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= 006131
         (660 letters)

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

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



>pdb|3SQG|A Chain A, Crystal Structure Of A Methyl-Coenzyme M Reductase
           Purified From Black Sea Mats
 pdb|3SQG|D Chain D, Crystal Structure Of A Methyl-Coenzyme M Reductase
           Purified From Black Sea Mats
 pdb|3SQG|G Chain G, Crystal Structure Of A Methyl-Coenzyme M Reductase
           Purified From Black Sea Mats
          Length = 579

 Score = 30.4 bits (67), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 24/124 (19%), Positives = 52/124 (41%), Gaps = 17/124 (13%)

Query: 91  GKNKLGVNKDSSRGILVIPHVASDFRNHSTSIDSHVNEKGFESIYIQGGLNVKPLVIENG 150
           G   LG+N DS+R   + P+        S ++ + V ++     Y+ GG+          
Sbjct: 293 GGMPLGINADSTRSPALFPNDPIRAELESIAVAAMVYDQLXFGTYMSGGVGFTQYASATY 352

Query: 151 NEVVKED--------------GSRVQVNGSGVNLDILKDLNENVETESEASNIEKEAWKL 196
            + + ED              G    + G  +N+DIL+++   +  E++ +  + EA+  
Sbjct: 353 TDNILEDFCYKGCEIGLDYAGGKMASIKGDKLNMDILEEI---IRAENDYALTQYEAYPT 409

Query: 197 LRDA 200
           + ++
Sbjct: 410 VAES 413


>pdb|2G8S|A Chain A, Crystal Structure Of The Soluble Aldose Sugar
           Dehydrogenase (Asd) From Escherichia Coli In The
           Apo-Form
 pdb|2G8S|B Chain B, Crystal Structure Of The Soluble Aldose Sugar
           Dehydrogenase (Asd) From Escherichia Coli In The
           Apo-Form
          Length = 353

 Score = 28.9 bits (63), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 33/71 (46%), Gaps = 10/71 (14%)

Query: 235 PSALAFLLNGEGDIVKNFLLHTLQLQSWEKTVDCYSPGQGLMPASFKVRTVPLDGGDGTL 294
           P ALAFL +  G ++    L   +L+ W+        G+GL      V  V   G  G L
Sbjct: 20  PWALAFLPDNHGXLIT---LRGGELRHWQA-------GKGLSAPLSGVPDVWAHGQGGLL 69

Query: 295 EEVLDPDFGES 305
           + VL PDF +S
Sbjct: 70  DVVLAPDFAQS 80


  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
   0.320    0.137    0.427 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,989,564
Number of Sequences: 62578
Number of extensions: 927302
Number of successful extensions: 1819
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1818
Number of HSP's gapped (non-prelim): 10
length of query: 660
length of database: 14,973,337
effective HSP length: 105
effective length of query: 555
effective length of database: 8,402,647
effective search space: 4663469085
effective search space used: 4663469085
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: 55 (25.8 bits)