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= 021864
         (306 letters)

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

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



>pdb|4G8A|A Chain A, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
           And T399i In Complex With Md-2 And Lps
 pdb|4G8A|B Chain B, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
           And T399i In Complex With Md-2 And Lps
          Length = 635

 Score = 29.6 bits (65), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 18/44 (40%), Positives = 27/44 (61%), Gaps = 3/44 (6%)

Query: 73  LQFLKIS--ALSFVFCISV-VFGNVSLRFLPVSFNQAVGATTPF 113
           L+FL +S   LSF  C S   FG +SL++L +SFN  +  ++ F
Sbjct: 373 LEFLDLSRNGLSFKGCCSQSDFGTISLKYLDLSFNGVITMSSNF 416


>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
           Hagfish Vlrb.61
          Length = 570

 Score = 28.9 bits (63), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 18/44 (40%), Positives = 26/44 (59%), Gaps = 3/44 (6%)

Query: 73  LQFLKIS--ALSFVFCISV-VFGNVSLRFLPVSFNQAVGATTPF 113
           L+FL +S   LSF  C S   FG  SL++L +SFN  +  ++ F
Sbjct: 349 LEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNF 392


>pdb|3FXI|A Chain A, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
           Ra Complex
 pdb|3FXI|B Chain B, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
           Ra Complex
          Length = 605

 Score = 28.9 bits (63), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 18/44 (40%), Positives = 26/44 (59%), Gaps = 3/44 (6%)

Query: 73  LQFLKIS--ALSFVFCISV-VFGNVSLRFLPVSFNQAVGATTPF 113
           L+FL +S   LSF  C S   FG  SL++L +SFN  +  ++ F
Sbjct: 349 LEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNF 392


  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
   0.328    0.138    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,379,419
Number of Sequences: 62578
Number of extensions: 251695
Number of successful extensions: 509
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 509
Number of HSP's gapped (non-prelim): 4
length of query: 306
length of database: 14,973,337
effective HSP length: 98
effective length of query: 208
effective length of database: 8,840,693
effective search space: 1838864144
effective search space used: 1838864144
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 51 (24.3 bits)