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= 019120
         (346 letters)

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

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



>pdb|3DEB|A Chain A, Crystal Structure Of Apo Form (Zinc Removed) Of The
           Botulinum Neurotoxin Type C Light Chain
          Length = 450

 Score = 30.0 bits (66), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 10/31 (32%), Positives = 19/31 (61%)

Query: 75  FDFYRGLPKKPSAFLQQTVARFEKYLGEFRQ 105
            D+YR + K+ ++      + F KY+GE++Q
Sbjct: 314 LDYYRSIAKRLNSITTANPSSFNKYIGEYKQ 344


>pdb|2QN0|A Chain A, Structure Of Botulinum Neurotoxin Serotype C1 Light Chain
           Protease
          Length = 430

 Score = 29.6 bits (65), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 10/31 (32%), Positives = 19/31 (61%)

Query: 75  FDFYRGLPKKPSAFLQQTVARFEKYLGEFRQ 105
            D+YR + K+ ++      + F KY+GE++Q
Sbjct: 294 LDYYRSIAKRLNSITTANPSSFNKYIGEYKQ 324


>pdb|2OSZ|A Chain A, Structure Of Nup58/45 Suggests Flexible Nuclear Pore
           Diameter By Intermolecular Sliding
 pdb|2OSZ|B Chain B, Structure Of Nup58/45 Suggests Flexible Nuclear Pore
           Diameter By Intermolecular Sliding
 pdb|2OSZ|C Chain C, Structure Of Nup58/45 Suggests Flexible Nuclear Pore
           Diameter By Intermolecular Sliding
 pdb|2OSZ|D Chain D, Structure Of Nup58/45 Suggests Flexible Nuclear Pore
           Diameter By Intermolecular Sliding
 pdb|3T98|B Chain B, Molecular Architecture Of The Transport Channel Of The
           Nuclear Pore Complex: Nup54NUP58
          Length = 93

 Score = 27.7 bits (60), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 13/87 (14%)

Query: 85  PSAFLQQTVARFEKYLGEFRQWXXXXXXXXXXDPDRNXXXXXXXXXXXXPQVIS----NV 140
           P+ + +  V +FE  L ++RQ           +   N            PQ +S     +
Sbjct: 6   PADYFRVLVQQFEVQLQQYRQ---------QIEELENHLATQANNSHITPQDLSMAMQKI 56

Query: 141 HIFFVHVAAKAESIHQYVETMKTAYLA 167
           +  FV +AA+ +SIH+ V+ +K  YL+
Sbjct: 57  YQTFVALAAQLQSIHENVKVLKEQYLS 83


  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    0.372 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,353,391
Number of Sequences: 62578
Number of extensions: 145216
Number of successful extensions: 331
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 329
Number of HSP's gapped (non-prelim): 3
length of query: 346
length of database: 14,973,337
effective HSP length: 100
effective length of query: 246
effective length of database: 8,715,537
effective search space: 2144022102
effective search space used: 2144022102
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: 52 (24.6 bits)