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= 005817
         (676 letters)

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

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



>pdb|3NAW|A Chain A, Crystal Structure Of E. Coli O157:h7 Effector Protein Nlel
 pdb|3NAW|B Chain B, Crystal Structure Of E. Coli O157:h7 Effector Protein Nlel
 pdb|3NB2|A Chain A, Crystal Structure Of E. Coli O157:h7 Effector Protein Nlel
 pdb|3NB2|B Chain B, Crystal Structure Of E. Coli O157:h7 Effector Protein Nlel
 pdb|3NB2|C Chain C, Crystal Structure Of E. Coli O157:h7 Effector Protein Nlel
 pdb|3NB2|D Chain D, Crystal Structure Of E. Coli O157:h7 Effector Protein Nlel
          Length = 613

 Score = 32.3 bits (72), Expect = 0.93,   Method: Compositional matrix adjust.
 Identities = 29/84 (34%), Positives = 42/84 (50%), Gaps = 7/84 (8%)

Query: 276 LFMPLDGEVENTDGSQPENMESQKSVDLFREQGLRVL-QTIYSGAVEALPSSFNLRQRFF 334
            F+  DGEV+NT G    N+ S+ S  +F     +   Q   SG ++ L S   L++RF 
Sbjct: 399 FFLYKDGEVQNTFGYSLSNLFSE-SFPIFSIPYHKAFSQNFVSGILDILISDNELKERF- 456

Query: 335 EIVEATNLAQSDDMHDKILSDMQR 358
             +EA N  +SD  +  I  D QR
Sbjct: 457 --IEALNSNKSD--YKMIADDQQR 476


>pdb|3SQV|A Chain A, Crystal Structure Of E. Coli O157:h7 E3 Ubiquitin Ligase,
           Nlel, With A Human E2, Ubch7
 pdb|3SQV|B Chain B, Crystal Structure Of E. Coli O157:h7 E3 Ubiquitin Ligase,
           Nlel, With A Human E2, Ubch7
          Length = 616

 Score = 32.3 bits (72), Expect = 0.96,   Method: Compositional matrix adjust.
 Identities = 29/84 (34%), Positives = 42/84 (50%), Gaps = 7/84 (8%)

Query: 276 LFMPLDGEVENTDGSQPENMESQKSVDLFREQGLRVL-QTIYSGAVEALPSSFNLRQRFF 334
            F+  DGEV+NT G    N+ S+ S  +F     +   Q   SG ++ L S   L++RF 
Sbjct: 402 FFLYKDGEVQNTFGYSLSNLFSE-SFPIFSIPYHKAFSQNFVSGILDILISDNELKERF- 459

Query: 335 EIVEATNLAQSDDMHDKILSDMQR 358
             +EA N  +SD  +  I  D QR
Sbjct: 460 --IEALNSNKSD--YKMIADDQQR 479


  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    0.135    0.395 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,704,841
Number of Sequences: 62578
Number of extensions: 734582
Number of successful extensions: 1976
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 1976
Number of HSP's gapped (non-prelim): 16
length of query: 676
length of database: 14,973,337
effective HSP length: 105
effective length of query: 571
effective length of database: 8,402,647
effective search space: 4797911437
effective search space used: 4797911437
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)