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= 006902
         (626 letters)

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

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



>pdb|1OID|A Chain A, 5'-nucleotidase (e. Coli) With An Engineered Disulfide
           Bridge (s228c, P513c)
 pdb|1OID|B Chain B, 5'-nucleotidase (e. Coli) With An Engineered Disulfide
           Bridge (s228c, P513c)
 pdb|1OIE|A Chain A, 5'-Nucleotidase (E. Coli) With An Engineered Disulfide
           Bridge (S228c, P513c)
          Length = 532

 Score = 29.3 bits (64), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 27/49 (55%)

Query: 496 KLKDSTFLVFAPNLKSLTLFDCGAMEEIISVGKIAETPEMMGHISPFEN 544
           ++K   + +   NLK    ++ G  E ++   +IAE  +M+  +SPF+N
Sbjct: 281 EMKMVNYQLIPVNLKKKVTWEDGKSERVLYTPEIAENQQMISLLSPFQN 329


>pdb|1OI8|A Chain A, 5'-Nucleotidase (E. Coli) With An Engineered Disulfide
           Bridge (P90c, L424c)
 pdb|1OI8|B Chain B, 5'-Nucleotidase (E. Coli) With An Engineered Disulfide
           Bridge (P90c, L424c)
          Length = 532

 Score = 29.3 bits (64), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 27/49 (55%)

Query: 496 KLKDSTFLVFAPNLKSLTLFDCGAMEEIISVGKIAETPEMMGHISPFEN 544
           ++K   + +   NLK    ++ G  E ++   +IAE  +M+  +SPF+N
Sbjct: 281 EMKMVNYQLIPVNLKKKVTWEDGKSERVLYTPEIAENQQMISLLSPFQN 329


>pdb|1HO5|A Chain A, 5'-Nucleotidase (E. Coli) In Complex With Adenosine And
           Phosphate
 pdb|1HO5|B Chain B, 5'-Nucleotidase (E. Coli) In Complex With Adenosine And
           Phosphate
 pdb|1HPU|A Chain A, 5'-Nucleotidase (Closed Form), Complex With Ampcp
 pdb|1HPU|B Chain B, 5'-Nucleotidase (Closed Form), Complex With Ampcp
 pdb|1HPU|C Chain C, 5'-Nucleotidase (Closed Form), Complex With Ampcp
 pdb|1HPU|D Chain D, 5'-Nucleotidase (Closed Form), Complex With Ampcp
          Length = 525

 Score = 29.3 bits (64), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 27/49 (55%)

Query: 496 KLKDSTFLVFAPNLKSLTLFDCGAMEEIISVGKIAETPEMMGHISPFEN 544
           ++K   + +   NLK    ++ G  E ++   +IAE  +M+  +SPF+N
Sbjct: 281 EMKMVNYQLIPVNLKKKVTWEDGKSERVLYTPEIAENQQMISLLSPFQN 329


>pdb|2USH|A Chain A, 5'-Nucleotidase From E. Coli
 pdb|2USH|B Chain B, 5'-Nucleotidase From E. Coli
 pdb|1USH|A Chain A, 5'-Nucleotidase From E. Coli
          Length = 550

 Score = 29.3 bits (64), Expect = 7.3,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 27/49 (55%)

Query: 496 KLKDSTFLVFAPNLKSLTLFDCGAMEEIISVGKIAETPEMMGHISPFEN 544
           ++K   + +   NLK    ++ G  E ++   +IAE  +M+  +SPF+N
Sbjct: 306 EMKMVNYQLIPVNLKKKVTWEDGKSERVLYTPEIAENQQMISLLSPFQN 354


  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    0.137    0.410 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,169,579
Number of Sequences: 62578
Number of extensions: 666232
Number of successful extensions: 1438
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1433
Number of HSP's gapped (non-prelim): 7
length of query: 626
length of database: 14,973,337
effective HSP length: 105
effective length of query: 521
effective length of database: 8,402,647
effective search space: 4377779087
effective search space used: 4377779087
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: 54 (25.4 bits)