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= psy5425
         (233 letters)

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

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



>pdb|2W0C|L Chain L, X-Ray Structure Of The Entire Lipid-Containing
           Bacteriophage Pm2
          Length = 335

 Score = 27.7 bits (60), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 16/49 (32%), Positives = 21/49 (42%)

Query: 3   FSVIGNTEETLTLIRKSLRSATQEVEGTHFDQNIPHIFVTFGASVSTFF 51
           F +    E T TLI+ +   +T    G  FD N   + VT  A V   F
Sbjct: 238 FYITEGDETTDTLIKYTSYGSTGSHSGYDFDDNTLDVMVTLSAGVHRVF 286


>pdb|2VVE|A Chain A, Crystal Structure Of The Stem And Receptor Binding Domain
           Of The Spike Protein P1 From Bacteriophage Pm2
 pdb|2VVE|B Chain B, Crystal Structure Of The Stem And Receptor Binding Domain
           Of The Spike Protein P1 From Bacteriophage Pm2
          Length = 254

 Score = 27.7 bits (60), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 16/49 (32%), Positives = 21/49 (42%)

Query: 3   FSVIGNTEETLTLIRKSLRSATQEVEGTHFDQNIPHIFVTFGASVSTFF 51
           F +    E T TLI+ +   +T    G  FD N   + VT  A V   F
Sbjct: 157 FYITEGDETTDTLIKYTSYGSTGSHSGYDFDDNTLDVMVTLSAGVHRVF 205


  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    0.133    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,405,597
Number of Sequences: 62578
Number of extensions: 164460
Number of successful extensions: 283
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 281
Number of HSP's gapped (non-prelim): 7
length of query: 233
length of database: 14,973,337
effective HSP length: 96
effective length of query: 137
effective length of database: 8,965,849
effective search space: 1228321313
effective search space used: 1228321313
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)