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= psy4115
         (149 letters)

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

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



>pdb|3FWV|A Chain A, Crystal Structure Of A Redesigned Tpr Protein,
          T-Mod(Vmy), In Complex With Meevf Peptide
 pdb|3FWV|B Chain B, Crystal Structure Of A Redesigned Tpr Protein,
          T-Mod(Vmy), In Complex With Meevf Peptide
          Length = 128

 Score = 25.8 bits (55), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 9/26 (34%), Positives = 15/26 (57%)

Query: 58 YTINQMNVYFQEAESVSCKSYCEGCM 83
          Y +NQ  VYF++ +   C+  CE  +
Sbjct: 40 YIVNQAAVYFEKGDYNKCRELCEKAI 65


>pdb|3BIC|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase
 pdb|3BIC|B Chain B, Crystal Structure Of Human Methylmalonyl-Coa Mutase
 pdb|2XIJ|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
           Complex With Adenosylcobalamin
 pdb|2XIQ|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
           Complex With Adenosylcobalamin And Malonyl-Coa
 pdb|2XIQ|B Chain B, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
           Complex With Adenosylcobalamin And Malonyl-Coa
          Length = 762

 Score = 25.8 bits (55), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 18/52 (34%), Positives = 22/52 (42%), Gaps = 4/52 (7%)

Query: 27  IQRDYTDGTMVRFQTHFPQELEGKIERQVYEYTINQMNVYFQEAESVSCKSY 78
           IQ D     MVR    FP E   KI   ++EYT   M  +     S+S   Y
Sbjct: 207 IQNDILKEFMVRNTYIFPPEPSMKIIADIFEYTAKHMPKF----NSISISGY 254


  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
   0.322    0.133    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,086,072
Number of Sequences: 62578
Number of extensions: 142367
Number of successful extensions: 297
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 292
Number of HSP's gapped (non-prelim): 9
length of query: 149
length of database: 14,973,337
effective HSP length: 90
effective length of query: 59
effective length of database: 9,341,317
effective search space: 551137703
effective search space used: 551137703
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: 47 (22.7 bits)