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= 021811
         (307 letters)

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

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



>pdb|2E3U|A Chain A, Crystal Structure Analysis Of Dim2p From Pyrococcus
           Horikoshii Ot3
 pdb|3AEV|B Chain B, Crystal Structure Of AEIF2ALPHA-Adim2p-Rrna Complex From
           Pyrococcus Horikoshii Ot3
          Length = 219

 Score = 58.5 bits (140), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 35/145 (24%), Positives = 76/145 (52%), Gaps = 2/145 (1%)

Query: 20  GSMTVSTTRKTRDPYIIVKARDLIRLLSRSVPAPQAIKILDDEMQCDIIKIGNLVRNKER 79
           G + +++T++T DP  + KARD++  + R     +A ++L++    +II + +++   E+
Sbjct: 74  GEVWITSTKETEDPLAVWKARDIVLAIGRGFSPERAFRLLNEGEYLEIINLTDIIIGNEK 133

Query: 80  --FVKRRQHLVGPNSSTLKALEILTGCYILVQGNTVAAMGSFKGLKQVRRIVEDCMQNKM 137
               + R  ++G    T + +E ++G  + V G TVA +G+   ++  +  +E   +   
Sbjct: 134 NALPRVRGRIIGRKGRTRQIIEEMSGASVSVYGKTVAIIGNPIQIEIAKTAIEKLARGSP 193

Query: 138 HPVYHIKILMVKKELEKDPALANEN 162
           H   +  +   KK+LE + A+  EN
Sbjct: 194 HGSVYRYLERRKKDLELEGAMYYEN 218


>pdb|2BL5|A Chain A, Solution Structure Of The Kh-Qua2 Region Of The Xenopus
           Star-Gsg Quaking Protein
          Length = 140

 Score = 29.6 bits (65), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 15/31 (48%), Positives = 19/31 (61%), Gaps = 3/31 (9%)

Query: 80  FVKRRQHLVGPNSSTLKALEILTGCYILVQG 110
           FV R   ++GP   T K LE  TGC I+V+G
Sbjct: 18  FVGR---ILGPRGLTAKQLEAETGCKIMVRG 45


  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
   0.317    0.135    0.384 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,047,346
Number of Sequences: 62578
Number of extensions: 184225
Number of successful extensions: 350
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 346
Number of HSP's gapped (non-prelim): 3
length of query: 307
length of database: 14,973,337
effective HSP length: 99
effective length of query: 208
effective length of database: 8,778,115
effective search space: 1825847920
effective search space used: 1825847920
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: 51 (24.3 bits)