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= 005571
         (690 letters)

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

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



>pdb|1LE2|A Chain A, Structural Basis For Altered Function In The Common
           Mutants Of Human Apolipoprotein-E
          Length = 144

 Score = 30.4 bits (67), Expect = 3.8,   Method: Composition-based stats.
 Identities = 23/64 (35%), Positives = 36/64 (56%), Gaps = 7/64 (10%)

Query: 324 WELAEARKKDALDRARVRGEQPPAELLAEERGLHSSIEADVRNLLDGKTHKELEALQTKI 383
           WELA  R  D L   +   EQ   ELL+      S +  ++R L+D +T KEL+A ++++
Sbjct: 4   WELALGRFWDYLRWVQTLSEQVQEELLS------SQVTQELRALMD-ETMKELKAYKSEL 56

Query: 384 ELQM 387
           E Q+
Sbjct: 57  EEQL 60


>pdb|2IM9|A Chain A, Crystal Structure Of Protein Lpg0564 From Legionella
           Pneumophila Str. Philadelphia 1, Pfam Duf1460
          Length = 333

 Score = 29.6 bits (65), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 1/27 (3%)

Query: 567 HDKYRPRKPKYFNRVH-TGYEWNKYNQ 592
           H +Y+  K  Y NR H T  +WN YNQ
Sbjct: 120 HTRYKNGKRSYINRNHFTSIDWNNYNQ 146


  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    0.133    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,144,606
Number of Sequences: 62578
Number of extensions: 693457
Number of successful extensions: 1686
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1686
Number of HSP's gapped (non-prelim): 15
length of query: 690
length of database: 14,973,337
effective HSP length: 106
effective length of query: 584
effective length of database: 8,340,069
effective search space: 4870600296
effective search space used: 4870600296
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: 55 (25.8 bits)