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= psy2349
         (164 letters)

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

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



>pdb|3RDW|A Chain A, Putative Arsenate Reductase From Yersinia Pestis
 pdb|3RDW|B Chain B, Putative Arsenate Reductase From Yersinia Pestis
          Length = 121

 Score = 28.1 bits (61), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 41/76 (53%), Gaps = 7/76 (9%)

Query: 9   EVLVHLDLKGAPPSLTYLKEILPILAYTGATSLLIEWEDTLPYSLGFDNTNPFRETEIFI 68
           +V+++L+    PPS+  LKE+L  L ++ A  L+   ED L  +L  D+      T+  +
Sbjct: 33  QVVLYLE---TPPSVDKLKELLQQLGFSDARQLMRTKED-LYKTLNLDDRGL---TQDQL 85

Query: 69  ILAAAESNGLASIPLV 84
           + A A++  L   P+V
Sbjct: 86  LQAMADNPKLIERPIV 101


>pdb|3IZR|E Chain E, Localization Of The Large Subunit Ribosomal Proteins Into
           A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
           Ribosome
          Length = 180

 Score = 26.2 bits (56), Expect = 9.3,   Method: Compositional matrix adjust.
 Identities = 13/32 (40%), Positives = 19/32 (59%)

Query: 94  LKVKEFAKMRQNFNDTRFICPNARSSLDLVFK 125
           LKVKE+  +R+NF+DT       +  +DL  K
Sbjct: 86  LKVKEYELLRRNFSDTGCFGFGIQEHIDLGMK 117


  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
   0.324    0.141    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,712,056
Number of Sequences: 62578
Number of extensions: 178833
Number of successful extensions: 328
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 326
Number of HSP's gapped (non-prelim): 4
length of query: 164
length of database: 14,973,337
effective HSP length: 91
effective length of query: 73
effective length of database: 9,278,739
effective search space: 677347947
effective search space used: 677347947
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 47 (22.7 bits)