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= psy53
         (78 letters)

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

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



>pdb|3KWV|A Chain A, Structural Basis For The Unfolding Of Anthrax Lethal
           Factor By Protective Antigen Oligomers
 pdb|3KWV|B Chain B, Structural Basis For The Unfolding Of Anthrax Lethal
           Factor By Protective Antigen Oligomers
 pdb|3KWV|D Chain D, Structural Basis For The Unfolding Of Anthrax Lethal
           Factor By Protective Antigen Oligomers
 pdb|3KWV|E Chain E, Structural Basis For The Unfolding Of Anthrax Lethal
           Factor By Protective Antigen Oligomers
          Length = 548

 Score = 26.6 bits (57), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 9/80 (11%)

Query: 5   FNQLRENIVRGQPPDKQASMVQWFENLMNSIERNLLTKNRDRFTQNLSMFRRDI------ 58
           F ++   I +   P+ +  +V  +  +   +E  +L+KN D+ TQN     R I      
Sbjct: 69  FEKVTGRIDKNVSPEARHPLVAAYPIVHVDMENIILSKNEDQSTQNTDSQTRTISKNTST 128

Query: 59  ---NDSLKGPNMNSSCTAND 75
              + S  G N NSS  A D
Sbjct: 129 SRTHTSEPGSNSNSSTVAID 148


>pdb|3HVD|A Chain A, The Protective Antigen Component Of Anthrax Toxin Forms
           Functional Octameric Complexes
 pdb|3HVD|B Chain B, The Protective Antigen Component Of Anthrax Toxin Forms
           Functional Octameric Complexes
 pdb|3HVD|C Chain C, The Protective Antigen Component Of Anthrax Toxin Forms
           Functional Octameric Complexes
 pdb|3HVD|D Chain D, The Protective Antigen Component Of Anthrax Toxin Forms
           Functional Octameric Complexes
 pdb|3HVD|E Chain E, The Protective Antigen Component Of Anthrax Toxin Forms
           Functional Octameric Complexes
 pdb|3HVD|F Chain F, The Protective Antigen Component Of Anthrax Toxin Forms
           Functional Octameric Complexes
 pdb|3HVD|G Chain G, The Protective Antigen Component Of Anthrax Toxin Forms
           Functional Octameric Complexes
 pdb|3HVD|H Chain H, The Protective Antigen Component Of Anthrax Toxin Forms
           Functional Octameric Complexes
          Length = 548

 Score = 26.6 bits (57), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 9/80 (11%)

Query: 5   FNQLRENIVRGQPPDKQASMVQWFENLMNSIERNLLTKNRDRFTQNLSMFRRDI------ 58
           F ++   I +   P+ +  +V  +  +   +E  +L+KN D+ TQN     R I      
Sbjct: 69  FEKVTGRIDKNVSPEARHPLVAAYPIVHVDMENIILSKNEDQSTQNTDSQTRTISKNTST 128

