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= 039723
         (350 letters)

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

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



>pdb|1SMQ|A Chain A, Structure Of The Ribonucleotide Reductase Rnr2 Homodimer
           From Saccharomyces Cerevisiae
 pdb|1SMQ|B Chain B, Structure Of The Ribonucleotide Reductase Rnr2 Homodimer
           From Saccharomyces Cerevisiae
 pdb|1SMQ|C Chain C, Structure Of The Ribonucleotide Reductase Rnr2 Homodimer
           From Saccharomyces Cerevisiae
 pdb|1SMQ|D Chain D, Structure Of The Ribonucleotide Reductase Rnr2 Homodimer
           From Saccharomyces Cerevisiae
          Length = 399

 Score = 29.3 bits (64), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 7/61 (11%)

Query: 246 MDNWQKLPYISPYE-NATHLLPKSDESDKWAVAIMHEVISLFGAQKVEREKLLCFGNYLG 304
           +D + K P  S +  NA H +P+  E  +WA+  + +  +LFG      E+L+ F +  G
Sbjct: 187 IDTYIKDPKESEFLFNAIHTIPEIGEKAEWALRWIQDADALFG------ERLVAFASIEG 240

Query: 305 I 305
           +
Sbjct: 241 V 241


>pdb|1JK0|A Chain A, Ribonucleotide Reductase Y2y4 Heterodimer
          Length = 419

 Score = 29.3 bits (64), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 7/61 (11%)

Query: 246 MDNWQKLPYISPYE-NATHLLPKSDESDKWAVAIMHEVISLFGAQKVEREKLLCFGNYLG 304
           +D + K P  S +  NA H +P+  E  +WA+  + +  +LFG      E+L+ F +  G
Sbjct: 207 IDTYIKDPKESEFLFNAIHTIPEIGEKAEWALRWIQDADALFG------ERLVAFASIEG 260

Query: 305 I 305
           +
Sbjct: 261 V 261


  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    0.138    0.422 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,141,019
Number of Sequences: 62578
Number of extensions: 402972
Number of successful extensions: 867
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 867
Number of HSP's gapped (non-prelim): 2
length of query: 350
length of database: 14,973,337
effective HSP length: 100
effective length of query: 250
effective length of database: 8,715,537
effective search space: 2178884250
effective search space used: 2178884250
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: 52 (24.6 bits)