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= 011453
         (485 letters)

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

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



>pdb|2ZUY|A Chain A, Crystal Structure Of Exotype Rhamnogalacturonan Lyase Yesx
          Length = 620

 Score = 30.0 bits (66), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 12/48 (25%), Positives = 21/48 (43%)

Query: 375 HLYEYEINKCDACALYRLELKLVDGKKSAKGKLANDSVADLQKQMGRL 422
           H  ++ +   D      + +K  DG    KG +  D  AD + + GR+
Sbjct: 181 HYTQFMVYDLDGDGKAEIAMKTADGTTDGKGHIIGDEQADFRNEQGRI 228


>pdb|1WWK|A Chain A, Crystal Structure Of Phosphoglycerate Dehydrogenase From
           Pyrococcus Horikoshii Ot3
 pdb|1WWK|B Chain B, Crystal Structure Of Phosphoglycerate Dehydrogenase From
           Pyrococcus Horikoshii Ot3
          Length = 307

 Score = 28.5 bits (62), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 30/116 (25%), Positives = 52/116 (44%), Gaps = 6/116 (5%)

Query: 25  RVDDLQGKFLDLQFARKESRTVDVSL-LEEQVHQMLREWKAELHEPSPASSLQQDGSLGF 83
           R  ++ GKF+DL+   KES  V + + L E  + ++ E + +L +    +++  + S G 
Sbjct: 179 RAKEVNGKFVDLETLLKESDVVTIHVPLVESTYHLINEERLKLMKK---TAILINTSRGP 235

Query: 84  SSDIYRLLQLCEEEDDATSTLTA--PKPEPNDQVLPVADTAVYHEGYGVNQGEQQH 137
             D   L++  +E   A + L     +P P D  L   D  V     G +  E Q 
Sbjct: 236 VVDTNALVKALKEGWIAGAGLDVFEEEPLPKDHPLTKFDNVVLTPHIGASTVEAQE 291


  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
   0.316    0.134    0.412 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,093,852
Number of Sequences: 62578
Number of extensions: 730018
Number of successful extensions: 1510
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1509
Number of HSP's gapped (non-prelim): 2
length of query: 485
length of database: 14,973,337
effective HSP length: 103
effective length of query: 382
effective length of database: 8,527,803
effective search space: 3257620746
effective search space used: 3257620746
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: 53 (25.0 bits)