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= 023401
         (282 letters)

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

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



>pdb|1KQF|B Chain B, Formate Dehydrogenase N From E. Coli
 pdb|1KQG|B Chain B, Formate Dehydrogenase N From E. Coli
          Length = 294

 Score = 32.0 bits (71), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 5/61 (8%)

Query: 222 RERLRIKMPDTYVVHLGNSKELMEVAEDNVAKRVLREHVRESLGVRNEDLLFAIINRHRL 281
           +E   +K   T  +H G  KE++E+AE  VAK  L+    E  GV N +    +   H +
Sbjct: 171 QEPACVKTCPTGAIHFGTKKEMLELAEQRVAK--LKARGYEHAGVYNPE---GVGGTHVM 225

Query: 282 Y 282
           Y
Sbjct: 226 Y 226


>pdb|3GD8|A Chain A, Crystal Structure Of Human Aquaporin 4 At 1.8 And Its
           Mechanism Of Conductance
          Length = 223

 Score = 27.7 bits (60), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 13/38 (34%), Positives = 20/38 (52%)

Query: 92  LLMELAFLLRGVGTKVNWITIQKPSEEDEVIYSLEHKM 129
            L  L F+L  +G+ +NW   +KP   D V+ SL   +
Sbjct: 11  FLAMLIFVLLSLGSTINWGGTEKPLPVDMVLISLCFGL 48


  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    0.136    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,525,543
Number of Sequences: 62578
Number of extensions: 271283
Number of successful extensions: 644
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 642
Number of HSP's gapped (non-prelim): 3
length of query: 282
length of database: 14,973,337
effective HSP length: 98
effective length of query: 184
effective length of database: 8,840,693
effective search space: 1626687512
effective search space used: 1626687512
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: 51 (24.3 bits)