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= 026171
         (242 letters)

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

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



>pdb|2NLZ|A Chain A, Crystal Structure Of Cephalosporin Acylase From Bacillus
           Halodurans
 pdb|2NLZ|B Chain B, Crystal Structure Of Cephalosporin Acylase From Bacillus
           Halodurans
 pdb|2NLZ|C Chain C, Crystal Structure Of Cephalosporin Acylase From Bacillus
           Halodurans
 pdb|2NLZ|D Chain D, Crystal Structure Of Cephalosporin Acylase From Bacillus
           Halodurans
          Length = 547

 Score = 30.8 bits (68), Expect = 0.65,   Method: Compositional matrix adjust.
 Identities = 24/104 (23%), Positives = 47/104 (45%), Gaps = 10/104 (9%)

Query: 44  VKKANLSATKKERIELPINYDYDGNCGSKAKAYHISEFLSHPSGIQAMLNTSALQSFQFL 103
           + K +L+  + E +E PI+ DY G        Y + E   +  G+ A+   + ++ F+F 
Sbjct: 239 LTKEDLACYRPEWVE-PISIDYRG--------YRVWEIPPNGQGLVALEALNIVKGFEFY 289

Query: 104 DTNTYRCVLPKVQFLNFEAAPVMDLRVTPTDKDCTV-QLLSCKF 146
             +T      +++ +       M     P+D   +V QLLS ++
Sbjct: 290 HKDTVDTYHKQIEAMKLAFVDGMKYVTEPSDMSVSVEQLLSDEY 333


>pdb|3A98|B Chain B, Crystal Structure Of The Complex Of The Interacting
           Regions Of Dock2 And Elmo1
 pdb|3A98|D Chain D, Crystal Structure Of The Complex Of The Interacting
           Regions Of Dock2 And Elmo1
          Length = 203

 Score = 27.3 bits (59), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 21/86 (24%), Positives = 33/86 (38%)

Query: 42  PNVKKANLSATKKERIELPINYDYDGNCGSKAKAYHISEFLSHPSGIQAMLNTSALQSFQ 101
           P+ K+       KE +EL  +  YD NC     A    E+     G+ A+L         
Sbjct: 99  PHXKEKGALKQNKEVLELAFSILYDSNCQLNFIAPDKHEYCIWTDGLNALLGKDXXSDLT 158

Query: 102 FLDTNTYRCVLPKVQFLNFEAAPVMD 127
             D +T      K++ L+ E   + D
Sbjct: 159 RNDLDTLLSXEIKLRLLDLENIQIPD 184


>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 = 27.3 bits (59), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 2/40 (5%)

Query: 125 VMDLRVTPTDKDCTVQLLSCKFEGSD--IVESQNDRFSAF 162
           V + R++  DK C + LL  KF  +D  I + Q ++F  F
Sbjct: 207 VQESRMSAIDKTCLLSLLGAKFMSTDDLIFQVQGNKFFIF 246


  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
   0.318    0.129    0.380 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,983,771
Number of Sequences: 62578
Number of extensions: 209802
Number of successful extensions: 299
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 298
Number of HSP's gapped (non-prelim): 3
length of query: 242
length of database: 14,973,337
effective HSP length: 96
effective length of query: 146
effective length of database: 8,965,849
effective search space: 1309013954
effective search space used: 1309013954
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)