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= psy6686
         (131 letters)

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

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



>pdb|2EWF|A Chain A, Crystal Structure Of The Site-specific Dna Nickase
           N.bspd6i
          Length = 610

 Score = 32.7 bits (73), Expect = 0.056,   Method: Composition-based stats.
 Identities = 26/109 (23%), Positives = 47/109 (43%), Gaps = 11/109 (10%)

Query: 5   EKAHKAKFEELIRKYRVRPTALLPFWNVAGFVLGAGSAL-LGP-KGAMACTVAVESVIVD 62
           + +HK+K E  +R  R    A   ++   G  +  G+ L L P K  +   +   S +V 
Sbjct: 226 DSSHKSKIETKMRNARDVADATTRYFRYTGLFVARGNQLVLNPEKSDLIDEIISSSKVVK 285

Query: 63  HYN--EQLRALMSDPA-------ANRELMDVIHKFRDEEQEHHDTGLEH 102
           +Y   E+      +P+          +L+D+ H+ RDE     +  +EH
Sbjct: 286 NYTRVEEFHEYYGNPSLPQFSFETKEQLLDLAHRIRDENTRLAEQLVEH 334


>pdb|2YHB|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
           Domains
          Length = 437

 Score = 26.9 bits (58), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 18/74 (24%), Positives = 30/74 (40%), Gaps = 15/74 (20%)

Query: 60  IVDHYNEQLRALMSDPAANRELMDVIHKFRDEEQEHHDTGLEHGAEQAPFYKLMTD---V 116
             D +  +L    S+PA NR L + I  FRD            G  +  F  ++ D   +
Sbjct: 214 FTDKFKTRLELWRSNPANNRSLPENILIFRD------------GVSEGQFQMVIKDELPL 261

Query: 117 IKVGCKVAIGVAKV 130
           ++  CK+     K+
Sbjct: 262 VRAACKLVYPAGKL 275


>pdb|2YHA|A Chain A, Crystal Structure Of The N. Crassa Qde-2 Ago Mid-Piwi
           Domains
          Length = 388

 Score = 26.9 bits (58), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 18/74 (24%), Positives = 30/74 (40%), Gaps = 15/74 (20%)

Query: 60  IVDHYNEQLRALMSDPAANRELMDVIHKFRDEEQEHHDTGLEHGAEQAPFYKLMTD---V 116
             D +  +L    S+PA NR L + I  FRD            G  +  F  ++ D   +
Sbjct: 214 FTDKFKTRLELWRSNPANNRSLPENILIFRD------------GVSEGQFQMVIKDELPL 261

Query: 117 IKVGCKVAIGVAKV 130
           ++  CK+     K+
Sbjct: 262 VRAACKLVYPAGKL 275


  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
   0.321    0.135    0.407 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,952,998
Number of Sequences: 62578
Number of extensions: 140971
Number of successful extensions: 407
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 403
Number of HSP's gapped (non-prelim): 8
length of query: 131
length of database: 14,973,337
effective HSP length: 88
effective length of query: 43
effective length of database: 9,466,473
effective search space: 407058339
effective search space used: 407058339
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 46 (22.3 bits)