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= psy6666
         (175 letters)

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

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



>pdb|3BQU|D Chain D, Crystal Structure Of The 2f5 Fab'-3h6 Fab Complex
          Length = 241

 Score = 29.3 bits (64), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 20/72 (27%), Positives = 29/72 (40%), Gaps = 1/72 (1%)

Query: 3   ESGEQFVAYFLPTAETLDKRKLDQLSNLE-YTDEQEYEYKMAREYNWNVKSKSCKGYEEN 61
            SG  F  YF+   +    + LD +  +  YT    Y  K   +  + V + S   Y + 
Sbjct: 43  ASGYSFTDYFMHWVKQSHGKSLDWIGYINCYTGATNYSQKFKGKATFTVDTSSNTAYMQF 102

Query: 62  YFLIVRDDAVYY 73
             L   D AVYY
Sbjct: 103 NSLTSEDSAVYY 114


>pdb|2ZTN|A Chain A, Hepatitis E Virus Orf2 (Genotype 3)
          Length = 478

 Score = 29.3 bits (64), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 27/105 (25%), Positives = 44/105 (41%), Gaps = 4/105 (3%)

Query: 4   SGEQFVAYFLPTAE-TLDKRKLDQLSNLEYTDEQEYEYKMAREYNWNVKSKSCKGYEENY 62
           +G Q VA  L  ++ TLD R L   + ++   +  Y   +  + ++   S +  GY  NY
Sbjct: 377 TGAQAVARSLDWSKVTLDGRPL---TTIQQYSKTFYVLPLRGKLSFWEASTTKAGYPYNY 433

Query: 63  FLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNA 107
                D  +  N    RV +S     +GA P +   V    P +A
Sbjct: 434 NTTASDQILIENAAGHRVAISTYTTSLGAGPTSISAVGVLAPHSA 478


>pdb|2NVO|A Chain A, Crystal Structure Of Deinococcus Radiodurans Ro (Rsr)
           Protein
          Length = 535

 Score = 28.5 bits (62), Expect = 2.2,   Method: Composition-based stats.
 Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 5/56 (8%)

Query: 63  FLIVRDDAVYYNELETRVRLSKRRQKVGAAPNNTRLVVTHRPLNATEFRIQRLRER 118
           F++  D+  +  ++   V L +  QK+G AP   +L+V    L ATEF I   + R
Sbjct: 460 FVVYTDNETWAGQVHPTVALDQYAQKMGRAP---KLIVVG--LTATEFSIADPQRR 510


  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
   0.315    0.132    0.378 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,794,334
Number of Sequences: 62578
Number of extensions: 129407
Number of successful extensions: 378
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 377
Number of HSP's gapped (non-prelim): 7
length of query: 175
length of database: 14,973,337
effective HSP length: 92
effective length of query: 83
effective length of database: 9,216,161
effective search space: 764941363
effective search space used: 764941363
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: 48 (23.1 bits)