Query: 59  ---NDSLKGPNMNSSCTAND 75
              + S  G N NSS  A D
Sbjct: 129 SRTHTSEPGSNSNSSTVAID 148


>pdb|1KC6|A Chain A, Hincii Bound To Cognate Dna
 pdb|1KC6|B Chain B, Hincii Bound To Cognate Dna
 pdb|1KC6|C Chain C, Hincii Bound To Cognate Dna
 pdb|1KC6|D Chain D, Hincii Bound To Cognate Dna
 pdb|1TW8|A Chain A, Hincii Bound To Ca2+ And Cognate Dna Gtcgac
 pdb|1TW8|B Chain B, Hincii Bound To Ca2+ And Cognate Dna Gtcgac
 pdb|1TW8|C Chain C, Hincii Bound To Ca2+ And Cognate Dna Gtcgac
 pdb|1TW8|D Chain D, Hincii Bound To Ca2+ And Cognate Dna Gtcgac
 pdb|1XHU|A Chain A, Hincii Bound To Cleaved, Cognate Dna Containing Gtcgac
 pdb|1XHU|B Chain B, Hincii Bound To Cleaved, Cognate Dna Containing Gtcgac
 pdb|1XHU|C Chain C, Hincii Bound To Cleaved, Cognate Dna Containing Gtcgac
 pdb|1XHU|D Chain D, Hincii Bound To Cleaved, Cognate Dna Containing Gtcgac
 pdb|1XHV|A Chain A, Hincii Bound To Cleaved Cognate Dna Gtcgac And Mn2+
 pdb|1XHV|B Chain B, Hincii Bound To Cleaved Cognate Dna Gtcgac And Mn2+
 pdb|1XHV|C Chain C, Hincii Bound To Cleaved Cognate Dna Gtcgac And Mn2+
 pdb|1XHV|D Chain D, Hincii Bound To Cleaved Cognate Dna Gtcgac And Mn2+
 pdb|1TX3|A Chain A, Hincii Bound To Cognate Dna
 pdb|1TX3|B Chain B, Hincii Bound To Cognate Dna
 pdb|1TX3|C Chain C, Hincii Bound To Cognate Dna
 pdb|1TX3|D Chain D, Hincii Bound To Cognate Dna
 pdb|2GIE|A Chain A, Hincii Bound To Cognate Dna Gttaac
 pdb|2GIE|B Chain B, Hincii Bound To Cognate Dna Gttaac
 pdb|2GIE|C Chain C, Hincii Bound To Cognate Dna Gttaac
 pdb|2GIE|D Chain D, Hincii Bound To Cognate Dna Gttaac
          Length = 257

 Score = 26.6 bits (57), Expect = 3.9,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 2/57 (3%)

Query: 14  RGQPPDKQASMVQWFENLMNSIERNLLTKNRDRFTQNLSMFRRDINDSLKGPNMNSS 70
           RG+   +  S+   FE   N     LL K  D+F + L +  R+I+ S + PN+ S+
Sbjct: 90  RGKAATENWSIENLFEEKQNDTADILLVK--DQFYELLDVKTRNISKSAQAPNIISA 144


>pdb|3TEY|A Chain A, Crystal Structure Of Anthrax Protective Antigen (Membrane
           Insertion Loop Deleted) Mutant S337c N664c To 2.06-A
           Resolution
          Length = 715

 Score = 26.6 bits (57), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 9/80 (11%)

Query: 5   FNQLRENIVRGQPPDKQASMVQWFENLMNSIERNLLTKNRDRFTQNLSMFRRDI------ 58
           F ++   I +   P+ +  +V  +  +   +E  +L+KN D+ TQN     R I      
Sbjct: 236 FEKVTGRIDKNVSPEARHPLVAAYPIVHVDMENIILSKNEDQSTQNTDSQTRTISKNTST 295

Query: 59  ---NDSLKGPNMNSSCTAND 75
              + S  G N NSS  A D
Sbjct: 296 SRTHTSEPGSNSNSSTVAID 315


>pdb|3TEW|A Chain A, Crystal Structure Of Anthrax Protective Antigen (Membrane
           Insertion Loop Deleted) To 1.45-A Resolution
 pdb|3TEX|A Chain A, Crystal Structure Of Anthrax Protective Antigen (Membrane
           Insertion Loop Deleted) To 1.7-A Resolution
          Length = 715

 Score = 26.6 bits (57), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 9/80 (11%)

Query: 5   FNQLRENIVRGQPPDKQASMVQWFENLMNSIERNLLTKNRDRFTQNLSMFRRDI------ 58
           F ++   I +   P+ +  +V  +  +   +E  +L+KN D+ TQN     R I      
Sbjct: 236 FEKVTGRIDKNVSPEARHPLVAAYPIVHVDMENIILSKNEDQSTQNTDSQTRTISKNTST 295

Query: 59  ---NDSLKGPNMNSSCTAND 75
              + S  G N NSS  A D
Sbjct: 296 SRTHTSEPGSNSNSSTVAID 315


  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
   0.319    0.131    0.382 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,078,733
Number of Sequences: 62578
Number of extensions: 58842
Number of successful extensions: 178
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 166
Number of HSP's gapped (non-prelim): 15
length of query: 78
length of database: 14,973,337
effective HSP length: 47
effective length of query: 31
effective length of database: 12,032,171
effective search space: 372997301
effective search space used: 372997301
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: 45 (21.9 bits)