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= 036676
         (413 letters)

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

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



>pdb|1QZR|A Chain A, Crystal Structure Of The Atpase Region Of Saccharomyces
           Cerevisiae Topoisomerase Ii Bound To Icrf-187
           (Dexrazoxane)
 pdb|1QZR|B Chain B, Crystal Structure Of The Atpase Region Of Saccharomyces
           Cerevisiae Topoisomerase Ii Bound To Icrf-187
           (Dexrazoxane)
          Length = 418

 Score = 30.0 bits (66), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 13/32 (40%), Positives = 21/32 (65%)

Query: 309 AERLIERIEDFVSGLLLPLYFASSGLKTDVAT 340
            E+L  R++DF S   +PL + +  +KTD+AT
Sbjct: 372 KEQLTTRVKDFGSRCEIPLEYINKIMKTDLAT 403


>pdb|4GFH|F Chain F, Topoisomerase Ii-Dna-Amppnp Complex
          Length = 1099

 Score = 29.6 bits (65), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 13/32 (40%), Positives = 21/32 (65%)

Query: 309 AERLIERIEDFVSGLLLPLYFASSGLKTDVAT 340
            E+L  R++DF S   +PL + +  +KTD+AT
Sbjct: 344 KEQLTTRVKDFGSRCEIPLEYINKIMKTDLAT 375


>pdb|4GFH|A Chain A, Topoisomerase Ii-Dna-Amppnp Complex
          Length = 1103

 Score = 29.6 bits (65), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 13/32 (40%), Positives = 21/32 (65%)

Query: 309 AERLIERIEDFVSGLLLPLYFASSGLKTDVAT 340
            E+L  R++DF S   +PL + +  +KTD+AT
Sbjct: 344 KEQLTTRVKDFGSRCEIPLEYINKIMKTDLAT 375


>pdb|2Y4N|A Chain A, Paak1 In Complex With Phenylacetyl Adenylate
 pdb|2Y4N|B Chain B, Paak1 In Complex With Phenylacetyl Adenylate
          Length = 437

 Score = 28.5 bits (62), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 29/54 (53%), Gaps = 5/54 (9%)

Query: 281 GFMTDLIGIHSIFGAFVFGLT-IPKGGNFAERLIERIEDFVSGLLL--PLYFAS 331
           G  T  +G H  +GA   GLT IP GG   E+ ++ I+DF   +++  P Y  S
Sbjct: 144 GLFTGGLGAH--YGAERAGLTVIPFGGGQTEKQVQLIQDFRPDIIMVTPSYMLS 195


  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
   0.327    0.142    0.424 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,418,290
Number of Sequences: 62578
Number of extensions: 371856
Number of successful extensions: 878
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 875
Number of HSP's gapped (non-prelim): 4
length of query: 413
length of database: 14,973,337
effective HSP length: 101
effective length of query: 312
effective length of database: 8,652,959
effective search space: 2699723208
effective search space used: 2699723208
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (25.0 bits)