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= 039928
         (675 letters)

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

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



>pdb|2LM4|A Chain A, Solution Nmr Structure Of Mitochondrial Succinate
          Dehydrogenase Assembly Factor 2 From Saccharomyces
          Cerevisiae, Northeast Structural Genomics Consortium
          Target Yt682a
          Length = 109

 Score = 29.3 bits (64), Expect = 8.0,   Method: Composition-based stats.
 Identities = 20/83 (24%), Positives = 40/83 (48%), Gaps = 4/83 (4%)

Query: 2  KGEGKMMFKSKMKWVGLIGLILSTFSLLVHIFLARFTEDGVSEYQSSVTIFSWRPIFENA 61
          K   +++++S+ + +    L+LS F+     +L +  E+ + EY S +    W   +   
Sbjct: 21 KKRARLIYQSRKRGILETDLLLSGFAAK---YLKKMNEEELEEYDSLLNELDWDIYYWAT 77

Query: 62 EFSKTSPLYRRLWGPVRRLESLH 84
          +  KTSPL  + W   + L+ L 
Sbjct: 78 KNFKTSPLPDK-WANSKLLKQLQ 99


  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    0.413 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,068,999
Number of Sequences: 62578
Number of extensions: 737248
Number of successful extensions: 1488
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1488
Number of HSP's gapped (non-prelim): 1
length of query: 675
length of database: 14,973,337
effective HSP length: 105
effective length of query: 570
effective length of database: 8,402,647
effective search space: 4789508790
effective search space used: 4789508790
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: 55 (25.8 bits)