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= 046814
         (227 letters)

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

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



>pdb|3EWB|X Chain X, Crystal Structure Of N-Terminal Domain Of Putative 2-
           Isopropylmalate Synthase From Listeria Monocytogenes
          Length = 293

 Score = 32.0 bits (71), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 15/50 (30%), Positives = 26/50 (52%)

Query: 171 VTLVGFPLGAPVIFKCLKCLAETGDNAGFVEMVVLLEGPISIKDEKWEDA 220
           V   GFP+ +P  F+C+K +A+   +     +   +EG I   +E  +DA
Sbjct: 43  VIEAGFPISSPGDFECVKAIAKAIKHCSVTGLARCVEGDIDRAEEALKDA 92


>pdb|3IZR|SS Chain s, Localization Of The Large Subunit Ribosomal Proteins Into
           A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
           Ribosome
          Length = 319

 Score = 28.5 bits (62), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 4/75 (5%)

Query: 138 LIDSKRAVAVVRSDKASELLAEVLTKGLQGNRPVTLVGFPLGAPVIFKCLKCLAETGDNA 197
           L+D    V +  +D       + + KGL+G+  + L+G      +I +C+K  A+   N 
Sbjct: 21  LLDEYTKVLIAVADNVGSNQLQEIRKGLRGDS-IVLMG---KNTLIRRCIKVHADNTGNK 76

Query: 198 GFVEMVVLLEGPISI 212
            F+E++ LL G + +
Sbjct: 77  EFLELMPLLVGNVGL 91


  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
   0.321    0.135    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,939,944
Number of Sequences: 62578
Number of extensions: 218066
Number of successful extensions: 383
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 382
Number of HSP's gapped (non-prelim): 4
length of query: 227
length of database: 14,973,337
effective HSP length: 95
effective length of query: 132
effective length of database: 9,028,427
effective search space: 1191752364
effective search space used: 1191752364
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)