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= 029809
         (187 letters)

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

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



>pdb|2VDC|A Chain A, The 9.5 A Resolution Structure Of Glutamate Synthase From
            Cryo-Electron Microscopy And Its Oligomerization Behavior
            In Solution: Functional Implications.
 pdb|2VDC|B Chain B, The 9.5 A Resolution Structure Of Glutamate Synthase From
            Cryo-Electron Microscopy And Its Oligomerization Behavior
            In Solution: Functional Implications.
 pdb|2VDC|C Chain C, The 9.5 A Resolution Structure Of Glutamate Synthase From
            Cryo-Electron Microscopy And Its Oligomerization Behavior
            In Solution: Functional Implications.
 pdb|2VDC|D Chain D, The 9.5 A Resolution Structure Of Glutamate Synthase From
            Cryo-Electron Microscopy And Its Oligomerization Behavior
            In Solution: Functional Implications.
 pdb|2VDC|E Chain E, The 9.5 A Resolution Structure Of Glutamate Synthase From
            Cryo-Electron Microscopy And Its Oligomerization Behavior
            In Solution: Functional Implications.
 pdb|2VDC|F Chain F, The 9.5 A Resolution Structure Of Glutamate Synthase From
            Cryo-Electron Microscopy And Its Oligomerization Behavior
            In Solution: Functional Implications
          Length = 1472

 Score = 27.3 bits (59), Expect = 5.0,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 33/77 (42%), Gaps = 23/77 (29%)

Query: 5    GCRVLRKGCSETCILRSCLQ-------WIDTPEAQGNATLFLA----------------K 41
            GC ++R+  S TC +  C+Q       ++ TPE   N   FLA                +
Sbjct: 1101 GCIMVRQCHSNTCPVGVCVQDDKLRQKFVGTPEKVVNLFTFLAEEVREILAGLGFRSLNE 1160

Query: 42   FFGRSDLLSFIAAVPQH 58
              GR+DLL  ++   +H
Sbjct: 1161 VIGRTDLLHQVSRGAEH 1177


>pdb|1EA0|A Chain A, Alpha Subunit Of A. Brasilense Glutamate Synthase
 pdb|1EA0|B Chain B, Alpha Subunit Of A. Brasilense Glutamate Synthase
          Length = 1479

 Score = 27.3 bits (59), Expect = 5.2,   Method: Composition-based stats.
 Identities = 21/77 (27%), Positives = 33/77 (42%), Gaps = 23/77 (29%)

Query: 5    GCRVLRKGCSETCILRSCLQ-------WIDTPEAQGNATLFLA----------------K 41
            GC ++R+  S TC +  C+Q       ++ TPE   N   FLA                +
Sbjct: 1101 GCIMVRQCHSNTCPVGVCVQDDKLRQKFVGTPEKVVNLFTFLAEEVREILAGLGFRSLNE 1160

Query: 42   FFGRSDLLSFIAAVPQH 58
              GR+DLL  ++   +H
Sbjct: 1161 VIGRTDLLHQVSRGAEH 1177


  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
   0.319    0.135    0.422 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,659,557
Number of Sequences: 62578
Number of extensions: 200573
Number of successful extensions: 399
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: 399
Number of HSP's gapped (non-prelim): 2
length of query: 187
length of database: 14,973,337
effective HSP length: 93
effective length of query: 94
effective length of database: 9,153,583
effective search space: 860436802
effective search space used: 860436802
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)