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= psy8782
         (482 letters)

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

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



>pdb|3HRP|A Chain A, Crystal Structure Of Structural Genomics Protein Of
           Unknown Function (np_812590.1) From Bacteroides
           Thetaiotaomicron Vpi-5482 At 1.70 A Resolution
          Length = 409

 Score = 32.3 bits (72), Expect = 0.58,   Method: Compositional matrix adjust.
 Identities = 33/124 (26%), Positives = 44/124 (35%), Gaps = 18/124 (14%)

Query: 272 HIAYSPLDGTLYISDPESHQILRVKNAMDFSAPDYNVEPAVGSGERCLPGDEAHCGDGAP 331
           ++ Y  +D   Y SD     + ++        PD   E   GS  +    D         
Sbjct: 271 YLIYYFVDSNFYXSDQNLSSVYKI-------TPDGECEWFCGSATQKTVQDGLR------ 317

Query: 332 ARDAKLAYPKGVAVSADNILYFADGTN---IRMVD-RDGIVTTVIGNHMHKSHWKPIPCE 387
             +A  A P G  V  D   Y  DG     +R +D  DG V+TV G     S     P E
Sbjct: 318 -EEALFAQPNGXTVDEDGNFYIVDGFKGYCLRKLDILDGYVSTVAGQVDVASQIDGTPLE 376

Query: 388 GTLN 391
            T N
Sbjct: 377 ATFN 380


  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
   0.321    0.139    0.432 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,543,562
Number of Sequences: 62578
Number of extensions: 689595
Number of successful extensions: 1341
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1337
Number of HSP's gapped (non-prelim): 7
length of query: 482
length of database: 14,973,337
effective HSP length: 103
effective length of query: 379
effective length of database: 8,527,803
effective search space: 3232037337
effective search space used: 3232037337
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: 53 (25.0 bits)