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= 037533
         (297 letters)

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

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



>pdb|4F1N|A Chain A, Crystal Structure Of Kluyveromyces Polysporus Argonaute
           With A Guide Rna
 pdb|4F1N|B Chain B, Crystal Structure Of Kluyveromyces Polysporus Argonaute
           With A Guide Rna
          Length = 1046

 Score = 28.9 bits (63), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 22/70 (31%), Positives = 35/70 (50%), Gaps = 16/70 (22%)

Query: 187 CDHETEPIKNKTY--LTAYPPKMKVL----------ESVLKGMKTHVTYLNITRLTDYRK 234
           C H+++ I++  Y   TA PP +K L           ++LKG+K +  Y+N +      K
Sbjct: 317 CYHQSKAIRDIRYNPKTAPPPSVKDLNYFVEKNTDISALLKGLKVYRPYINYS----INK 372

Query: 235 DGHPSIYRKQ 244
           DG P   RK+
Sbjct: 373 DGTPKPPRKR 382


>pdb|2Z64|A Chain A, Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Complex
          Length = 599

 Score = 28.5 bits (62), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 3/37 (8%)

Query: 155 VDANVNPMKSMVFFRGYSASHFSGGQWNSGGACDHET 191
           +D + NP+K     + YS S+FS  QW     C+ ET
Sbjct: 32  IDLSFNPLK---ILKSYSFSNFSELQWLDLSRCEIET 65


>pdb|1A87|A Chain A, Colicin N
          Length = 321

 Score = 28.5 bits (62), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 28/119 (23%), Positives = 49/119 (41%), Gaps = 7/119 (5%)

Query: 4   LLRGKRLVF-VGDSLNRNMWESLVCILKNLAKDPKNVYEANGRSHFRGEASYSFIFKDYN 62
           LL+   LV  +GD L   +      + K +A D KN +  N RS+    AS + +  +  
Sbjct: 130 LLKASELVSGMGDKLGEYLGVKYKNVAKEVANDIKNFHGRNIRSYNEAMASLNKVLANPK 189

Query: 63  CSVEFFVSPFLVQEW------EMPEKDGTKKETLRLDLVGRSSDQYKGADIIIFNTGHW 115
             V       +V  W      +M  K G   +  ++  +    ++ +   I  +NTG+W
Sbjct: 190 MKVNKSDKDAIVNAWKQVNAKDMANKIGNLGKAFKVADLAIKVEKIREKSIEGYNTGNW 248


>pdb|3VQ1|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX
 pdb|3VQ1|B Chain B, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX
 pdb|3VQ2|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LPS COMPLEX
 pdb|3VQ2|B Chain B, Crystal Structure Of Mouse Tlr4MD-2LPS COMPLEX
          Length = 606

 Score = 28.5 bits (62), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 3/37 (8%)

Query: 155 VDANVNPMKSMVFFRGYSASHFSGGQWNSGGACDHET 191
           +D + NP+K     + YS S+FS  QW     C+ ET
Sbjct: 37  IDLSFNPLK---ILKSYSFSNFSELQWLDLSRCEIET 70


>pdb|3RKD|L Chain L, Hepatitis E Virus E2s Domain (Genotype I) In Complex With
           A Neutralizing Antibody
 pdb|3RKD|C Chain C, Hepatitis E Virus E2s Domain (Genotype I) In Complex With
           A Neutralizing Antibody
          Length = 214

 Score = 27.3 bits (59), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 3/58 (5%)

Query: 168 FRGYSASHFSGGQWNSGGACDHETEPIKNKTYLTAYPPKMKVLESVLKGMKTHVTYLN 225
           F  Y   HF G  W  GG    E +       ++ +PP  + L S   G  + V +LN
Sbjct: 83  FGSYYCQHFWGNPWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTS---GGASVVCFLN 137


  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
   0.319    0.135    0.430 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,039,409
Number of Sequences: 62578
Number of extensions: 432369
Number of successful extensions: 949
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 948
Number of HSP's gapped (non-prelim): 6
length of query: 297
length of database: 14,973,337
effective HSP length: 98
effective length of query: 199
effective length of database: 8,840,693
effective search space: 1759297907
effective search space used: 1759297907
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: 51 (24.3 bits)