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= 019865
         (334 letters)

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

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



>pdb|3ZHE|A Chain A, Structure Of The C. Elegans Smg5-smg7 Complex
 pdb|3ZHE|C Chain C, Structure Of The C. Elegans Smg5-smg7 Complex
          Length = 420

 Score = 28.5 bits (62), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 18/68 (26%), Positives = 31/68 (45%), Gaps = 11/68 (16%)

Query: 191 YYIVQAWIVRDYPAELMVTLICSIFVTILSSAVSLVAEKNPNAW--------RLRPDIEL 242
           YY    + +RD    + + ++ ++F   L   +SL  +K P  W        R  PD E+
Sbjct: 65  YYHPFQFFIRDKEKNMAIAVLLTMFCGELQEMLSLPDDKYPALWNMYIGDFHRYMPDEEI 124

Query: 243 ---MAIGY 247
              +A+GY
Sbjct: 125 QKCLAVGY 132


  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
   0.330    0.142    0.429 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,701,205
Number of Sequences: 62578
Number of extensions: 322589
Number of successful extensions: 571
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 571
Number of HSP's gapped (non-prelim): 1
length of query: 334
length of database: 14,973,337
effective HSP length: 99
effective length of query: 235
effective length of database: 8,778,115
effective search space: 2062857025
effective search space used: 2062857025
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 52 (24.6 bits)