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= psy17612
         (449 letters)

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

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



>pdb|3DIN|A Chain A, Crystal Structure Of The Protein-Translocation Complex
           Formed By The Secy Channel And The Seca Atpase
 pdb|3DIN|B Chain B, Crystal Structure Of The Protein-Translocation Complex
           Formed By The Secy Channel And The Seca Atpase
          Length = 871

 Score = 30.8 bits (68), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 2/51 (3%)

Query: 142 ILRYLATAVIINRSKR--NALKDLVKVIQQESYTYKDPITEFLEHLYVSFD 190
           ++R+L   +I +  +R    ++ + + +Q  SY  KDPI EF +  Y  FD
Sbjct: 749 VIRFLMLRIIDDHWRRYLEEVEHVKEAVQLRSYGQKDPIVEFKKETYYMFD 799


>pdb|3JUX|A Chain A, Structure Of The Translocation Atpase Seca From Thermotoga
           Maritima
          Length = 822

 Score = 30.8 bits (68), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 2/51 (3%)

Query: 142 ILRYLATAVIINRSKR--NALKDLVKVIQQESYTYKDPITEFLEHLYVSFD 190
           ++R+L   +I +  +R    ++ + + +Q  SY  KDPI EF +  Y  FD
Sbjct: 749 VIRFLMLRIIDDHWRRYLEEVEHVKEAVQLRSYGQKDPIVEFKKETYYMFD 799


>pdb|2ZDI|A Chain A, Crystal Structure Of Prefoldin From Pyrococcus Horikoshii
           Ot3
 pdb|2ZDI|B Chain B, Crystal Structure Of Prefoldin From Pyrococcus Horikoshii
           Ot3
          Length = 117

 Score = 30.8 bits (68), Expect = 1.6,   Method: Composition-based stats.
 Identities = 21/50 (42%), Positives = 28/50 (56%), Gaps = 3/50 (6%)

Query: 280 DAKIDSKLGHVIMGTQPLSPYQQLLEKIDTLSVRSEAL---QALIERKVK 326
           DA+I   +G +I+ T      Q+L EKI+TL VR  AL   +  I  KVK
Sbjct: 52  DAQIYKTVGTLIVKTTKEKAVQELKEKIETLEVRLNALNRQEQKINEKVK 101



 Score = 30.8 bits (68), Expect = 1.6,   Method: Composition-based stats.
 Identities = 21/50 (42%), Positives = 28/50 (56%), Gaps = 3/50 (6%)

Query: 384 DAKIDSKLGHVIMGTQPLSPYQQLLEKIDTLSVRSEAL---QALIERKVK 430
           DA+I   +G +I+ T      Q+L EKI+TL VR  AL   +  I  KVK
Sbjct: 52  DAQIYKTVGTLIVKTTKEKAVQELKEKIETLEVRLNALNRQEQKINEKVK 101


  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
   0.323    0.136    0.401 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,177,184
Number of Sequences: 62578
Number of extensions: 475640
Number of successful extensions: 1470
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1462
Number of HSP's gapped (non-prelim): 12
length of query: 449
length of database: 14,973,337
effective HSP length: 102
effective length of query: 347
effective length of database: 8,590,381
effective search space: 2980862207
effective search space used: 2980862207
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)