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= 025089
         (258 letters)

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

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



>pdb|3LVH|D Chain D, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
           Light Chain Complex
 pdb|3LVH|E Chain E, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
           Light Chain Complex
 pdb|3LVH|F Chain F, Crystal Structure Of A Clathrin Heavy Chain And Clathrin
           Light Chain Complex
          Length = 205

 Score = 32.0 bits (71), Expect = 0.38,   Method: Compositional matrix adjust.
 Identities = 23/82 (28%), Positives = 40/82 (48%)

Query: 59  ADGGSDGPILPPPSDMVPEEGFALREWRRENAIRLXXXXXXXXXMLNQIIEEAEEYKLEF 118
           A+G +DG      +D + +E  ++R+WR E   RL         M  +  E+A++   E+
Sbjct: 79  ANGPADGYAAIAQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEW 138

Query: 119 YRKSIVTRENNKASNREREKLF 140
            ++     E NK +NR  +K F
Sbjct: 139 NQRQSEQVEKNKINNRIADKAF 160


>pdb|1JEH|A Chain A, Crystal Structure Of Yeast E3, Lipoamide Dehydrogenase
 pdb|1JEH|B Chain B, Crystal Structure Of Yeast E3, Lipoamide Dehydrogenase
 pdb|1V59|A Chain A, Crystal Structure Of Yeast Lipoamide Dehydrogenase
           Complexed With Nad+
 pdb|1V59|B Chain B, Crystal Structure Of Yeast Lipoamide Dehydrogenase
           Complexed With Nad+
          Length = 478

 Score = 28.5 bits (62), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 13/52 (25%), Positives = 25/52 (48%)

Query: 10  VPVAEYTHSFDDTAEQLNSAVDLSDDNNNSSFQSGDDAFASQTSVYGEYADG 61
           + VA +  + DD  +QL   ++L    N  ++  G+ +F  +T +     DG
Sbjct: 82  INVANFQKAKDDAVKQLTGGIELLFKKNKVTYYKGNGSFEDETKIRVTPVDG 133


  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
   0.312    0.130    0.369 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,095,718
Number of Sequences: 62578
Number of extensions: 217587
Number of successful extensions: 479
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 476
Number of HSP's gapped (non-prelim): 11
length of query: 258
length of database: 14,973,337
effective HSP length: 97
effective length of query: 161
effective length of database: 8,903,271
effective search space: 1433426631
effective search space used: 1433426631
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 50 (23.9 bits)