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= psy6924
         (89 letters)

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

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



>pdb|2HYX|A Chain A, Structure Of The C-Terminal Domain Of Dipz From
          Mycobacterium Tuberculosis
 pdb|2HYX|B Chain B, Structure Of The C-Terminal Domain Of Dipz From
          Mycobacterium Tuberculosis
 pdb|2HYX|C Chain C, Structure Of The C-Terminal Domain Of Dipz From
          Mycobacterium Tuberculosis
 pdb|2HYX|D Chain D, Structure Of The C-Terminal Domain Of Dipz From
          Mycobacterium Tuberculosis
          Length = 352

 Score = 38.5 bits (88), Expect = 9e-04,   Method: Composition-based stats.
 Identities = 16/33 (48%), Positives = 24/33 (72%), Gaps = 3/33 (9%)

Query: 29 WMNT--TEPLSLNSHLKNKIVIMDFFTYCCINC 59
          W+NT   +P+ L S L+ K+V++DF+ Y CINC
Sbjct: 66 WLNTPGNKPIDLKS-LRGKVVLIDFWAYSCINC 97


>pdb|4GL8|A Chain A, X-Ray Crystal Structure Of A Periplasmic
           Oligopeptide-Binding ProteinOLIGOPEPTIDE ABC
           TRANSPORTER(OPPAIV) FROM BORRELIA Burgdorferi
 pdb|4GL8|B Chain B, X-Ray Crystal Structure Of A Periplasmic
           Oligopeptide-Binding ProteinOLIGOPEPTIDE ABC
           TRANSPORTER(OPPAIV) FROM BORRELIA Burgdorferi
          Length = 529

 Score = 26.9 bits (58), Expect = 2.7,   Method: Composition-based stats.
 Identities = 14/45 (31%), Positives = 23/45 (51%)

Query: 6   HCSFVPVPLVAIFHGRDFCTKQEWMNTTEPLSLNSHLKNKIVIMD 50
           H +F+PVP+  I       T  E M  + P  L S + N+ V+++
Sbjct: 179 HQTFIPVPMHVIEKYGQRWTDPENMVVSGPFKLKSRVLNEKVVLE 223


>pdb|3HD5|A Chain A, Crystal Structure Of A Thiol:disulfide Interchange
          Protein Dsba From Bordetella Parapertussis
 pdb|3HD5|B Chain B, Crystal Structure Of A Thiol:disulfide Interchange
          Protein Dsba From Bordetella Parapertussis
 pdb|3HD5|C Chain C, Crystal Structure Of A Thiol:disulfide Interchange
          Protein Dsba From Bordetella Parapertussis
          Length = 195

 Score = 26.6 bits (57), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 2/34 (5%)

Query: 27 QEWMNTTEPLSLNSHLKNKIVIMDFFTYCCINCM 60
          Q+++N   P    S    KI +++FF Y C +C 
Sbjct: 10 QQYVNINPPXP--SDTPGKIEVLEFFAYTCPHCA 41


>pdb|3HHV|A Chain A, The Crystal Structure Of The Thioredoxin A2 From
          Sulfolobus Solfataricus
          Length = 110

 Score = 25.4 bits (54), Expect = 9.6,   Method: Compositional matrix adjust.
 Identities = 9/18 (50%), Positives = 13/18 (72%)

Query: 43 KNKIVIMDFFTYCCINCM 60
          KNKIV++DF+   C  C+
Sbjct: 22 KNKIVVVDFWAEWCAPCL 39


  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
   0.331    0.140    0.478 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,322,531
Number of Sequences: 62578
Number of extensions: 66289
Number of successful extensions: 123
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 118
Number of HSP's gapped (non-prelim): 6
length of query: 89
length of database: 14,973,337
effective HSP length: 56
effective length of query: 33
effective length of database: 11,468,969
effective search space: 378475977
effective search space used: 378475977
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 45 (21.9 bits)