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= 046299
         (138 letters)

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

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



>pdb|3N75|A Chain A, X-Ray Crystal Structure Of The Escherichia Coli Inducible
           Lysine Decarboxylase Ldci
 pdb|3N75|B Chain B, X-Ray Crystal Structure Of The Escherichia Coli Inducible
           Lysine Decarboxylase Ldci
 pdb|3N75|C Chain C, X-Ray Crystal Structure Of The Escherichia Coli Inducible
           Lysine Decarboxylase Ldci
 pdb|3N75|D Chain D, X-Ray Crystal Structure Of The Escherichia Coli Inducible
           Lysine Decarboxylase Ldci
 pdb|3N75|E Chain E, X-Ray Crystal Structure Of The Escherichia Coli Inducible
           Lysine Decarboxylase Ldci
 pdb|3Q16|A Chain A, Linkage Between The Bacterial Acid Stress And Stringent
           Responses: The Structure Of The Inducible Lysine
           Decarboxylase
 pdb|3Q16|B Chain B, Linkage Between The Bacterial Acid Stress And Stringent
           Responses: The Structure Of The Inducible Lysine
           Decarboxylase
 pdb|3Q16|C Chain C, Linkage Between The Bacterial Acid Stress And Stringent
           Responses: The Structure Of The Inducible Lysine
           Decarboxylase
 pdb|3Q16|D Chain D, Linkage Between The Bacterial Acid Stress And Stringent
           Responses: The Structure Of The Inducible Lysine
           Decarboxylase
 pdb|3Q16|E Chain E, Linkage Between The Bacterial Acid Stress And Stringent
           Responses: The Structure Of The Inducible Lysine
           Decarboxylase
          Length = 715

 Score = 28.5 bits (62), Expect = 1.2,   Method: Composition-based stats.
 Identities = 10/32 (31%), Positives = 17/32 (53%)

Query: 54  SFDLRTFNFSSGWIPPFQLNTIILGSCKMGPG 85
           + D+++ +F S W+P    + I  G C M  G
Sbjct: 321 TLDVKSIHFDSAWVPYTNFSPIYEGKCGMSGG 352


>pdb|2Z80|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
           Binding Of A Tri-Acylated Lipopeptide
 pdb|2Z80|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
           Binding Of A Tri-Acylated Lipopeptide
          Length = 353

 Score = 25.8 bits (55), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 1/34 (2%)

Query: 37  LAGDIITNLSRLAHMDLSFDLRTFNFSSGWIPPF 70
           +  D  ++L  L H+DLS++  + N SS W  P 
Sbjct: 91  IEEDSFSSLGSLEHLDLSYNYLS-NLSSSWFKPL 123


>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced
          By Binding Of A Tri-Acylated Lipopeptide
          Length = 549

 Score = 25.4 bits (54), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 1/34 (2%)

Query: 37 LAGDIITNLSRLAHMDLSFDLRTFNFSSGWIPPF 70
          +  D  ++L  L H+DLS++  + N SS W  P 
Sbjct: 65 IEEDSFSSLGSLEHLDLSYNYLS-NLSSSWFKPL 97


  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
   0.325    0.141    0.444 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,362,754
Number of Sequences: 62578
Number of extensions: 165587
Number of successful extensions: 341
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 340
Number of HSP's gapped (non-prelim): 5
length of query: 138
length of database: 14,973,337
effective HSP length: 89
effective length of query: 49
effective length of database: 9,403,895
effective search space: 460790855
effective search space used: 460790855
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: 46 (22.3 bits)