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= psy11842
         (163 letters)

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

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



>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 = 28.9 bits (63), Expect = 1.5,   Method: Composition-based stats.
 Identities = 35/146 (23%), Positives = 61/146 (41%), Gaps = 16/146 (10%)

Query: 11  QEKVDIVRSEMVEAREYPKLGKVQFILVLIYALSLVAFQCLPRMSSILLEDETVDNWFLM 70
           + K+  +RSE +E      L K+      +   S   FQ + ++ ++LL +  ++     
Sbjct: 154 KNKILALRSEELEFLGNSSLRKLDLSSNPLKEFSPGCFQTIGKLFALLLNNAQLNPHLTE 213

Query: 71  QYQWPVITILVLYLAF----VLKIGPAYMQNRKPMSLKYIMLAYNLFQTLFNAYIVSYIF 126
           +  W +    +  L+     +L    +     K  +L  + L+YN    + N        
Sbjct: 214 KLCWELSNTSIQNLSLANNQLLATSESTFSGLKWTNLTQLDLSYNNLHDVGN-------- 265

Query: 127 SPGSFSYLKPMSLKYIMLAYNLFQTL 152
             GSFSYL   SL+Y+ L YN  Q L
Sbjct: 266 --GSFSYLP--SLRYLSLEYNNIQRL 287


>pdb|1WEK|A Chain A, Crystal Structure Of The Conserved Hypothetical Protein
           Tt1465 From Thermus Thermophilus Hb8
 pdb|1WEK|B Chain B, Crystal Structure Of The Conserved Hypothetical Protein
           Tt1465 From Thermus Thermophilus Hb8
 pdb|1WEK|C Chain C, Crystal Structure Of The Conserved Hypothetical Protein
           Tt1465 From Thermus Thermophilus Hb8
 pdb|1WEK|D Chain D, Crystal Structure Of The Conserved Hypothetical Protein
           Tt1465 From Thermus Thermophilus Hb8
 pdb|1WEK|E Chain E, Crystal Structure Of The Conserved Hypothetical Protein
           Tt1465 From Thermus Thermophilus Hb8
 pdb|1WEK|F Chain F, Crystal Structure Of The Conserved Hypothetical Protein
           Tt1465 From Thermus Thermophilus Hb8
          Length = 217

 Score = 26.2 bits (56), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 4/44 (9%)

Query: 101 MSLKYIMLAYNLFQTLFNAYIVSYIFSPGSFSYLKPMSLKYIML 144
           +SL+Y  +     + LF  Y V ++F PG F  L  +S   ++L
Sbjct: 116 LSLRYFFVR----KVLFVRYAVGFVFLPGGFGTLDELSEVLVLL 155


  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
   0.330    0.142    0.421 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,128,075
Number of Sequences: 62578
Number of extensions: 141013
Number of successful extensions: 358
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 358
Number of HSP's gapped (non-prelim): 3
length of query: 163
length of database: 14,973,337
effective HSP length: 91
effective length of query: 72
effective length of database: 9,278,739
effective search space: 668069208
effective search space used: 668069208
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: 47 (22.7 bits)