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= 045865
         (225 letters)

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

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



>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
           Binding Of A Tri-Acylated Lipopeptide
          Length = 520

 Score = 30.4 bits (67), Expect = 0.77,   Method: Compositional matrix adjust.
 Identities = 20/51 (39%), Positives = 29/51 (56%), Gaps = 7/51 (13%)

Query: 38  YLNASLFTPFQQLESLDLTQNKIAGCVENEGIERLSRLNNLKMLNLSGNSF 88
           YL+ S+F   Q+LE LDL+ NK+     +  +       NLK L+LS N+F
Sbjct: 59  YLDISVFKFNQELEYLDLSHNKLVKISCHPTV-------NLKHLDLSFNAF 102


>pdb|3J0A|A Chain A, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
           An Electron Microscopy Single Particle Reconstruction
 pdb|3J0A|B Chain B, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
           An Electron Microscopy Single Particle Reconstruction
          Length = 844

 Score = 28.9 bits (63), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 34/62 (54%), Gaps = 8/62 (12%)

Query: 25  LDLSYIYSGEYSWYLNASLFTPFQQLESLDLTQNKIAGCVENEGIERLSRLNNLKMLNLS 84
           LDLS+     + + LN+ +F   + L+ L+L  NKI    +    E    L+NL++LNLS
Sbjct: 271 LDLSH----GFVFSLNSRVFETLKDLKVLNLAYNKINKIAD----EAFYGLDNLQVLNLS 322

Query: 85  GN 86
            N
Sbjct: 323 YN 324


>pdb|3CIG|A Chain A, Crystal Structure Of Mouse Tlr3 Ectodomain
 pdb|3CIY|A Chain A, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
           Double-Stranded Rna
 pdb|3CIY|B Chain B, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
           Double-Stranded Rna
          Length = 697

 Score = 26.9 bits (58), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 2/40 (5%)

Query: 39  LNASLFTPFQQLESLDLTQNKIAGCVEN--EGIERLSRLN 76
           ++ S F P + L  LDL+ N IA   E+  EG+E L  L+
Sbjct: 471 ISPSPFRPLRNLTILDLSNNNIANINEDLLEGLENLEILD 510


>pdb|2X3L|A Chain A, Crystal Structure Of The Orn_lys_arg Decarboxylase Family
           Protein Sar0482 From Methicillin-Resistant
           Staphylococcus Aureus
 pdb|2X3L|B Chain B, Crystal Structure Of The Orn_lys_arg Decarboxylase Family
           Protein Sar0482 From Methicillin-Resistant
           Staphylococcus Aureus
          Length = 446

 Score = 26.9 bits (58), Expect = 9.6,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 5/60 (8%)

Query: 27  LSYIYSGEYSWYLNASLFTPFQQLESLDLT-----QNKIAGCVENEGIERLSRLNNLKML 81
           LSY  +   S+ + ASL +  Q  ++ D T     + ++  C+EN+G E L   + LK+L
Sbjct: 238 LSYFQTSSPSYLIMASLESAAQFYKTYDSTLFFAKRAQLIECLENKGFEMLQVDDPLKLL 297


  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    0.137    0.412 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,679,445
Number of Sequences: 62578
Number of extensions: 137563
Number of successful extensions: 376
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 372
Number of HSP's gapped (non-prelim): 19
length of query: 225
length of database: 14,973,337
effective HSP length: 95
effective length of query: 130
effective length of database: 9,028,427
effective search space: 1173695510
effective search space used: 1173695510
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)