effective search space used: 1653209591
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: 51 (24.3 bits)