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= 027300
         (225 letters)

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

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



>pdb|2VK5|A Chain A, The Structure Of Clostridium Perfringens Nani Sialidase
           And Its Catalytic Intermediates
 pdb|2VK6|A Chain A, The Structure Of Clostridium Perfringens Nani Sialidase
           And Its Catalytic Intermediates
 pdb|2VK7|A Chain A, The Structure Of Clostridium Perfringens Nani Sialidase
           And Its Catalytic Intermediates
 pdb|2VK7|B Chain B, The Structure Of Clostridium Perfringens Nani Sialidase
           And Its Catalytic Intermediates
          Length = 452

 Score = 28.9 bits (63), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 11/27 (40%), Positives = 15/27 (55%)

Query: 171 INLIFSFTNGVEWDGPYRIKFLVPRAW 197
           INL++S  +G  W  P  I F V + W
Sbjct: 189 INLVYSDDDGKTWSEPQNINFQVKKDW 215


>pdb|2BF6|A Chain A, Atomic Resolution Structure Of The Bacterial Sialidase
           Nani From Clostridium Perfringens In Complex With
           Alpha-Sialic Acid (Neu5ac)
          Length = 449

 Score = 28.9 bits (63), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 11/27 (40%), Positives = 15/27 (55%)

Query: 171 INLIFSFTNGVEWDGPYRIKFLVPRAW 197
           INL++S  +G  W  P  I F V + W
Sbjct: 189 INLVYSDDDGKTWSEPQNINFQVKKDW 215


>pdb|3ME0|A Chain A, Structure Of The E. Coli Chaperone Papd In Complex With
           The Pilin Domain Of The Papgii Adhesin
          Length = 218

 Score = 26.9 bits (58), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 21/45 (46%)

Query: 80  RPSWAMFELGKAPVYWKTMNGLPPMSGEKLKIFYNPYAKKLLPNE 124
           R S   F L + P   +  N L      K+K+FY P A K  PNE
Sbjct: 82  RESLFYFNLREIPPRSEKANVLQIALQTKIKLFYRPAAIKTRPNE 126


>pdb|1N0L|A Chain A, Crystal Structure Of The Papd Chaperone (C-Terminally 6x
           Histidine-Tagged) Bound To The Pape Pilus Subunit (N-
           Terminal-Deleted) From Uropathogenic E. Coli
 pdb|1N0L|C Chain C, Crystal Structure Of The Papd Chaperone (C-Terminally 6x
           Histidine-Tagged) Bound To The Pape Pilus Subunit (N-
           Terminal-Deleted) From Uropathogenic E. Coli
          Length = 224

 Score = 26.9 bits (58), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 21/45 (46%)

Query: 80  RPSWAMFELGKAPVYWKTMNGLPPMSGEKLKIFYNPYAKKLLPNE 124
           R S   F L + P   +  N L      K+K+FY P A K  PNE
Sbjct: 82  RESLFYFNLREIPPRSEKANVLQIALQTKIKLFYRPAAIKTRPNE 126


>pdb|2J7L|A Chain A, E.Coli P Pilus Chaperone Papd In Complex With A Pilus
           Biogenesis Inhibitor, Pilicide 2c
 pdb|3DPA|A Chain A, Crystal Structure Of Chaperone Protein Papd Reveals An
           Immunoglobulin Fold
          Length = 218

 Score = 26.9 bits (58), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 21/45 (46%)

Query: 80  RPSWAMFELGKAPVYWKTMNGLPPMSGEKLKIFYNPYAKKLLPNE 124
           R S   F L + P   +  N L      K+K+FY P A K  PNE
Sbjct: 82  RESLFYFNLREIPPRSEKANVLQIALQTKIKLFYRPAAIKTRPNE 126


  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
   0.320    0.136    0.433 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,674,816
Number of Sequences: 62578
Number of extensions: 281965
Number of successful extensions: 339
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 331
Number of HSP's gapped (non-prelim): 10
length of query: 225
length of database: 14,973,337
effective HSP length: 95
effective length of query: 130
effective length of database: 9,028,427
effective search space: 1173695510
effective search space used: 1173695510
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: 50 (23.9 bits)