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= psy3766
         (470 letters)

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

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



>pdb|2ISB|A Chain A, Crystal Structure Of Fumarase Of Fum-1 (Np_069927.1) From
           Archaeoglobus Fulgidus At 1.66 A Resolution
          Length = 192

 Score = 73.9 bits (180), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 58/169 (34%), Positives = 89/169 (52%), Gaps = 4/169 (2%)

Query: 286 LTKKEVSSWRSGEILLLNGKILTGRDAAHNRIQYMLSKGEKIPVNFNNRVIYYVGPINPV 345
           L K ++   + G+++ + G+I T RD AH R      +G+++P +F+  V+Y+ GP+   
Sbjct: 23  LVKDQILKLKVGDVVYITGEIFTARDEAHARALEWXEEGKELPFSFDKGVVYHCGPLVKK 82

Query: 346 RNEV-IGPAGPTTASRMDHFTNLILEKIGLIAMIGKAERSDXXXXXXXXXXXAYLVAVGG 404
            +E  +  AGPTT++R + FT  ILEK+    +IGK   S+           AY    GG
Sbjct: 83  NDEWRVVSAGPTTSARXNPFTPKILEKVECXGIIGKGGXSE-EVVEAXRGKAAYFAFTGG 141

Query: 405 AAYLXXXXXXXXXXXCFEDLGM-EAIYEFNVENM-PVTVAIDSLGKSIH 451
           A  L            +EDLG  EA++   VE   P  VAID+ G S++
Sbjct: 142 AGALAAXSIKKVKGVVWEDLGXPEAVWLLEVERFGPCIVAIDAHGNSLY 190


  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
   0.318    0.136    0.402 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,379,454
Number of Sequences: 62578
Number of extensions: 539605
Number of successful extensions: 1179
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1177
Number of HSP's gapped (non-prelim): 1
length of query: 470
length of database: 14,973,337
effective HSP length: 102
effective length of query: 368
effective length of database: 8,590,381
effective search space: 3161260208
effective search space used: 3161260208
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)