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= 038780
         (694 letters)

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

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



>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 = 32.3 bits (72), Expect = 0.89,   Method: Compositional matrix adjust.
 Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 12/50 (24%)

Query: 64  YLDDWIDLFTATTMLTSFPVVACFL------------MHLKIINSELGHF 101
           YLDD IDLF   T ++SF +V+  +             HL+++N + G F
Sbjct: 270 YLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQF 319


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

 Score = 32.3 bits (72), Expect = 0.93,   Method: Compositional matrix adjust.
 Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 12/50 (24%)

Query: 64  YLDDWIDLFTATTMLTSFPVVACFL------------MHLKIINSELGHF 101
           YLDD IDLF   T ++SF +V+  +             HL+++N + G F
Sbjct: 270 YLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQF 319


>pdb|1XDQ|A Chain A, Structural And Biochemical Identification Of A Novel
           Bacterial Oxidoreductase
 pdb|1XDQ|B Chain B, Structural And Biochemical Identification Of A Novel
           Bacterial Oxidoreductase
 pdb|1XDQ|C Chain C, Structural And Biochemical Identification Of A Novel
           Bacterial Oxidoreductase
 pdb|1XDQ|D Chain D, Structural And Biochemical Identification Of A Novel
           Bacterial Oxidoreductase
 pdb|1XDQ|E Chain E, Structural And Biochemical Identification Of A Novel
           Bacterial Oxidoreductase
 pdb|1XDY|A Chain A, Structural And Biochemical Identification Of A Novel
           Bacterial Oxidoreductase, W-Containing Cofactor
 pdb|1XDY|B Chain B, Structural And Biochemical Identification Of A Novel
           Bacterial Oxidoreductase, W-Containing Cofactor
 pdb|1XDY|C Chain C, Structural And Biochemical Identification Of A Novel
           Bacterial Oxidoreductase, W-Containing Cofactor
 pdb|1XDY|D Chain D, Structural And Biochemical Identification Of A Novel
           Bacterial Oxidoreductase, W-Containing Cofactor
 pdb|1XDY|E Chain E, Structural And Biochemical Identification Of A Novel
           Bacterial Oxidoreductase, W-Containing Cofactor
 pdb|1XDY|F Chain F, Structural And Biochemical Identification Of A Novel
           Bacterial Oxidoreductase, W-Containing Cofactor
 pdb|1XDY|G Chain G, Structural And Biochemical Identification Of A Novel
           Bacterial Oxidoreductase, W-Containing Cofactor
 pdb|1XDY|H Chain H, Structural And Biochemical Identification Of A Novel
           Bacterial Oxidoreductase, W-Containing Cofactor
 pdb|1XDY|I Chain I, Structural And Biochemical Identification Of A Novel
           Bacterial Oxidoreductase, W-Containing Cofactor
 pdb|1XDY|J Chain J, Structural And Biochemical Identification Of A Novel
           Bacterial Oxidoreductase, W-Containing Cofactor
          Length = 298

 Score = 29.3 bits (64), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 17/48 (35%), Positives = 24/48 (50%)

Query: 372 LAGIRLLEISHPMKESPLSVYGLYLEPLTGGSTPLLINHQLGQKYSKS 419
           + G+RL E  HP+    + VYG  L P  G    L++  + G K  KS
Sbjct: 161 VEGLRLDEAMHPLTLMTVGVYGKALPPQNGAPVRLIVPWKYGFKGIKS 208


>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 = 29.3 bits (64), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 12/50 (24%)

Query: 64  YLDDWIDLFTATTMLTSFPVVACFL------------MHLKIINSELGHF 101
           YLD  IDLF   T ++SF +V+  +             HL+++N + G F
Sbjct: 294 YLDGIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQF 343


  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
   0.324    0.140    0.417 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,481,012
Number of Sequences: 62578
Number of extensions: 709282
Number of successful extensions: 1499
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1494
Number of HSP's gapped (non-prelim): 7
length of query: 694
length of database: 14,973,337
effective HSP length: 106
effective length of query: 588
effective length of database: 8,340,069
effective search space: 4903960572
effective search space used: 4903960572
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.8 bits)