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= 023336
(283 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 = 28.1 bits (61), Expect = 5.5, 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 = 28.1 bits (61), Expect = 5.5, 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 = 27.7 bits (60), Expect = 7.3, 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 = 27.7 bits (60), Expect = 7.3, 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 = 27.7 bits (60), Expect = 7.4, 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|1QPP|A Chain A, Crystal Structures Of Self Capping Papd Chaperone
Homodimers
pdb|1QPP|B Chain B, Crystal Structures Of Self Capping Papd Chaperone
Homodimers
Length = 218
Score = 27.7 bits (60), Expect = 7.6, 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|2WMP|A Chain A, Structure Of The E. Coli Chaperone Papd In Complex With
The Pilin Domain Of The Papgii Adhesin
Length = 224
Score = 27.7 bits (60), Expect = 7.8, 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|1PDK|A Chain A, Papd-Papk Chaperone-Pilus Subunit Complex From E.Coli P
Pilus
pdb|2J2Z|A Chain A, X-Ray Structure Of The Chaperone Papd In Complex With The
Pilus Terminator Subunit Paph At 2.3 Angstrom Resolution
pdb|2UY6|A Chain A, Crystal Structure Of The P Pilus Rod Subunit Papa
pdb|2UY7|A Chain A, Crystal Structure Of The P Pilus Rod Subunit Papa
pdb|2UY7|C Chain C, Crystal Structure Of The P Pilus Rod Subunit Papa
pdb|2UY7|E Chain E, Crystal Structure Of The P Pilus Rod Subunit Papa
pdb|2UY7|G Chain G, Crystal Structure Of The P Pilus Rod Subunit Papa
pdb|2W07|A Chain A, Structural Determinants Of Polymerization Reactivity Of
The P Pilus Adaptor Subunit Papf
pdb|2XG4|A Chain A, E. Coli P Pilus Chaperone-Subunit Complex Papd-Paph Bound
To Pilus Biogenesis Inhibitor, Pilicide 2c
pdb|2XG5|A Chain A, E. Coli P Pilus Chaperone-Subunit Complex Papd-Paph Bound
To Pilus Biogenesis Inhibitor, Pilicide 5d
Length = 218
Score = 27.7 bits (60), Expect = 7.8, 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
0.318 0.138 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,860,582
Number of Sequences: 62578
Number of extensions: 391036
Number of successful extensions: 520
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 512
Number of HSP's gapped (non-prelim): 8
length of query: 283
length of database: 14,973,337
effective HSP length: 98
effective length of query: 185
effective length of database: 8,840,693
effective search space: 1635528205
effective search space used: 1635528205
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)