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= 038225
         (104 letters)

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

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



>pdb|2LJ9|A Chain A, Partial 3d Structure Of The C-Terminal Part Of The Free
           Arabidopsis Thaliana Cp12-2 In Its Oxidized Form
          Length = 99

 Score = 48.9 bits (115), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 23/56 (41%), Positives = 37/56 (66%), Gaps = 2/56 (3%)

Query: 50  KGTHMREKE--LTEMIEQKVREAKEVCQGDETSVEYKVAWDQVEEVSQAKADLRLK 103
           +G+HM   E  +++++E+ ++EA+E C GD  S E   AWD+VEE+S A +  R K
Sbjct: 17  RGSHMAAPEGGISDVVEKSIKEAQETCAGDPVSGECVAAWDEVEELSAAASHARDK 72


>pdb|3QV1|G Chain G, Crystal Structure Of The Binary Complex Of Photosyntetic
           A4 Glyceraldehyde 3-Phosphate Dehydrogenase (Gapdh) With
           Cp12-2, Both From Arabidopsis Thaliana.
 pdb|3QV1|H Chain H, Crystal Structure Of The Binary Complex Of Photosyntetic
           A4 Glyceraldehyde 3-Phosphate Dehydrogenase (Gapdh) With
           Cp12-2, Both From Arabidopsis Thaliana.
 pdb|3QV1|I Chain I, Crystal Structure Of The Binary Complex Of Photosyntetic
           A4 Glyceraldehyde 3-Phosphate Dehydrogenase (Gapdh) With
           Cp12-2, Both From Arabidopsis Thaliana.
 pdb|3RVD|I Chain I, Crystal Structure Of The Binary Complex, Obtained By
           Soaking, Of Photosyntetic A4 Glyceraldehyde 3-Phosphate
           Dehydrogenase (Gapdh) With Cp12-2, Both From Arabidopsis
           Thaliana.
 pdb|3RVD|J Chain J, Crystal Structure Of The Binary Complex, Obtained By
           Soaking, Of Photosyntetic A4 Glyceraldehyde 3-Phosphate
           Dehydrogenase (Gapdh) With Cp12-2, Both From Arabidopsis
           Thaliana.
 pdb|3RVD|K Chain K, Crystal Structure Of The Binary Complex, Obtained By
           Soaking, Of Photosyntetic A4 Glyceraldehyde 3-Phosphate
           Dehydrogenase (Gapdh) With Cp12-2, Both From Arabidopsis
           Thaliana.
 pdb|3RVD|L Chain L, Crystal Structure Of The Binary Complex, Obtained By
           Soaking, Of Photosyntetic A4 Glyceraldehyde 3-Phosphate
           Dehydrogenase (Gapdh) With Cp12-2, Both From Arabidopsis
           Thaliana.
 pdb|3RVD|M Chain M, Crystal Structure Of The Binary Complex, Obtained By
           Soaking, Of Photosyntetic A4 Glyceraldehyde 3-Phosphate
           Dehydrogenase (Gapdh) With Cp12-2, Both From Arabidopsis
           Thaliana.
 pdb|3RVD|N Chain N, Crystal Structure Of The Binary Complex, Obtained By
           Soaking, Of Photosyntetic A4 Glyceraldehyde 3-Phosphate
           Dehydrogenase (Gapdh) With Cp12-2, Both From Arabidopsis
           Thaliana
          Length = 82

 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 23/55 (41%), Positives = 36/55 (65%), Gaps = 2/55 (3%)

Query: 51  GTHMREKE--LTEMIEQKVREAKEVCQGDETSVEYKVAWDQVEEVSQAKADLRLK 103
           G+HM   E  +++++E+ ++EA+E C GD  S E   AWD+VEE+S A +  R K
Sbjct: 1   GSHMAAPEGGISDVVEKSIKEAQETCAGDPVSGECVAAWDEVEELSAAASHARDK 55


>pdb|2NYK|A Chain A, Crystal Structure Of M157 From Mouse Cytomegalovirus
          Length = 285

 Score = 26.2 bits (56), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 1/36 (2%)

Query: 37  ETVKVNVKGMAKFKGTHMREKELTEMIEQKVREAKE 72
           +T K+N++G  KF  +  +E   T MI+  VRE K 
Sbjct: 128 QTGKINIQGSGKFSTSDAKEIG-TYMIKSNVREIKN 162


  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    0.128    0.354 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,586,622
Number of Sequences: 62578
Number of extensions: 82058
Number of successful extensions: 237
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 228
Number of HSP's gapped (non-prelim): 11
length of query: 104
length of database: 14,973,337
effective HSP length: 69
effective length of query: 35
effective length of database: 10,655,455
effective search space: 372940925
effective search space used: 372940925
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: 45 (21.9 bits)